Query 029187
Match_columns 197
No_of_seqs 98 out of 100
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 08:53:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029187.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029187hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03138 Protein TOC75; Provis 95.1 0.058 1.3E-06 54.8 6.9 19 2-20 5-23 (796)
2 COG4907 Predicted membrane pro 89.0 0.34 7.3E-06 47.6 3.0 10 30-39 546-555 (595)
3 TIGR02877 spore_yhbH sporulati 88.0 1.6 3.4E-05 41.3 6.6 31 103-138 100-130 (371)
4 PRK05325 hypothetical protein; 87.9 1.5 3.2E-05 41.7 6.4 15 119-133 100-114 (401)
5 PF04285 DUF444: Protein of un 86.3 1.9 4.1E-05 41.2 6.2 26 103-132 104-129 (421)
6 PLN03138 Protein TOC75; Provis 80.7 1.5 3.2E-05 45.0 3.2 7 155-161 257-263 (796)
7 PHA00370 III attachment protei 80.4 2.8 6E-05 38.5 4.6 19 153-172 213-231 (297)
8 PF02979 NHase_alpha: Nitrile 78.4 2.1 4.6E-05 37.2 3.0 45 144-188 16-66 (188)
9 PF04285 DUF444: Protein of un 73.0 4.7 0.0001 38.6 4.1 8 101-108 106-113 (421)
10 KOG3074 Transcriptional regula 62.4 7.2 0.00016 35.5 2.8 20 138-157 91-110 (263)
11 PF08671 SinI: Anti-repressor 62.3 8.2 0.00018 24.4 2.3 21 141-162 9-29 (30)
12 TIGR03793 TOMM_pelo TOMM prope 60.4 5.2 0.00011 29.9 1.4 21 175-195 16-37 (77)
13 PF07631 PSD4: Protein of unkn 53.0 21 0.00046 28.5 3.8 34 136-188 17-51 (128)
14 PF02084 Bindin: Bindin; Inte 49.6 46 0.001 30.1 5.7 25 124-148 107-131 (238)
15 PF02957 TT_ORF2: TT viral ORF 48.0 24 0.00053 27.4 3.4 8 123-130 111-118 (122)
16 TIGR01323 nitrile_alph nitrile 46.7 20 0.00044 31.2 3.0 47 144-190 10-62 (185)
17 PF14407 Frankia_peptide: Ribo 46.3 11 0.00023 27.6 1.1 13 176-188 13-25 (61)
18 TIGR03795 chp_BMA0021 conserve 43.3 19 0.00041 29.1 2.1 20 168-187 18-39 (114)
19 COG2718 Uncharacterized conser 42.8 41 0.0009 32.6 4.6 24 114-138 111-134 (423)
20 PF15451 DUF4632: Domain of un 41.7 36 0.00078 25.4 3.2 20 123-142 39-58 (71)
21 PLN02960 alpha-amylase 39.8 43 0.00093 35.3 4.6 46 1-52 1-46 (897)
22 PF15059 Speriolin_C: Sperioli 39.0 16 0.00035 30.8 1.2 65 133-197 28-117 (146)
23 PLN03244 alpha-amylase; Provis 37.8 37 0.0008 35.7 3.7 46 1-52 4-49 (872)
24 PF12244 DUF3606: Protein of u 37.7 58 0.0013 22.7 3.7 34 127-160 23-56 (57)
25 PF06524 NOA36: NOA36 protein; 37.0 45 0.00097 31.1 3.8 6 79-84 245-250 (314)
26 COG3737 Uncharacterized conser 33.0 25 0.00055 29.0 1.4 36 122-157 59-104 (127)
27 KOG1456 Heterogeneous nuclear 29.5 53 0.0011 32.1 3.1 11 139-149 46-56 (494)
28 PRK05325 hypothetical protein; 28.6 67 0.0015 30.8 3.6 17 121-137 147-163 (401)
29 COG2718 Uncharacterized conser 27.4 85 0.0019 30.5 4.1 16 99-114 100-115 (423)
30 KOG0105 Alternative splicing f 26.0 76 0.0016 28.5 3.2 10 122-131 131-140 (241)
31 COG4174 ABC-type uncharacteriz 25.9 1.3E+02 0.0029 28.4 4.9 19 146-164 90-108 (364)
32 TIGR02877 spore_yhbH sporulati 25.7 91 0.002 29.8 3.9 14 123-136 161-174 (371)
33 PF04360 Serglycin: Serglycin 24.6 51 0.0011 27.9 1.9 20 19-38 5-24 (150)
34 COG3423 Nlp Predicted transcri 22.0 66 0.0014 24.9 1.8 46 138-185 10-55 (82)
35 TIGR00625 tfb2 Transcription f 21.8 1.5E+02 0.0033 28.9 4.7 66 124-191 312-398 (448)
36 PRK08558 adenine phosphoribosy 21.3 2.6E+02 0.0057 24.3 5.7 38 123-165 13-50 (238)
