Query psy17890
Match_columns 118
No_of_seqs 98 out of 100
Neff 2.9
Searched_HMMs 46136
Date Fri Aug 16 16:46:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17890.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17890hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF09271 LAG1-DNAbind: LAG1, D 100.0 7.2E-36 1.6E-40 223.1 5.1 73 46-118 1-78 (140)
2 KOG3743|consensus 100.0 3.8E-34 8.1E-39 252.1 6.2 94 24-117 156-249 (622)
3 PF10578 SVS_QK: Seminal vesic 63.8 2.3 5E-05 20.8 0.0 10 56-65 3-12 (12)
4 smart00490 HELICc helicase sup 42.4 38 0.00083 19.9 3.0 10 71-80 58-67 (82)
5 PRK15267 subtilase cytotoxin s 35.7 25 0.00055 27.4 1.7 38 29-67 17-54 (141)
6 PF03808 Glyco_tran_WecB: Glyc 34.5 1.4E+02 0.0031 22.1 5.6 61 50-111 56-116 (172)
7 PF06925 MGDG_synth: Monogalac 33.1 71 0.0015 23.1 3.6 47 29-75 75-123 (169)
8 PF08248 Tryp_FSAP: Tryptophyl 32.2 22 0.00048 17.5 0.6 8 62-69 1-8 (12)
9 PF09936 Methyltrn_RNA_4: SAM- 30.8 44 0.00096 26.9 2.4 58 32-89 91-153 (185)
10 KOG3424|consensus 28.2 41 0.00089 26.0 1.7 26 30-55 8-33 (132)
11 PF12651 RHH_3: Ribbon-helix-h 25.5 57 0.0012 19.9 1.7 16 27-42 28-43 (44)
12 TIGR01101 V_ATP_synt_F vacuola 25.1 1.6E+02 0.0035 21.6 4.4 46 31-77 48-93 (115)
13 PRK03958 tRNA 2'-O-methylase; 23.8 1.5E+02 0.0033 23.5 4.3 57 32-90 67-124 (176)
14 cd06533 Glyco_transf_WecG_TagA 23.5 2.9E+02 0.0063 20.5 5.6 67 44-111 46-114 (171)
15 COG4469 CoiA Competence protei 23.2 49 0.0011 29.0 1.5 46 40-89 5-55 (342)
16 PF00455 DeoRC: DeoR C termina 22.4 1E+02 0.0023 22.7 3.0 70 31-106 30-102 (161)
17 cd01820 PAF_acetylesterase_lik 21.7 76 0.0016 23.4 2.1 24 66-90 5-28 (214)
18 PF14925 HPHLAWLY: Domain of u 21.1 39 0.00085 31.8 0.6 16 61-76 22-37 (640)
No 1
>PF09271 LAG1-DNAbind: LAG1, DNA binding; InterPro: IPR015351 This domain is found in various eukaryotic hypothetical proteins and in the DNA-binding protein LAG-1. It adopts a beta sandwich structure, with nine strands in two beta-sheets, in a Greek-key topology, and allow for DNA binding []. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2FO1_A 3IAG_C 3BRG_C 3NBN_A 2F8X_C 3V79_C.
