Query 042147
Match_columns 69
No_of_seqs 100 out of 414
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 03:18:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042147.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042147hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01756 ACOX: Acyl-CoA oxidas 100.0 2.1E-30 4.7E-35 174.9 2.9 63 1-63 125-187 (187)
2 PLN02443 acyl-coenzyme A oxida 99.9 2.4E-25 5.1E-30 174.8 4.8 69 1-69 596-664 (664)
3 KOG0136 Acyl-CoA oxidase [Lipi 99.9 5.7E-25 1.2E-29 173.1 4.4 67 1-69 604-670 (670)
4 PTZ00460 acyl-CoA dehydrogenas 99.8 6.2E-21 1.3E-25 149.5 3.5 55 1-55 582-637 (646)
5 cd01150 AXO Peroxisomal acyl-C 99.6 5.4E-16 1.2E-20 120.5 1.5 40 1-40 571-610 (610)
6 PLN02636 acyl-coenzyme A oxida 99.0 5.9E-11 1.3E-15 94.1 1.1 37 1-38 648-684 (686)
7 KOG0135 Pristanoyl-CoA/acyl-Co 98.8 1.5E-09 3.3E-14 86.0 1.4 38 1-40 623-660 (661)
8 PLN02312 acyl-CoA oxidase 98.3 1.1E-07 2.3E-12 75.8 -0.8 33 1-34 644-678 (680)
9 COG5122 TRS23 Transport protei 62.0 10 0.00022 25.4 2.8 33 29-61 97-132 (134)
10 PF00660 SRP1_TIP1: Seripauper 44.7 6.2 0.00013 25.2 -0.3 50 12-63 41-95 (104)
11 KOG3369 Transport protein part 34.7 58 0.0013 23.2 3.2 34 29-62 161-197 (199)
12 COG5603 TRS20 Subunit of TRAPP 28.8 19 0.00041 24.2 0.0 34 21-60 6-39 (136)
13 PHA02152 hypothetical protein 25.5 23 0.0005 22.4 -0.0 17 4-20 77-93 (96)
14 PF06799 DUF1230: Protein of u 24.9 31 0.00067 23.4 0.5 32 24-62 105-136 (144)
15 PF02222 ATP-grasp: ATP-grasp 24.5 28 0.00061 23.5 0.3 25 4-29 19-43 (172)
16 PF12767 SAGA-Tad1: Transcript 23.7 44 0.00094 23.6 1.1 42 18-63 17-58 (252)
17 PF09077 Phage-MuB_C: Mu B tra 23.5 48 0.001 20.2 1.1 38 2-40 14-54 (78)
18 PF08073 CHDNT: CHDNT (NUC034) 22.9 42 0.00092 19.3 0.8 13 51-63 18-30 (55)
19 PRK13671 hypothetical protein; 20.8 1.4E+02 0.0031 22.2 3.4 49 4-63 84-134 (298)
20 PF14337 DUF4393: Domain of un 20.3 93 0.002 20.5 2.1 30 30-60 38-67 (186)
No 1
>PF01756 ACOX: Acyl-CoA oxidase; InterPro: IPR002655 Acyl-CoA oxidase (ACO) acts on CoA derivatives of fatty acids with chain lengths from 8 to 18. It catalyses the first and rate-determining step of the peroxisomal beta-oxidation of fatty acids []. Acyl-CoA oxidase is a homodimer and the polypeptide chain of the subunit is folded into the N-terminal alpha-domain, beta-domain, and C-terminal alpha-domain []. Functional differences between the peroxisomal acyl-CoA oxidases and the mitochondrial acyl-CoA dehydrogenases are attributed to structural differences in the FAD environments []. Experimental data indicate that, in the pumpkin, the expression pattern of ACOX is very similar to that of the glyoxysomal enzyme 3-ketoacyl-CoA thiolase []. In humans, defects in ACOX1 are the cause of pseudoneonatal adrenoleukodystrophy, also known as peroxisomal acyl-CoA oxidase deficiency. Pseudo-NALD is a peroxisomal single-enzyme disorder. Clinical features include mental retardation, leukodystrophy, seizures, mild hepatomegaly and hearing deficit. Pseudo-NALD is characterised by increased plasma levels of very-long chain fatty acids due to a decrease in, or absence of, peroxisome acyl-CoA oxidase activity, despite the peroxisomes being intact and functioning. This entry represents the Acyl-CoA oxidase C-terminal.; GO: 0003997 acyl-CoA oxidase activity, 0006635 fatty acid beta-oxidation, 0055114 oxidation-reduction process, 0005777 peroxisome; PDB: 2FON_A 1IS2_B 2DDH_A 1W07_B.