37 PF10415 FumaraseC_C: Fumarase 20.6 1.2E+02 0.0026 21.0 2.8 36 124-162 15-50 (55)
38 smart00845 GatB_Yqey GatB doma 20.5 2.2E+02 0.0048 22.6 4.7 68 123-196 61-146 (147)
39 PF05225 HTH_psq: helix-turn-h 20.1 1.1E+02 0.0024 20.1 2.5 22 141-162 19-40 (45)
No 1
>PLN03138 Protein TOC75; Provisional
Probab=95.08 E-value=0.058 Score=54.80 Aligned_cols=19 Identities=26% Similarity=0.183 Sum_probs=13.6
Q ss_pred CcccccccCCCCCCCCCCC
Q 029187 2 SACSSTFRLPNLPNISPQN 20 (197)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~ 20 (197)
++|.+.++-+.++...+|+
T Consensus 5 ~~~~~~~~~~~~~~~~~~~ 23 (796)
T PLN03138 5 STMVSAAASTSLSSSRPQL 23 (796)
T ss_pred cccceeccCCCccCCCccc
Confidence 5777777777777766664
No 2
>COG4907 Predicted membrane protein [Function unknown]
Probab=88.96 E-value=0.34 Score=47.58 Aligned_cols=10 Identities=0% Similarity=-0.104 Sum_probs=5.7
Q ss_pred eeeecccccC
Q 029187 30 FLSLRHSTAT 39 (197)
Q Consensus 30 ~~~l~hs~~~ 39 (197)
|...||+.+|
T Consensus 546 ~~i~h~nysr 555 (595)
T COG4907 546 SPIFHNNYSR 555 (595)
T ss_pred eeEEecchhh
Confidence 4445666664
No 3
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=87.98 E-value=1.6 Score=41.25 Aligned_cols=31 Identities=35% Similarity=0.468 Sum_probs=18.3
Q ss_pred CCCCCCCCCCccccccCcccHHHHHHHHHHhCCCCc
Q 029187 103 GGGDGEGNDGEEKEFGPILKFEEVMKEIELKGVGLP 138 (197)
Q Consensus 103 g~g~g~~dd~~e~efG~il~~eeVLaEa~Rrg~SLP 138 (197)
|.|+|+++|+-+ --++.||.+.....-+ .||
T Consensus 100 gag~geGed~fe----~e~s~eE~~~~lfEdL-eLP 130 (371)
T TIGR02877 100 GAGDQEGEDYYE----TEVTLEELFELLFEDL-ELP 130 (371)
T ss_pred CCCCCCCcceEE----EEecHHHHHHHHHhhc-cCC
Confidence 344455555433 4478888888777654 355
No 4
>PRK05325 hypothetical protein; Provisional
Probab=87.87 E-value=1.5 Score=41.71 Aligned_cols=15 Identities=13% Similarity=0.102 Sum_probs=10.0
Q ss_pred CcccHHHHHHHHHHh
Q 029187 119 PILKFEEVMKEIELK 133 (197)
Q Consensus 119 ~il~~eeVLaEa~Rr 133 (197)
--++.||.+......
T Consensus 100 ~els~eE~~~~lfEd 114 (401)
T PRK05325 100 FEISLEELLDLLFED 114 (401)
T ss_pred EEecHHHHHHHHHhh
Confidence 446777777776654
No 5
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=86.28 E-value=1.9 Score=41.22 Aligned_cols=26 Identities=42% Similarity=0.500 Sum_probs=13.5
Q ss_pred CCCCCCCCCCccccccCcccHHHHHHHHHH
Q 029187 103 GGGDGEGNDGEEKEFGPILKFEEVMKEIEL 132 (197)
Q Consensus 103 g~g~g~~dd~~e~efG~il~~eeVLaEa~R 132 (197)
|.|+++|+|+-+ --++.||++.....
T Consensus 104 gag~geGeD~fe----~els~eE~~~llfE 129 (421)
T PF04285_consen 104 GAGDGEGEDDFE----FELSREEFLDLLFE 129 (421)
T ss_pred CCCCCCCCCeEE----EEEEHHHHHHHhHH
Confidence 445555555433 34566666655554
No 6
>PLN03138 Protein TOC75; Provisional
Probab=80.66 E-value=1.5 Score=44.96 Aligned_cols=7 Identities=14% Similarity=0.311 Sum_probs=2.6
Q ss_pred HHHHHhh
Q 029187 155 LLRYLDL 161 (197)
Q Consensus 155 L~Ryl~L 161 (197)
|..+++.
T Consensus 257 l~~~~~~ 263 (796)
T PLN03138 257 KMEYYRS 263 (796)
T ss_pred HHHHhhc
Confidence 3333333
No 7
>PHA00370 III attachment protein
Probab=80.42 E-value=2.8 Score=38.52 Aligned_cols=19 Identities=21% Similarity=0.046 Sum_probs=9.3
Q ss_pred HHHHHHHhhhcCcchHHHHH
Q 029187 153 MFLLRYLDLQGSVWPLGFLM 172 (197)
Q Consensus 153 a~L~Ryl~L~asp~~l~~L~ 172 (197)
++|...=+=+.+|| +.+|.