Probab=100.00 E-value=7.2e-36 Score=223.13 Aligned_cols=73 Identities=67% Similarity=1.253 Sum_probs=55.3
Q ss_pred EEEEEehhhhhhhhcCcccccCCCcEEEEecCCchhhHHHHHhhcc--ccccceeEEEEeecCCcc---ccccccCCC
Q psy17890 46 VIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLLREGE--SEQAAQLCAFIGIGNSDQ---DMQQLDLNN 118 (118)
Q Consensus 46 ~i~ilhakvaQKSYG~EkRf~cPPP~V~l~G~~w~~~~eq~~~~g~--~e~~~q~cafiGIgss~q---e~QqL~l~n 118 (118)
||+||||||||||||+|||||||||||||+|++|+.+++++...+. +++++++|+|||||++++ |+|+|+|++
T Consensus 1 Tv~i~hakVAQKSYG~EKRF~CPPP~v~L~G~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~ 78 (140)
T PF09271_consen 1 TVIILHAKVAQKSYGNEKRFFCPPPCVYLSGPGWKIKQQQLQDNGICDSEQGSEPCAFIGIGSSSQSQSEMQQLNLDE 78 (140)
T ss_dssp EEEEEEESEEE-B-TT-----SS--EEEEESTHHHHHHHHHHHTT---STTTCSEEEEEECSTSSS-----EEE--TT
T ss_pred CEEEEEhhHhhhhhcccccccCCCCeEEEECCCcCccccccccccccccccCCcceEEEeeCCCCccchhhhhccccc
Confidence 7999999999999999999999999999999999999999988665 788999999999999887 999999975
No 2
>KOG3743|consensus
Probab=100.00 E-value=3.8e-34 Score=252.12 Aligned_cols=94 Identities=47% Similarity=0.895 Sum_probs=90.9
Q ss_pred CCCcchhhHHHHHHHHhcCCCeEEEEEehhhhhhhhcCcccccCCCcEEEEecCCchhhHHHHHhhccccccceeEEEEe
Q psy17890 24 RNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLLREGESEQAAQLCAFIG 103 (118)
Q Consensus 24 ~~e~~~Ltr~~m~~yL~~~~~~~i~ilhakvaQKSYG~EkRf~cPPP~V~l~G~~w~~~~eq~~~~g~~e~~~q~cafiG 103 (118)
..++..++|..++++.+.++++||.|+||||||||||||||||||||||||+|++|+.++.|+.+++++|+++++|+|||
T Consensus 156 ~~q~~ti~r~~~~~~~k~~~l~tv~i~hasVaQKSYGnEKRylCPPpcvYL~G~gw~~~~~q~~~~~~~e~g~~i~~~~g 235 (622)
T KOG3743|consen 156 NLQEDTIHRIILTRSGKESCLVTVSILHASVAQKSYGNEKRYLCPPPCVYLNGSGWRSIKNQSLQDGAGETGAEISAYIG 235 (622)
T ss_pred ccCcchhhhhHHHHhcCcceeEEEEEeehhhhhhhccccccccCCCCEEEEeccccccccchhhcchhccccceeeeeec
Confidence 36678889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCccccccccCC
Q psy17890 104 IGNSDQDMQQLDLN 117 (118)
Q Consensus 104 Igss~qe~QqL~l~ 117 (118)
||++.||||+|||+
T Consensus 236 ig~ssqe~qqln~~ 249 (622)
T KOG3743|consen 236 IGSSSQEIQQLNFN 249 (622)
T ss_pred ccccchhhhhhccc
Confidence 99999999999997
No 3
>PF10578 SVS_QK: Seminal vesicle protein repeat; InterPro: IPR018942 The rat seminal vesicle contains six major androgen-dependent secretory proteins referred to as SVS I-VI. The SVS I-III proteins appear to be components of the rat copulatory plug, with the SVS II protein being the major component []. This entry represents a repeat that is found in seminal vesical proteins.
Probab=63.78 E-value=2.3 Score=20.82 Aligned_cols=10 Identities=60% Similarity=0.817 Sum_probs=8.1
Q ss_pred hhhhcCcccc
Q psy17890 56 QKSYGNEKRF 65 (118)
Q Consensus 56 QKSYG~EkRf 65 (118)
+||||.||-|
T Consensus 3 ~ksfgQ~Ks~ 12 (12)
T PF10578_consen 3 QKSFGQEKSQ 12 (12)
T ss_pred ccccchhccC
Confidence 5899999864
No 4
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=42.41 E-value=38 Score=19.93 Aligned_cols=10 Identities=20% Similarity=0.707 Sum_probs=4.6
Q ss_pred EEEEecCCch
Q psy17890 71 CIYLYGEGWR 80 (118)
Q Consensus 71 ~V~l~G~~w~ 80 (118)
.|++.+..|.