Probab=99.96 E-value=2.1e-30 Score=174.86 Aligned_cols=63 Identities=56% Similarity=1.011 Sum_probs=52.7
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHhhh
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWKDPLNDSVVPDGYHEYIRPLLKQQ 63 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l~~~ 63 (69)
|||+|++|||||+|||++|+||||+|||+|||+||++++++|+|++++|+||+++|+|+|+|+
T Consensus 125 lrp~av~LVDAF~~~D~~L~S~iG~~DG~vYe~l~~~a~~~~~n~~~~~~~~~~~lkp~l~~~ 187 (187)
T PF01756_consen 125 LRPNAVALVDAFDFPDFFLNSPIGRYDGDVYEALFEWAKKSPLNQTEVPPWWEEYLKPLLKRK 187 (187)
T ss_dssp HGGGHHHHHHTT---HHHHT-STT-TT--HHHHHHHHHHHSGGGCSSS-TTHHHHTHHHHCT-
T ss_pred HHhHHHHHHHhcCCCHHHHcChhccccchHHHHHHHHHHHCCCCCCCCCchHHHHHHHHHcCC
Confidence 699999999999999999999999999999999999999999999999999999999999874
No 2
>PLN02443 acyl-coenzyme A oxidase
Probab=99.91 E-value=2.4e-25 Score=174.80 Aligned_cols=69 Identities=94% Similarity=1.548 Sum_probs=66.6
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHhhhHhhccC
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWKDPLNDSVVPDGYHEYIRPLLKQQLRNARL 69 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l~~~~~~~kl 69 (69)
|||+|++|||||+|||++|+|+||+|||+|||+||+|++++|+|+++++++|+++|+|+|++++..++|
T Consensus 596 lrp~av~LvDaf~~~d~~L~S~lG~~DG~vYe~l~~~a~~~pln~~~v~~~~~~~l~~~~~~~l~~~~~ 664 (664)
T PLN02443 596 VRPNAVALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWKDPLNDSVVPDGYEEYLRPLLKQQLRTARL 664 (664)
T ss_pred HhHhHHHHhhccCCCHHHhCchhhccCChHHHHHHHHHHhCcCcCCCCCccHHHHHHHHHHhhhhhccC
Confidence 699999999999999999999999999999999999999999999999999999999999998888876
No 3
>KOG0136 consensus Acyl-CoA oxidase [Lipid transport and metabolism]
Probab=99.91 E-value=5.7e-25 Score=173.09 Aligned_cols=67 Identities=55% Similarity=0.964 Sum_probs=63.1
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHhhhHhhccC
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWKDPLNDSVVPDGYHEYIRPLLKQQLRNARL 69 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l~~~~~~~kl 69 (69)
+|||||+|||+|+|+|..|+|+||+|||+|||+||+|++++|+|+.+|+|.|++|++||+++ .+|||
T Consensus 604 iRpnAVaLvDsFd~~D~~L~SvLGryDGnVYenLFewAk~sPlN~~~v~p~~~~yl~P~mk~--~~~kl 670 (670)
T KOG0136|consen 604 IRPNAVALVDSFDFHDRELNSVLGRYDGNVYENLFEWAKKSPLNKSEVLPSYEKYLKPLMKK--ARSKL 670 (670)
T ss_pred hCcCeEEeecccccchhhhcccccccCCchhHHHHHHHhhCccccCcCCchHHHHhhHHHHH--HhhcC
Confidence 69999999999999999999999999999999999999999999999999999999999986 34554
No 4
>PTZ00460 acyl-CoA dehydrogenase; Provisional
Probab=99.82 E-value=6.2e-21 Score=149.52 Aligned_cols=55 Identities=38% Similarity=0.645 Sum_probs=52.6
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHHHh-CCCCCCCCCCCHHHH
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWK-DPLNDSVVPDGYHEY 55 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~~~-~p~n~~~~~~~~~~~ 55 (69)
|||+||+|||||++||++||||||+|||+|||+||+|+++ +|+|+++++++|++.