T Consensus 213 s~md~lg~g~gS~~-~~~l~ 231 (297)
T PHA00370 213 SEMDQLGEGDGSPL-ESFLN 231 (297)
T ss_pred hhhhhhcccCCcHH-HHhhc
Confidence 44443334455566 45554
No 8
>PF02979 NHase_alpha: Nitrile hydratase, alpha chain; InterPro: IPR004232 Nitrile hydratases (4.2.1.84 from EC) are bacterial enzymes that catalyse the hydration of nitrile compounds to the corresponding amides. They are used as biocatalysts in acrylamide production, one of the few commercial scale bioprocesses, as well as in environmental remediation for the removal of nitriles from waste streams. Nitrile hydratases are composed of two subunits, alpha and beta, and are normally active as a tetramer, alpha(2)beta(2). Nitrile hydratases contain either a non-haem iron or a non-corrinoid cobalt centre, both types sharing a highly conserved peptide sequence in the alpha subunit (CXLCSC) that provides all the residues involved in coordinating the metal ion. Each type of nitrile hydratase specifically incorporated its metal with the help of activator proteins encoded by flanking regions of the nitrile hydratase genes that are necessary for metal insertion. The Fe-containing enzyme is photo-regulated: in the dark the enzyme is inactivated due to the association of nitric oxide (NO) to the iron, while in the light the enzyme is active by photo-dissociation of NO. The NO is held in place by a claw setting formed through specific oxygen atoms in two modified cysteines and a serine residue in the active site [, ]. The cobalt-containing enzyme is unaffected by NO, but was shown to undergo a similar effect with carbon monoxide [, ]. Fe- and cobalt-containing enzymes also display different inhibition patterns with nitrophenols. Thiocyanate hydrolase (SCNase) is a cobalt-containing metalloenzyme with a cysteine-sulphinic acid ligand that hydrolyses thiocyanate to carbonyl sulphide and ammonia []. The two enzymes, nitrile hydratase and SCNase, are homologous over regions corresponding to almost the entire coding regions of the genes: the beta and alpha subunits of thiocyanate hydrolase were homologous to the amino- and carboxyl-terminal halves of the beta subunit of nitrile hydratase, and the gamma subunit of thiocyanate hydrolase was homologous to the alpha subunit of nitrile hydratase []. This entry represents the structural domain of the alpha subunit of both iron- and cobalt-containing nitrile hydratases; the alpha subunit is a duplication of two structural repeats, each consisting of 4 layers, alpha/beta/beta/alpha []. This structure is also found in the related protein, the gamma subunit of thiocyanate hydrolase (SCNase).; GO: 0003824 catalytic activity, 0046914 transition metal ion binding, 0006807 nitrogen compound metabolic process; PDB: 2DPP_A 3HHT_A 1V29_A 2ZZD_I 2DXC_F 2DXB_F 2DD5_C 2DD4_C 2ZPH_A 2CYZ_A ....
Probab=78.36 E-value=2.1 Score=37.19 Aligned_cols=45 Identities=20% Similarity=0.124 Sum_probs=30.4
Q ss_pred HHHhcCcCHHHHHHHHhhhcCc---c-hHHHHHHhh--hHHHHhhhcCchh
Q 029187 144 AAKTVGIRKMFLLRYLDLQGSV---W-PLGFLMRYC--FMLRDRMLADPSF 188 (197)
Q Consensus 144 Aae~GgIrsa~L~Ryl~L~asp---~-~l~~L~rs~--p~fR~RLLADP~F 188 (197)
.++.|.|+++.+.++++...+- - -.+.+-|.| |+||.||||||.=
T Consensus 16 l~ekg~~~~~~~~~~~~~~~~~~~P~~GarvVArAW~Dp~FK~rLLaD~~a 66 (188)
T PF02979_consen 16 LIEKGLITPAEVDRIIETYESRVGPRNGARVVARAWTDPAFKARLLADPTA 66 (188)
T ss_dssp HHHTTSS-HHHHHHHHHHHHHTSSHHHHHHHHHHHHH-HHHHHHHHHSHHH
T ss_pred HHHcCCCCHHHHHHHHHHHHhccCccccceeehhhhCCHHHHHHHHHCHHH
Confidence 3678889999888888765543 1 123334444 5999999999974
No 9
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=72.98 E-value=4.7 Score=38.59 Aligned_cols=8 Identities=38% Similarity=1.024 Sum_probs=3.6
Q ss_pred CCCCCCCC
Q 029187 101 GGGGGDGE 108 (197)
Q Consensus 101 Ggg~g~g~ 108 (197)
|.|.|.++
T Consensus 106 g~geGeD~ 113 (421)
T PF04285_consen 106 GDGEGEDD 113 (421)
T ss_pred CCCCCCCe
Confidence 44444444
No 10
>KOG3074 consensus Transcriptional regulator of the PUR family, single-stranded-DNA-binding [Transcription]
Probab=62.42 E-value=7.2 Score=35.47 Aligned_cols=20 Identities=15% Similarity=0.305 Sum_probs=12.1
Q ss_pred cHHHHHHHHhcCcCHHHHHH
Q 029187 138 PDDMMEAAKTVGIRKMFLLR 157 (197)
Q Consensus 138 PaDL~eAae~GgIrsa~L~R 157 (197)
|.++++..+.+.+-++.|++
T Consensus 91 ~~~~~~~~ee~~lkSe~L~~ 110 (263)
T KOG3074|consen 91 PPELAAPSEEHELKSEELQR 110 (263)
T ss_pred CcccccchhhhhHHHHHHhh
Confidence 45666666666666666654
No 11
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=62.33 E-value=8.2 Score=24.44 Aligned_cols=21 Identities=19% Similarity=0.343 Sum_probs=14.4
Q ss_pred HHHHHHhcCcCHHHHHHHHhhh
Q 029187 141 MMEAAKTVGIRKMFLLRYLDLQ 162 (197)
Q Consensus 141 L~eAae~GgIrsa~L~Ryl~L~ 162 (197)
|.+|.++| ++.+.+..||+.+
T Consensus 9 i~eA~~~G-ls~eeir~FL~~~ 29 (30)
T PF08671_consen 9 IKEAKESG-LSKEEIREFLEFN 29 (30)
T ss_dssp HHHHHHTT---HHHHHHHHHHH
T ss_pred HHHHHHcC-CCHHHHHHHHHhC
Confidence 44566655 9999999999875
No 12
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=60.36 E-value=5.2 Score=29.86 Aligned_cols=21 Identities=19% Similarity=0.341 Sum_probs=15.3
Q ss_pred hhHHHHhhhcCch-hhhhhhhc
Q 029187 175 CFMLRDRMLADPS-FLFKVGTE 195 (197)
Q Consensus 175 ~p~fR~RLLADP~-FL~Kl~~E 195 (197)
=|.||.|||+||. =|.+++++
T Consensus 16 Dp~Fr~~Ll~DPraaL~e~G~~ 37 (77)
T TIGR03793 16 DEAFKQALLTNPKEALEREGVQ 37 (77)
T ss_pred CHHHHHHHHHCHHHHHHHhCCC
Confidence 3699999999998 44445543
No 13
>PF07631 PSD4: Protein of unknown function (DUF1592); InterPro: IPR013042 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013039 from INTERPRO and IPR013043 from INTERPRO.