T Consensus 58 ~vi~~~~~~~ 67 (82)
T smart00490 58 LVIIYDLPWS 67 (82)
T ss_pred EEEEeCCCCC
Confidence 4444444443
No 5
>PRK15267 subtilase cytotoxin subunit B-like protein; Provisional
Probab=35.69 E-value=25 Score=27.43 Aligned_cols=38 Identities=34% Similarity=0.405 Sum_probs=28.6
Q ss_pred hhhHHHHHHHHhcCCCeEEEEEehhhhhhhhcCcccccC
Q psy17890 29 RLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFC 67 (118)
Q Consensus 29 ~Ltr~~m~~yL~~~~~~~i~ilhakvaQKSYG~EkRf~c 67 (118)
..+-.+|.+|=.-..+.+|-=||--+- +|=|.|++|||
T Consensus 17 sv~~a~m~dy~~y~S~vvIn~f~~G~~-~s~gk~~~yFC 54 (141)
T PRK15267 17 SVCYAAMADYDTYVSNVQINNLSYGVY-TSGGKETQFFC 54 (141)
T ss_pred HHHHHHHhhhhhhccceEeeeeeeEEE-ecCCcccceEE
Confidence 356778998887677787777886553 35588999999
No 6
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=34.49 E-value=1.4e+02 Score=22.09 Aligned_cols=61 Identities=15% Similarity=0.195 Sum_probs=29.2
Q ss_pred EehhhhhhhhcCcccccCCCcEEEEecCCchhhHHHHHhhccccccceeEEEEeecCCcccc
Q psy17890 50 LHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLLREGESEQAAQLCAFIGIGNSDQDM 111 (118)
Q Consensus 50 lhakvaQKSYG~EkRf~cPPP~V~l~G~~w~~~~eq~~~~g~~e~~~q~cafiGIgss~qe~ 111 (118)
-...++++...+=++-+.---+|-..-.......+........+....++ ++|+|++-||.
T Consensus 56 ~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv-~vglG~PkQE~ 116 (172)
T PF03808_consen 56 GSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDIV-FVGLGAPKQER 116 (172)
T ss_pred CCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCEE-EEECCCCHHHH
Confidence 35566676655555555443333211112221111111222233455554 88999888874
No 7
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=33.13 E-value=71 Score=23.14 Aligned_cols=47 Identities=21% Similarity=0.222 Sum_probs=31.1
Q ss_pred hhhHHHHHHHHhcCCCeEEEEEehhhhhhhhc--CcccccCCCcEEEEe
Q psy17890 29 RLTREAMERYLRDRSDMVIVILHAKVAQKSYG--NEKRFFCPPPCIYLY 75 (118)
Q Consensus 29 ~Ltr~~m~~yL~~~~~~~i~ilhakvaQKSYG--~EkRf~cPPP~V~l~ 75 (118)
.+....+.+||++.+--.|++-|+-.++=.-+ .+++.+-.+|.|.++
T Consensus 75 ~~~~~~l~~~l~~~~PD~IIsThp~~~~~~l~~lk~~~~~~~~p~~tvv 123 (169)
T PF06925_consen 75 RLFARRLIRLLREFQPDLIISTHPFPAQVPLSRLKRRGRLPNIPVVTVV 123 (169)
T ss_pred HHHHHHHHHHHhhcCCCEEEECCcchhhhHHHHHHHhhcccCCcEEEEE
Confidence 34556899999987777899999976555122 344455357776443
No 8
>PF08248 Tryp_FSAP: Tryptophyllin-3 skin active peptide; InterPro: IPR013266 PdT-3 or Tryptophyllin-3 peptide is a subfamily of the family Tryptophyllin and of the superfamily FSAP (Frog Skin Active Peptide). Originally identified in skin extracts of Neotropical leaf frogs, Phyllomedusa sp. This subfamily has an average length of 13 amino acids. The pharmacological activity of the tryptophyllins remains to be established [] but it seems that these peptides possess an action on liver protein synthesis and body weight []. It is thought to possesses insulin-releasing activity [].