T Consensus 582 lrp~av~LvDaf~~~d~~L~S~lG~~dg~vY~~l~~~a~~~~p~n~~~v~~~~~~~ 637 (646)
T PTZ00460 582 IKPNALGLVEAFGLSDNSLRSLIGCHDGDPYENMYNWASKENSLNKQQVHQGVNYL 637 (646)
T ss_pred HhHhHHHHhhccCCCHHHhcchhhcccChHHHHHHHHHHHhCCCCCCCCChHHHHH
Confidence 6999999999999999999999999999999999999988 899999999999874
No 5
>cd01150 AXO Peroxisomal acyl-CoA oxidase. Peroxisomal acyl-CoA oxidases (AXO) catalyze the first set in the peroxisomal fatty acid beta-oxidation, the alpha,beta dehydrogenation of the corresponding trans-enoyl-CoA by FAD, which becomes reduced. In a second oxidative half-reaction, the reduced FAD is reoxidized by molecular oxygen. AXO is generally a homodimer, but it has been reported to form a different type of oligomer in yeast. There are several subtypes of AXO's, based on substrate specificity. Palmitoyl-CoA oxidase acts on straight-chain fatty acids and prostanoids; whereas, the closely related Trihydroxycoprostanoly-CoA oxidase has the greatest activity for 2-methyl branched side chains of bile precursors. Pristanoyl-CoA oxidase, acts on 2-methyl branched fatty acids. AXO has an additional domain, C-terminal to the region with similarity to acyl-CoA dehydrogenases, which is included in this alignment.
Probab=99.57 E-value=5.4e-16 Score=120.55 Aligned_cols=40 Identities=60% Similarity=1.028 Sum_probs=38.5
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHHHh
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWK 40 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~~~ 40 (69)
|||+|++|||||++||++|+||||+|||++||+||+|+++
T Consensus 571 lrp~a~~LvDaf~~~d~~l~s~lg~~dg~~y~~l~~~a~~ 610 (610)
T cd01150 571 LRPDAVALVDAFDLPDFVLNSPIGRYDGDVYENLFEEARK 610 (610)
T ss_pred HHHHHHHHhhccCCCHHHhCChhhcccchHHHHHHHHHhC
Confidence 6999999999999999999999999999999999999974
No 6
>PLN02636 acyl-coenzyme A oxidase
Probab=99.03 E-value=5.9e-11 Score=94.12 Aligned_cols=37 Identities=32% Similarity=0.426 Sum_probs=32.6
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHH
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEA 38 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~ 38 (69)
|||+|++|||||++||++|+||||+|||+ |.++.+.|
T Consensus 648 lrp~av~LvDaF~~~d~~L~s~lg~~dg~-~~~~~~~~ 684 (686)
T PLN02636 648 VRNVAKELVDAFGLPDHVTRAPIAMQSGA-YSEYTQYV 684 (686)
T ss_pred HhHhHHHHhcccCCChhhhCcchhccCCc-HHHhhhhc
Confidence 69999999999999999999999999996 56665543
No 7
>KOG0135 consensus Pristanoyl-CoA/acyl-CoA oxidase [Lipid transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=98.80 E-value=1.5e-09 Score=85.97 Aligned_cols=38 Identities=42% Similarity=0.634 Sum_probs=34.8
Q ss_pred CccchhhhhhcccCCccchhccccccCCChHHHHHHHHHh
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGRYDGNVYPKLYEEAWK 40 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~~DG~vYe~l~~~~~~ 40 (69)
+|+.|++|||+|++|||+|+||||+.||..|+ |..+++
T Consensus 623 lr~~A~alvdsi~ppDf~l~SpIa~~dg~~y~--~~~~~~ 660 (661)
T KOG0135|consen 623 LRPVAVALVDSIAPPDFVLHSPIARADGEAYE--WSEVRK 660 (661)
T ss_pred ccHHHHHHHhhcCCchHhhcChhhhcchHHHH--HHHHhc
Confidence 69999999999999999999999999999999 666653
No 8
>PLN02312 acyl-CoA oxidase
Probab=98.28 E-value=1.1e-07 Score=75.80 Aligned_cols=33 Identities=30% Similarity=0.628 Sum_probs=28.8
Q ss_pred CccchhhhhhcccCCccchhccccc--cCCChHHHH
Q 042147 1 VRPNAIALVDAFNYTDHYLGSVLGR--YDGNVYPKL 34 (69)
Q Consensus 1 lr~~av~LvDaf~~~D~~L~S~iG~--~DG~vYe~l 34 (69)
|||+|++|||||++||++|+ |||+ -|++.|++.