Probab=53.04 E-value=21 Score=28.53 Aligned_cols=34 Identities=32% Similarity=0.486 Sum_probs=22.3
Q ss_pred CCc-HHHHHHHHhcCcCHHHHHHHHhhhcCcchHHHHHHhhhHHHHhhhcCchh
Q 029187 136 GLP-DDMMEAAKTVGIRKMFLLRYLDLQGSVWPLGFLMRYCFMLRDRMLADPSF 188 (197)
Q Consensus 136 SLP-aDL~eAae~GgIrsa~L~Ryl~L~asp~~l~~L~rs~p~fR~RLLADP~F 188 (197)
|.| +.|.+|++.|.+++... .+ .-.+|||+||.+
T Consensus 17 s~PD~~L~~aA~~g~L~~~~~----------------l~---~q~~RML~dpr~ 51 (128)
T PF07631_consen 17 SPPDAELLDAAAAGELRTPEQ----------------LR---AQAERMLADPRA 51 (128)
T ss_pred CCCCHHHHHHHHhCCCCCHHH----------------HH---HHHHHHHcCccH
Confidence 456 67888888888853221 11 456778888875
No 14
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=49.63 E-value=46 Score=30.09 Aligned_cols=25 Identities=16% Similarity=0.256 Sum_probs=19.2
Q ss_pred HHHHHHHHHhCCCCcHHHHHHHHhc
Q 029187 124 EEVMKEIELKGVGLPDDMMEAAKTV 148 (197)
Q Consensus 124 eeVLaEa~Rrg~SLPaDL~eAae~G 148 (197)
|.+.+-+.+|..+||-|+-.-++.|
T Consensus 107 ~~ikavLgaTKiDLPVDINDPYDlG 131 (238)
T PF02084_consen 107 EDIKAVLGATKIDLPVDINDPYDLG 131 (238)
T ss_pred HHHHHHhcccccccccccCChhhHH
Confidence 5666667789999999987766665
No 15
>PF02957 TT_ORF2: TT viral ORF2; InterPro: IPR004118 This entry represents the Gyroviral VP2 protein and TT viral ORF2. Torque teno virus (TTV) is a nonenveloped and single-stranded DNA virus that was initially isolated from a Japanese patient with hepatitis of unknown aetiology, and which has since been found to infect both healthy and diseased individuals []. Numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF2 is a 150 residue protein of unknown function. Gyroviruses are small circular single stranded viruses, such as the Chicken anaemia virus. The VP2 protein contains a set of conserved cysteine and histidine residues suggesting a zinc binding domain. VP2 may act as a scaffold protein in virion assembly and may also play a role in intracellular signaling during viral replication.
Probab=48.04 E-value=24 Score=27.36 Aligned_cols=8 Identities=13% Similarity=0.439 Sum_probs=3.8
Q ss_pred HHHHHHHH
Q 029187 123 FEEVMKEI 130 (197)
Q Consensus 123 ~eeVLaEa 130 (197)
+|++++++
T Consensus 111 ld~L~aa~ 118 (122)
T PF02957_consen 111 LDELFAAA 118 (122)
T ss_pred HHHHhhhh
Confidence 44555443
No 16
>TIGR01323 nitrile_alph nitrile hydratase, alpha subunit. This model describes both iron- and cobalt-containing nitrile hydratase alpha chains. It excludes the thiocyanate hydrolase gamma subunit of Thiobacillus thioparus, a sequence that appears to have evolved from within the family of nitrile hydratase alpha subunits but which differs by several indels and a more rapid accumulation of point mutations.
Probab=46.69 E-value=20 Score=31.21 Aligned_cols=47 Identities=11% Similarity=-0.082 Sum_probs=30.2
Q ss_pred HHHhcCcCHHHHHHHHhhhcC---cc-hHHHHHHhh--hHHHHhhhcCchhhh
Q 029187 144 AAKTVGIRKMFLLRYLDLQGS---VW-PLGFLMRYC--FMLRDRMLADPSFLF 190 (197)
Q Consensus 144 Aae~GgIrsa~L~Ryl~L~as---p~-~l~~L~rs~--p~fR~RLLADP~FL~ 190 (197)
.++.|.|..+.+.+.++.-.+ |. =.+.+-|.| |.||.|||+|..=-.
T Consensus 10 l~eKGli~~~~id~~i~~~~~~~gP~nGA~vVArAW~Dp~fk~~Ll~d~~aa~ 62 (185)
T TIGR01323 10 LKSKGLIPEGAVDQLTSLYENEWGPENGAKVVAKAWVDPEFRALLLKDATAAC 62 (185)
T ss_pred HHHcCCCCHHHHHHHHHHHHhccCCcchhhhhhHHhcCHHHHHHHHhChHHHH
Confidence 356788888888777765444 21 122333333 699999999987433
No 17
>PF14407 Frankia_peptide: Ribosomally synthesized peptide prototyped by Frankia Franean1_4349.
Probab=46.33 E-value=11 Score=27.64 Aligned_cols=13 Identities=38% Similarity=0.572 Sum_probs=11.3
Q ss_pred hHHHHhhhcCchh
Q 029187 176 FMLRDRMLADPSF 188 (197)
Q Consensus 176 p~fR~RLLADP~F 188 (197)
++||.|+||||.-
T Consensus 13 ~~FRqqllad~~~ 25 (61)
T PF14407_consen 13 EAFRQQLLADPEE 25 (61)
T ss_pred HHHHHHHhcCHHH
Confidence 5899999999974
No 18
>TIGR03795 chp_BMA0021 conserved hypothetical protein, BMA_0021 family. Members of this protein family are found sparsely, mostly in members of the genus Burkholderia. Members often occur as tandem homologous genes, such as BMA_0021 and BMA_0022 in Burkholderia mallei ATCC 23344. The genes regularly are encoded near the so-called docking protein of TOMM (thiazole/oxazole-modified microcins) biosynthetic clusters, suggesting a role in bacteriocin biosynthesis. The function is unknown.