Probab=32.17 E-value=22 Score=17.49 Aligned_cols=8 Identities=63% Similarity=1.190 Sum_probs=5.8
Q ss_pred cccccCCC
Q psy17890 62 EKRFFCPP 69 (118)
Q Consensus 62 EkRf~cPP 69 (118)
||.|..||
T Consensus 1 ekpfw~pp 8 (12)
T PF08248_consen 1 EKPFWPPP 8 (12)
T ss_pred CCccCCCC
Confidence 67887665
No 9
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=30.83 E-value=44 Score=26.93 Aligned_cols=58 Identities=26% Similarity=0.481 Sum_probs=28.9
Q ss_pred HHHHHHHHhcCCCe-EEEEEehhhhhh--hhcCccccc--CCCcEEEEecCCchhhHHHHHhh
Q psy17890 32 REAMERYLRDRSDM-VIVILHAKVAQK--SYGNEKRFF--CPPPCIYLYGEGWRLRQEQLLRE 89 (118)
Q Consensus 32 r~~m~~yL~~~~~~-~i~ilhakvaQK--SYG~EkRf~--cPPP~V~l~G~~w~~~~eq~~~~ 89 (118)
.++++..-+..... .|+.-.|+.... ||..-|+.+ ---|++.|.|.||-+.+|-|...
T Consensus 91 e~a~~~I~~~~G~~P~~v~TsAr~~~~~is~~~lr~~l~~~~~P~LllFGTGwGL~~ev~~~~ 153 (185)
T PF09936_consen 91 EEAIEDIEEEEGKRPLLVATSARKYPNTISYAELRRMLEEEDRPVLLLFGTGWGLAPEVMEQC 153 (185)
T ss_dssp HHHHHHHHHHHSS--EEEE--SS--SS-B-HHHHHHHHHH--S-EEEEE--TT---HHHHTT-
T ss_pred HHHHHHHHHHhCCCCEEEEecCcCCCCCcCHHHHHHHHhccCCeEEEEecCCCCCCHHHHHhc
Confidence 34444444433333 444445553333 899999998 88899999999999999988753
No 10
>KOG3424|consensus
Probab=28.16 E-value=41 Score=26.02 Aligned_cols=26 Identities=38% Similarity=0.456 Sum_probs=22.5
Q ss_pred hhHHHHHHHHhcCCCeEEEEEehhhh
Q psy17890 30 LTREAMERYLRDRSDMVIVILHAKVA 55 (118)
Q Consensus 30 Ltr~~m~~yL~~~~~~~i~ilhakva 55 (118)
-||..|.+-|-.|-+++|.+||+--|
T Consensus 8 rtrk~~tNrLL~RKqmvvdvlHPG~a 33 (132)
T KOG3424|consen 8 RTRKFMTNRLLSRKQMVVDVLHPGKA 33 (132)
T ss_pred ehhhhhhhhhhhhhheeEEEecCCCC
Confidence 37888999999999999999998655
No 11
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=25.45 E-value=57 Score=19.88 Aligned_cols=16 Identities=44% Similarity=0.704 Sum_probs=13.4
Q ss_pred cchhhHHHHHHHHhcC
Q psy17890 27 DQRLTREAMERYLRDR 42 (118)
Q Consensus 27 ~~~Ltr~~m~~yL~~~ 42 (118)
...|.++||+.||++.