T Consensus 644 lrp~Av~LvDaF~~~d~~L~-pi~~~~~~~~~~~~~ 678 (680)
T PLN02312 644 LRPHALALVSSFGIPDAFLS-PIAFDWIEANSWSSV 678 (680)
T ss_pred HhHhHHHHhcccCCChHhcC-chhhhHHhhhhhccc
Confidence 69999999999999999998 9998 667777543
No 9
>COG5122 TRS23 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=62.02 E-value=10 Score=25.37 Aligned_cols=33 Identities=15% Similarity=0.406 Sum_probs=25.2
Q ss_pred ChHHHHHHHHHhCCCCCCCCC---CCHHHHHHHHHh
Q 042147 29 NVYPKLYEEAWKDPLNDSVVP---DGYHEYIRPLLK 61 (69)
Q Consensus 29 ~vYe~l~~~~~~~p~n~~~~~---~~~~~~l~p~l~ 61 (69)
.+|+.|.+.|.+||.-..+-| .-|.+.+|.++.
T Consensus 97 kiY~lYsdYV~knPfys~EMPI~c~lFde~lkrm~e 132 (134)
T COG5122 97 KIYSLYSDYVTKNPFYSPEMPIQCSLFDEHLKRMFE 132 (134)
T ss_pred HHHHHHHHHhhcCCCCCcccceehhhhhHHHHHHhc
Confidence 589999999999997765554 247777777764
No 10
>PF00660 SRP1_TIP1: Seripauperin and TIP1 family; InterPro: IPR000992 It has recently been shown [] that three yeast proteins, two of which are known to be induced by various stress conditions, are structurally related and are probably part of a larger family. These proteins include cold-shock inducible protein TIR1 (also known as serine-rich protein 1, SRP1), which is induced by glucose [] and cold shock []; temperature-shock inducible protein 1 (SRP2) []; seripauperins, which are closely related protein of about 13kDa (120 to 124 residues) and are generally encoded at the extremity of yeast chromosomes (eg. PAU1, PAU2, PAU3, PAU4, PAU5, PAU6, YBR301w, YGL261c, YGR294w, YHL046c, YIL176c, YIR041w and YKL224c) []; and hypothetical proteins YIL011w, YJR150c and YJR151c. These proteins all seem to start with a putative signal sequence followed by a conserved domain of about 90 residues. In TIR1, TIR2, TIP1, YIL011w, YJR150c and YJR151c, this domain is followed by a repetitive serine and alanine rich region absent in the other members of this family.; GO: 0006950 response to stress
Probab=44.68 E-value=6.2 Score=25.16 Aligned_cols=50 Identities=18% Similarity=0.289 Sum_probs=34.3
Q ss_pred ccCCccchh--ccccccCCChHHHHHHHHHhC---CCCCCCCCCCHHHHHHHHHhhh
Q 042147 12 FNYTDHYLG--SVLGRYDGNVYPKLYEEAWKD---PLNDSVVPDGYHEYIRPLLKQQ 63 (69)
Q Consensus 12 f~~~D~~L~--S~iG~~DG~vYe~l~~~~~~~---p~n~~~~~~~~~~~l~p~l~~~ 63 (69)
|.+|+.+++ -.+..+.++-|..++..+--. .+- + .-|||...|.|-+...