Probab=43.35 E-value=19 Score=29.06 Aligned_cols=20 Identities=30% Similarity=0.428 Sum_probs=15.5
Q ss_pred HHHHHHhhh--HHHHhhhcCch
Q 029187 168 LGFLMRYCF--MLRDRMLADPS 187 (197)
Q Consensus 168 l~~L~rs~p--~fR~RLLADP~ 187 (197)
+|.+-+++. .||+|||+||.
T Consensus 18 lraIA~AW~DpaFr~eLl~DPk 39 (114)
T TIGR03795 18 LRAIALAWHSPEFKDELLADPV 39 (114)
T ss_pred HHHHHHHhCCHHHHHHHHHCHH
Confidence 455555554 99999999997
No 19
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=42.80 E-value=41 Score=32.60 Aligned_cols=24 Identities=33% Similarity=0.257 Sum_probs=14.5
Q ss_pred cccccCcccHHHHHHHHHHhCCCCc
Q 029187 114 EKEFGPILKFEEVMKEIELKGVGLP 138 (197)
Q Consensus 114 e~efG~il~~eeVLaEa~Rrg~SLP 138 (197)
|++|-.-++.+||+....+-++ ||
T Consensus 111 ED~F~~~is~~e~~dllFedL~-LP 134 (423)
T COG2718 111 EDEFVFQISREEVLDLLFEDLE-LP 134 (423)
T ss_pred cchhheeeehhHHHHHHHHHhh-Cc
Confidence 3444466777777777766543 55
No 20
>PF15451 DUF4632: Domain of unknown function (DUF4632)
Probab=41.67 E-value=36 Score=25.43 Aligned_cols=20 Identities=15% Similarity=0.335 Sum_probs=15.4
Q ss_pred HHHHHHHHHHhCCCCcHHHH
Q 029187 123 FEEVMKEIELKGVGLPDDMM 142 (197)
Q Consensus 123 ~eeVLaEa~Rrg~SLPaDL~ 142 (197)
.+.||+-|.|-.-.||..++
T Consensus 39 wdrvl~parrwrrplpsnvl 58 (71)
T PF15451_consen 39 WDRVLAPARRWRRPLPSNVL 58 (71)
T ss_pred HHHHHhHHHHhccCCCccce
Confidence 48899888888888886543
No 21
>PLN02960 alpha-amylase
Probab=39.85 E-value=43 Score=35.28 Aligned_cols=46 Identities=20% Similarity=0.174 Sum_probs=27.2
Q ss_pred CCcccccccCCCCCCCCCCCCcccccceeeeeecccccCCcceeeeeeccCC
Q 029187 1 MSACSSTFRLPNLPNISPQNHNIVMPTTVFLSLRHSTATNPALCKLQCVGNN 52 (197)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~hs~~~n~~~~~l~cv~~~ 52 (197)
|+.||+..|.|+-||----+|.-- |.+ -+. -..+..-|++.|+..+
T Consensus 1 ~~~~~~~~~~~~~p~~~~~~~~~~-~~~----~~~-~~~~~~~~~~~c~~~~ 46 (897)
T PLN02960 1 MVSLSLFLRFPRPPNPLVHAEPRR-LGA----SRV-NLPRKIGFKITCFAAP 46 (897)
T ss_pred CcccccccccCCCCCccccccCCC-CCc----ccc-CCccccccceeeccCC
Confidence 789999999998876221111100 111 111 1247788899998665
No 22
>PF15059 Speriolin_C: Speriolin C-terminus
Probab=38.96 E-value=16 Score=30.77 Aligned_cols=65 Identities=23% Similarity=0.321 Sum_probs=47.1
Q ss_pred hCCCCcHHHHHHHH-------hcCcCHHHHHHHHhhhcC-----------cchHHHHHHhhhHHHHhh------hc-Cch
Q 029187 133 KGVGLPDDMMEAAK-------TVGIRKMFLLRYLDLQGS-----------VWPLGFLMRYCFMLRDRM------LA-DPS 187 (197)
Q Consensus 133 rg~SLPaDL~eAae-------~GgIrsa~L~Ryl~L~as-----------p~~l~~L~rs~p~fR~RL------LA-DP~ 187 (197)
+...+|..+.|+-- ...-+.+..+||.++.++ |.+.-+|.++|.-||+|. .- -|.