T Consensus 28 ~S~Ll~eAle~~l~ky 43 (44)
T PF12651_consen 28 KSKLLREALEDYLEKY 43 (44)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 4679999999999864
No 12
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=25.14 E-value=1.6e+02 Score=21.60 Aligned_cols=46 Identities=15% Similarity=0.341 Sum_probs=33.7
Q ss_pred hHHHHHHHHhcCCCeEEEEEehhhhhhhhcCcccccCCCcEEEEecC
Q psy17890 31 TREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGE 77 (118)
Q Consensus 31 tr~~m~~yL~~~~~~~i~ilhakvaQKSYG~EkRf~cPPP~V~l~G~ 77 (118)
.+++++++|. +++..|++++-.+|++-=-.=.++=..-|.|..+.+
T Consensus 48 i~~~~~~~l~-~~digIIlIte~~a~~i~~~I~~~~~~~PaIieIP~ 93 (115)
T TIGR01101 48 IEDCFNRFLK-RDDIAIILINQHIAEMIRHAVDAHTRSIPAVLEIPS 93 (115)
T ss_pred HHHHHHHHhh-cCCeEEEEEcHHHHHHhHHHHHhcCCcCCEEEEECC
Confidence 4778888787 568999999999999832111223368899999986
No 13
>PRK03958 tRNA 2'-O-methylase; Reviewed
Probab=23.75 E-value=1.5e+02 Score=23.54 Aligned_cols=57 Identities=11% Similarity=0.112 Sum_probs=40.5
Q ss_pred HHHHHHHHhcCCCeEEEEEehhhhhhhhcCccccc-CCCcEEEEecCCchhhHHHHHhhc
Q psy17890 32 REAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFF-CPPPCIYLYGEGWRLRQEQLLREG 90 (118)
Q Consensus 32 r~~m~~yL~~~~~~~i~ilhakvaQKSYG~EkRf~-cPPP~V~l~G~~w~~~~eq~~~~g 90 (118)
+++++++= .....+.+++...=.+.+|..-++-+ -.-|.+.|.| +|++..+-+..+.
T Consensus 67 ~~~i~~~k-~~G~vvhLtmyga~~~~~~~~ir~~~~~~~p~LIvvG-g~gvp~evye~aD 124 (176)
T PRK03958 67 KKEIREWK-DGGIVVHLTMYGENIQDVEPEIREAHRKGEPLLIVVG-AEKVPREVYELAD 124 (176)
T ss_pred HHHHHHHH-hCCcEEEEEEecCCccchHHHHHHhhccCCcEEEEEc-CCCCCHHHHhhCC
Confidence 55555554 34556666777666677998887644 2357999999 9999999887644
No 14
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=23.47 E-value=2.9e+02 Score=20.49 Aligned_cols=67 Identities=15% Similarity=0.231 Sum_probs=29.4
Q ss_pred CeEEEEEe--hhhhhhhhcCcccccCCCcEEEEecCCchhhHHHHHhhccccccceeEEEEeecCCcccc
Q psy17890 44 DMVIVILH--AKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLLREGESEQAAQLCAFIGIGNSDQDM 111 (118)
Q Consensus 44 ~~~i~ilh--akvaQKSYG~EkRf~cPPP~V~l~G~~w~~~~eq~~~~g~~e~~~q~cafiGIgss~qe~ 111 (118)
+..|.++= +.++.+...+-++-+.---+|...-.......++.......+..+.++ |+|+|++-||.
T Consensus 46 ~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv-~vglG~PkQE~ 114 (171)
T cd06533 46 GLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGADIL-FVGLGAPKQEL 114 (171)
T ss_pred CCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCCEE-EEECCCCHHHH
Confidence 34444443 345555544444433333333211122222222212222233445544 88888887774
No 15
>COG4469 CoiA Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]
Probab=23.20 E-value=49 Score=29.01 Aligned_cols=46 Identities=24% Similarity=0.333 Sum_probs=34.1
Q ss_pred hcCCCeEEEEEehhhhhhhhcCcccccCCC---cEEEEecC--CchhhHHHHHhh
Q psy17890 40 RDRSDMVIVILHAKVAQKSYGNEKRFFCPP---PCIYLYGE--GWRLRQEQLLRE 89 (118)
Q Consensus 40 ~~~~~~~i~ilhakvaQKSYG~EkRf~cPP---P~V~l~G~--~w~~~~eq~~~~ 89 (118)
+|.|.++|.++-+.+-++- + |||||- |++.=.|. -|+-..++++..
T Consensus 5 ~~~ngq~v~ll~~~~k~~~-~---~ffCPaC~~~l~lK~G~~k~pHFAHk~l~~C 55 (342)
T COG4469 5 KDENGQTVNLLTALQKTQL-Q---RFFCPACGSQLILKQGLIKIPHFAHKSLKAC 55 (342)
T ss_pred ecCCCCEEEehhhHHHhhh-h---ccccCCCCCeeeeecCccccchhhhhhhhhc
Confidence 3567789999999887763 3 899995 77777784 677777777663
No 16
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after Escherichia coli deoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=22.42 E-value=1e+02 Score=22.66 Aligned_cols=70 Identities=21% Similarity=0.262 Sum_probs=44.9
Q ss_pred hHHHHHHHHhcCCCeEEEEEehhhhhhhhcCcccccCCCcEEEEecCCchhhHHHHHhhcccccccee---EEEEeecC
Q psy17890 31 TREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLLREGESEQAAQL---CAFIGIGN 106 (118)
Q Consensus 31 tr~~m~~yL~~~~~~~i~ilhakvaQKSYG~EkRf~cPPP~V~l~G~~w~~~~eq~~~~g~~e~~~q~---cafiGIgs 106 (118)
|-..|-+||.++.+.+|+.-.-.+|+.=-..+ ..-|+++|-.+..+..........+.-.++ .||||.++
T Consensus 30 T~~~la~~L~~~~~ltVvTnsl~ia~~l~~~~------~~~vi~~GG~~~~~~~~~~G~~a~~~l~~~~~d~afi~~~g 102 (161)
T PF00455_consen 30 TTLELAKYLPDKKNLTVVTNSLPIANELSENP------NIEVILLGGEVNPKSLSFVGPIALEALRQFRFDKAFIGADG 102 (161)
T ss_pred HHHHHHHHhhcCCceEEEECCHHHHHHHHhcC------ceEEEEeCCEEEcCCCcEECchHHHHHHhhccceEEecccE
Confidence 67789999999888988888888888755443 557888886665544322221111111111 57888865
No 17
>cd01820 PAF_acetylesterase_like PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate specificity towards PAF, hydrolyzing an acetyl ester at the sn-2 position. PAF-AH also degrades a family of oxidized PAF-like phospholipids with short sn-2 residues. In addition, PAF and PAF-AH are associated with neural migration and mammalian reproduction.
Probab=21.75 E-value=76 Score=23.43 Aligned_cols=24 Identities=21% Similarity=0.246 Sum_probs=14.9
Q ss_pred cCCCcEEEEecCCchhhHHHHHhhc
Q psy17890 66 FCPPPCIYLYGEGWRLRQEQLLREG 90 (118)
Q Consensus 66 ~cPPP~V~l~G~~w~~~~eq~~~~g 90 (118)
+||+|-+|-. ..|..+.++.+...
T Consensus 5 ~~~~~~~~~~-~~~~~~~~~~~~~~ 28 (214)
T cd01820 5 PTPVDDLDGD-PRWMSRHERFVAEA 28 (214)
T ss_pred CcCCcccccc-hhHHHHHHHHHHHh
Confidence 5777777622 46776666666543
No 18
>PF14925 HPHLAWLY: Domain of unknown function
Probab=21.09 E-value=39 Score=31.80 Aligned_cols=16 Identities=44% Similarity=0.858 Sum_probs=12.3
Q ss_pred CcccccCCCcEEEEec
Q psy17890 61 NEKRFFCPPPCIYLYG 76 (118)
Q Consensus 61 ~EkRf~cPPP~V~l~G 76 (118)
.|--.|||||+-|-.=
T Consensus 22 ~etN~fCPPPLyYthl 37 (640)
T PF14925_consen 22 IETNIFCPPPLYYTHL 37 (640)
T ss_pred cccccccCCccccccc
Confidence 4667899999988544
Done!