T Consensus 28 t~sNipeKi~Q~s~~p~~~~~De~~r~~L~~ry~~im~rL~~lGY~~~~HP~lsE~lVN~yGILr~rp~l~a~~~~~yp~ 107 (146)
T PF15059_consen 28 TVSNIPEKIIQASTNPLDGKVDEEKRQTLTQRYVSIMNRLQKLGYNRRVHPGLSEFLVNTYGILRERPELAASEGGSYPD 107 (146)
T ss_pred cccccHHHHHhhccCccccccCHHHHHHHHHHHHHHHHHHHHcCCCCccCchHHHHHHHHccccccCcccccCcCcCCHH
Confidence 34456777776654 334566778899988765 667889999999888885 11 189
Q ss_pred hhhhhhhccC
Q 029187 188 FLFKVGTEVC 197 (197)
Q Consensus 188 FL~Kl~~E~V 197 (197)
||.|+.+|.|
T Consensus 108 ~L~~~v~~~v 117 (146)
T PF15059_consen 108 FLRRVVIETV 117 (146)
T ss_pred HHHHHHHHhc
Confidence 9999998875
No 23
>PLN03244 alpha-amylase; Provisional
Probab=37.81 E-value=37 Score=35.66 Aligned_cols=46 Identities=17% Similarity=0.195 Sum_probs=31.3
Q ss_pred CCcccccccCCCCCCCCCCCCcccccceeeeeecccccCCcceeeeeeccCC
Q 029187 1 MSACSSTFRLPNLPNISPQNHNIVMPTTVFLSLRHSTATNPALCKLQCVGNN 52 (197)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~hs~~~n~~~~~l~cv~~~ 52 (197)
|+.|.+-.-.||-||+-.|+.+-.--+++ -++.+..-|++.|...|
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~ 49 (872)
T PLN03244 4 LSLPTQFSCHPNASNLPFSEKNRLAINGV------NFPKKKIKLKIRCFAAE 49 (872)
T ss_pred cccccceeecCCCCCCCcccCCccccccc------cCCccccccceeecccC
Confidence 44566555668888888887764433432 34447888999999776
No 24
>PF12244 DUF3606: Protein of unknown function (DUF3606); InterPro: IPR022037 This family of proteins is found in bacteria. Proteins in this family are typically between 58 and 85 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=37.73 E-value=58 Score=22.73 Aligned_cols=34 Identities=18% Similarity=0.183 Sum_probs=29.7
Q ss_pred HHHHHHhCCCCcHHHHHHHHhcCcCHHHHHHHHh
Q 029187 127 MKEIELKGVGLPDDMMEAAKTVGIRKMFLLRYLD 160 (197)
Q Consensus 127 LaEa~Rrg~SLPaDL~eAae~GgIrsa~L~Ryl~ 160 (197)
++-|.++.---+..|++|++..+-+.+.+.+||.
T Consensus 23 v~ywa~~~gvt~~~L~~AV~~vG~~~~~V~~~L~ 56 (57)
T PF12244_consen 23 VRYWAKRFGVTEEQLREAVRAVGNSRAAVRAYLG 56 (57)
T ss_pred HHHHHHHHCcCHHHHHHHHHHHCcCHHHHHHHHc
Confidence 4677787777899999999999999999999984
No 25
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=36.97 E-value=45 Score=31.08 Aligned_cols=6 Identities=33% Similarity=0.656 Sum_probs=2.2
Q ss_pred CCCCCC
Q 029187 79 SSGGDG 84 (197)
Q Consensus 79 ~~~G~G 84 (197)
+..|-+
T Consensus 245 d~~~y~ 250 (314)
T PF06524_consen 245 DDSGYG 250 (314)
T ss_pred cccccc
Confidence 333333
No 26
>COG3737 Uncharacterized conserved protein [Function unknown]
Probab=33.04 E-value=25 Score=29.05 Aligned_cols=36 Identities=25% Similarity=0.226 Sum_probs=29.3
Q ss_pred cHHHHHHHHH----------HhCCCCcHHHHHHHHhcCcCHHHHHH
Q 029187 122 KFEEVMKEIE----------LKGVGLPDDMMEAAKTVGIRKMFLLR 157 (197)
Q Consensus 122 ~~eeVLaEa~----------Rrg~SLPaDL~eAae~GgIrsa~L~R 157 (197)
+|+.|++++. .+..-+|+++++|.+.-+|+.+.|.-
T Consensus 59 ~f~~vl~~a~~~EilliGTG~~~rf~p~~l~aal~~~gIsve~Mst 104 (127)
T COG3737 59 DFERVLAEAPDVEILLIGTGARLRFPPPKLRAALKAAGISVEPMST 104 (127)
T ss_pred HHHHHHhcCCCceEEEEecCccccCCCHHHHHHHHHcCCccccccc
Confidence 4788888887 34455799999999999999988763
No 27
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=29.51 E-value=53 Score=32.15 Aligned_cols=11 Identities=36% Similarity=0.634 Sum_probs=7.7
Q ss_pred HHHHHHHHhcC
Q 029187 139 DDMMEAAKTVG 149 (197)
Q Consensus 139 aDL~eAae~Gg 149 (197)
+|+++|++.++
T Consensus 46 adl~eal~~fG 56 (494)
T KOG1456|consen 46 ADLVEALSNFG 56 (494)
T ss_pred hHHHHHHhcCC
Confidence 57777777665
No 28
>PRK05325 hypothetical protein; Provisional
Probab=28.61 E-value=67 Score=30.78 Aligned_cols=17 Identities=18% Similarity=0.305 Sum_probs=10.8
Q ss_pred ccHHHHHHHHHHhCCCC
Q 029187 121 LKFEEVMKEIELKGVGL 137 (197)
Q Consensus 121 l~~eeVLaEa~Rrg~SL 137 (197)
+.+...|+++-+|...|
T Consensus 147 l~~~RT~r~al~Rrial 163 (401)
T PRK05325 147 LDKKRTLREALKRRIAL 163 (401)
T ss_pred chHHHHHHHHHHHHhhc
Confidence 33566777777766654
No 29
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=27.40 E-value=85 Score=30.53 Aligned_cols=16 Identities=44% Similarity=0.707 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCCCCcc
Q 029187 99 DSGGGGGDGEGNDGEE 114 (197)
Q Consensus 99 ggGgg~g~g~~dd~~e 114 (197)
|.|++.++++++|+.+
T Consensus 100 g~g~~ag~~egED~F~ 115 (423)
T COG2718 100 GKGQAAGDGEGEDEFV 115 (423)
T ss_pred CCCCccCCCCCcchhh
Confidence 3445666677777643
No 30
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=26.01 E-value=76 Score=28.51 Aligned_cols=10 Identities=20% Similarity=0.448 Sum_probs=4.9
Q ss_pred cHHHHHHHHH
Q 029187 122 KFEEVMKEIE 131 (197)
Q Consensus 122 ~~eeVLaEa~ 131 (197)
++..-|+||+
T Consensus 131 DLKDHmReaG 140 (241)
T KOG0105|consen 131 DLKDHMREAG 140 (241)
T ss_pred HHHHHHHhhC
Confidence 3445555544
No 31
>COG4174 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=25.86 E-value=1.3e+02 Score=28.42 Aligned_cols=19 Identities=32% Similarity=0.279 Sum_probs=11.9
Q ss_pred HhcCcCHHHHHHHHhhhcC
Q 029187 146 KTVGIRKMFLLRYLDLQGS 164 (197)
Q Consensus 146 e~GgIrsa~L~Ryl~L~as 164 (197)
+.-++.+-.+.||+.|-.+
T Consensus 90 ~~~GFDKp~~eR~~~Ml~~ 108 (364)
T COG4174 90 KQYGFDKPPLERYFLMLWD 108 (364)
T ss_pred HHhCCCCCHHHHHHHHHHH
Confidence 4456666677777766443
No 32
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=25.68 E-value=91 Score=29.76 Aligned_cols=14 Identities=7% Similarity=-0.166 Sum_probs=8.0
Q ss_pred HHHHHHHHHHhCCC
Q 029187 123 FEEVMKEIELKGVG 136 (197)
Q Consensus 123 ~eeVLaEa~Rrg~S 136 (197)
+...|+++-+|...
T Consensus 161 ~~RT~r~al~Rria 174 (371)
T TIGR02877 161 KKRTVIEALKRNQL 174 (371)
T ss_pred HHHHHHHHHHHHhh
Confidence 45566666665544
No 33
>PF04360 Serglycin: Serglycin ; InterPro: IPR007455 Serglycin is the most prevalent proteoglycan produced in haemopoietic cells. Serglycin is a proteinase resistant secretory granule proteoglycan [].
Probab=24.58 E-value=51 Score=27.94 Aligned_cols=20 Identities=25% Similarity=0.350 Sum_probs=13.0
Q ss_pred CCCcccccceeeeeeccccc
Q 029187 19 QNHNIVMPTTVFLSLRHSTA 38 (197)
Q Consensus 19 ~~~~~~~~~~~~~~l~hs~~ 38 (197)
++..||+-.|+.|+|-+|..
T Consensus 5 ~~~rl~LaLalil~l~ssvq 24 (150)
T PF04360_consen 5 QCSRLVLALALILVLDSSVQ 24 (150)
T ss_pred ccchhHHHHHHHHHhccccc
Confidence 44556666677777777665
No 34
>COG3423 Nlp Predicted transcriptional regulator [Transcription]
Probab=21.97 E-value=66 Score=24.88 Aligned_cols=46 Identities=30% Similarity=0.302 Sum_probs=26.5
Q ss_pred cHHHHHHHHhcCcCHHHHHHHHhhhcCcchHHHHHHhhhHHHHhhhcC
Q 029187 138 PDDMMEAAKTVGIRKMFLLRYLDLQGSVWPLGFLMRYCFMLRDRMLAD 185 (197)
Q Consensus 138 PaDL~eAae~GgIrsa~L~Ryl~L~asp~~l~~L~rs~p~fR~RLLAD 185 (197)
|+|+.+|+++-+.+=..|++=--|..+-+ -..|.|.+|- -+|++||
T Consensus 10 ~adI~A~Lkk~G~Sl~~LS~~agls~~tL-~n~L~rp~pk-gEriIA~ 55 (82)
T COG3423 10 PADIIAALKKKGTSLAALSREAGLSSSTL-ANALDRPWPK-GERIIAD 55 (82)
T ss_pred HHHHHHHHHHccccHHHHHHHcCCCHHHH-HHHHcCCCch-HHHHHHH
Confidence 67788888877777666665544443332 3444444441 2566665
No 35
>TIGR00625 tfb2 Transcription factor tfb2. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.81 E-value=1.5e+02 Score=28.88 Aligned_cols=66 Identities=15% Similarity=0.184 Sum_probs=48.4
Q ss_pred HHHHHHHHHhCCCCc---------HHHHHHHHhcCcCHHHHHHHHhhhcCcchHHH------------HHHhhhHHHHhh
Q 029187 124 EEVMKEIELKGVGLP---------DDMMEAAKTVGIRKMFLLRYLDLQGSVWPLGF------------LMRYCFMLRDRM 182 (197)
Q Consensus 124 eeVLaEa~Rrg~SLP---------aDL~eAae~GgIrsa~L~Ryl~L~asp~~l~~------------L~rs~p~fR~RL 182 (197)
-++|+.-.+-...+| .-+++|++.| |+..++.+||+-.++|- ++- =+|.|..=|+|+
T Consensus 312 ~~il~lF~~~~~r~pnlvvg~iTr~Sv~~A~~~G-ITa~qIi~fl~~~ahp~-~~~~~~~~lP~tv~dQi~lWe~e~~R~ 389 (448)
T TIGR00625 312 IALIALFSELLARFPNMVVGQITRESIRRALANG-ITAQQIIHYLRTHAHPQ-MRKEQTPVLPPTIVDQIRLWELERDRL 389 (448)
T ss_pred HHHHHHHHHHHhcCCceEEEEecHHHHHHHHHcC-CCHHHHHHHHHhcCChh-hhccCCCCCChHHHHHHHHHHHHhcce
Confidence 356766666666665 5567777777 99999999999999876 321 123344669999
Q ss_pred hcCchhhhh
Q 029187 183 LADPSFLFK 191 (197)
Q Consensus 183 LADP~FL~K 191 (197)
-..|.||||
T Consensus 390 ~~~~~~l~~ 398 (448)
T TIGR00625 390 RFTEGVLYN 398 (448)
T ss_pred Eeecceeee
Confidence 999999987
No 36
>PRK08558 adenine phosphoribosyltransferase; Provisional
Probab=21.25 E-value=2.6e+02 Score=24.34 Aligned_cols=38 Identities=16% Similarity=0.174 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhCCCCcHHHHHHHHhcCcCHHHHHHHHhhhcCc
Q 029187 123 FEEVMKEIELKGVGLPDDMMEAAKTVGIRKMFLLRYLDLQGSV 165 (197)
Q Consensus 123 ~eeVLaEa~Rrg~SLPaDL~eAae~GgIrsa~L~Ryl~L~asp 165 (197)
.-++|+.+.++. ...|=.+.-+|+..+|.||.....-|
T Consensus 13 ~v~~lr~lk~~~-----ty~el~~~~g~p~~~l~RYv~g~~~P 50 (238)
T PRK08558 13 AVRVLRSLKKTY-----TYEELSSITGLPESVLNRYVNGHVLP 50 (238)
T ss_pred HHHHHHHHhccc-----CHHHHHHHHCCCHHHHHHHHcCCcCC
Confidence 345677666654 56677788899999999999988877
No 37
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=20.60 E-value=1.2e+02 Score=21.02 Aligned_cols=36 Identities=19% Similarity=0.137 Sum_probs=26.5
Q ss_pred HHHHHHHHHhCCCCcHHHHHHHHhcCcCHHHHHHHHhhh
Q 029187 124 EEVMKEIELKGVGLPDDMMEAAKTVGIRKMFLLRYLDLQ 162 (197)
Q Consensus 124 eeVLaEa~Rrg~SLPaDL~eAae~GgIrsa~L~Ryl~L~ 162 (197)
-+|-++|.+++.++-. .+++.|.++.+++.+.|+.+
T Consensus 15 a~iAk~A~~~g~svre---~v~~~g~lt~ee~d~ll~p~ 50 (55)
T PF10415_consen 15 AEIAKEALAEGRSVRE---VVLEEGLLTEEELDELLDPE 50 (55)
T ss_dssp HHHHHHHHHHT--HHH---HHHHTTSS-HHHHHHHTSHH
T ss_pred HHHHHHHHHcCCCHHH---HHHHcCCCCHHHHHHHcCHH
Confidence 5688899999998863 35578889999999998765
No 38
>smart00845 GatB_Yqey GatB domain. This domain is found in GatB and proteins related to bacterial Yqey. It is about 140 amino acid residues long. This domain is found at the C terminus of GatB which transamidates Glu-tRNA to Gln-tRNA. The function of this domain is uncertain. It does however suggest that Yqey and its relatives have a role in tRNA metabolism.
Probab=20.51 E-value=2.2e+02 Score=22.58 Aligned_cols=68 Identities=24% Similarity=0.347 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhCCCCcHHHHHHHHhcCcCHH-HHHHHHh--hhcC---------------cchHHHHHHhhhHHHHhhhc
Q 029187 123 FEEVMKEIELKGVGLPDDMMEAAKTVGIRKM-FLLRYLD--LQGS---------------VWPLGFLMRYCFMLRDRMLA 184 (197)
Q Consensus 123 ~eeVLaEa~Rrg~SLPaDL~eAae~GgIrsa-~L~Ryl~--L~as---------------p~~l~~L~rs~p~fR~RLLA 184 (197)
..+|+++...... =|.++.+...-..|+.+ .+....+ ++.. -++++.+|+ ..++| |
T Consensus 61 ak~vl~~~~~~~~-~~~~ii~~~~l~~isd~~el~~~v~~vi~~~~~~v~~~~~g~~k~~~~l~G~vMk---~~~G~--a 134 (147)
T smart00845 61 AKEVLEELLESGK-SPEEIVEEKGLKQISDEGELEAIVDEVIAENPKAVEDYRAGKKKALGFLVGQVMK---ATRGK--A 134 (147)
T ss_pred HHHHHHHHHHcCC-CHHHHHHHcCCccCCCHHHHHHHHHHHHHHCHHHHHHHHCCHHHHHHHHHHHHHH---HhcCC--C
Confidence 3567777666543 37777777666667653 4544432 2222 144666666 56777 7
Q ss_pred Cchhhhhhhhcc
Q 029187 185 DPSFLFKVGTEV 196 (197)
Q Consensus 185 DP~FL~Kl~~E~ 196 (197)
||.-+.++..|.
T Consensus 135 d~~~v~~~l~~~ 146 (147)
T smart00845 135 DPKLVNELLKEK 146 (147)
T ss_pred CHHHHHHHHHHh
Confidence 888877776654
No 39
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=20.14 E-value=1.1e+02 Score=20.13 Aligned_cols=22 Identities=32% Similarity=0.341 Sum_probs=17.0
Q ss_pred HHHHHHhcCcCHHHHHHHHhhh
Q 029187 141 MMEAAKTVGIRKMFLLRYLDLQ 162 (197)
Q Consensus 141 L~eAae~GgIrsa~L~Ryl~L~ 162 (197)
+++|++..+|+...|.+++.-.
T Consensus 19 ~r~AA~~ygVp~sTL~~r~~g~ 40 (45)
T PF05225_consen 19 IRKAAKKYGVPRSTLRRRLRGK 40 (45)
T ss_dssp HHHHHHHHT--HHHHHHHHHHT
T ss_pred HHHHHHHHCcCHHHHHHHHcCC
Confidence 6899999999999999987643
Done!