T Consensus 41 ~~~P~~v~~~~~~l~t~tddsyTTl~~~idf~~v~s~i-T-~lPWYSsRL~p~i~s~ 95 (104)
T PF00660_consen 41 FTLPQGVLDLYMALATYTDDSYTTLFSEIDFSQVTSFI-T-GLPWYSSRLEPAIASA 95 (104)
T ss_pred CCCcHHHHHHHHHHHhcCcchhhHHHhcCCHHHHHHHH-H-cCCchHHHhhHHHHHh
Confidence 578888887 455667778899998765211 122 2 3479999999988764
No 11
>KOG3369 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.72 E-value=58 Score=23.23 Aligned_cols=34 Identities=21% Similarity=0.416 Sum_probs=24.5
Q ss_pred ChHHHHHHHHHhCCCCCCCCC---CCHHHHHHHHHhh
Q 042147 29 NVYPKLYEEAWKDPLNDSVVP---DGYHEYIRPLLKQ 62 (69)
Q Consensus 29 ~vYe~l~~~~~~~p~n~~~~~---~~~~~~l~p~l~~ 62 (69)
.+||.|.+.|.+||.=..+-| .-|.+.|+.++.+
T Consensus 161 KiYelYsDyvlKNPfYSlEMPIRc~lFDe~lk~~le~ 197 (199)
T KOG3369|consen 161 KIYELYSDYVLKNPFYSLEMPIRCELFDEKLKFLLES 197 (199)
T ss_pred HHHHHHHHHhhcCCccCcccceeHHHhhHHHHHHHhh
Confidence 689999999999997655544 2466666666543
No 12
>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]
Probab=28.84 E-value=19 Score=24.17 Aligned_cols=34 Identities=24% Similarity=0.622 Sum_probs=24.6
Q ss_pred ccccccCCChHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 042147 21 SVLGRYDGNVYPKLYEEAWKDPLNDSVVPDGYHEYIRPLL 60 (69)
Q Consensus 21 S~iG~~DG~vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l 60 (69)
.-||..|--|||..++ |.|++.. +.|...|.||+
T Consensus 6 aIIg~KdnpVYe~e~~-----~~n~~~d-~~~~~~ln~fi 39 (136)
T COG5603 6 AIIGEKDNPVYEREYD-----PINKTSD-GEYCRLLNQFI 39 (136)
T ss_pred EEEecCCCceeeeeec-----CcCcccC-HHHHHHHhHHh
Confidence 5689999999998887 6664433 24666777775
No 13
>PHA02152 hypothetical protein
Probab=25.46 E-value=23 Score=22.39 Aligned_cols=17 Identities=12% Similarity=0.362 Sum_probs=14.4
Q ss_pred chhhhhhcccCCccchh
Q 042147 4 NAIALVDAFNYTDHYLG 20 (69)
Q Consensus 4 ~av~LvDaf~~~D~~L~ 20 (69)
..|.|+..|++.||.|.
T Consensus 77 ~ii~li~sfd~~~fs~~ 93 (96)
T PHA02152 77 TIVGLIKTFDPYEFSME 93 (96)
T ss_pred HHHhhhhccCHHHhchh
Confidence 36889999999999873
No 14
>PF06799 DUF1230: Protein of unknown function (DUF1230); InterPro: IPR009631 This family represents Ycf36, which is found in plants, encoded in the genomes of algal chloroplasts and in cyanobacteria. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=24.87 E-value=31 Score=23.39 Aligned_cols=32 Identities=34% Similarity=0.524 Sum_probs=20.5
Q ss_pred cccCCChHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHhh
Q 042147 24 GRYDGNVYPKLYEEAWKDPLNDSVVPDGYHEYIRPLLKQ 62 (69)
Q Consensus 24 G~~DG~vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l~~ 62 (69)
|=|||+++++=-++..+..+-. .--++|+|+|
T Consensus 105 GWYDGQ~W~Kp~e~l~rDrLi~-------~yqVkPiL~R 136 (144)
T PF06799_consen 105 GWYDGQVWVKPPEVLARDRLIG-------SYQVKPILSR 136 (144)
T ss_pred CccCCccccCCHHHHHHHHHHh-------hhhhhHHHHH
Confidence 6688888877766665554331 1136888876
No 15
>PF02222 ATP-grasp: ATP-grasp domain; InterPro: IPR003135 The ATP-grasp domain has an unusual nucleotide-binding fold, also referred to as palmate, and is found in a superfamily of enzymes including D-alanine-D-alanine ligase, glutathione synthetase, biotin carboxylase, and carbamoyl phosphate synthetase, the ribosomal protein S6 modification enzyme (RimK), urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis. This family does not contain all known ATP-grasp domain members. All the enzymes of this family possess ATP-dependent carboxylate-amine ligase activity, and their catalytic mechanisms are likely to include acylphosphate intermediates.; PDB: 3K5H_C 3K5I_C 3AX6_A 3Q2O_B 3QFF_B 3R5H_A 3ORQ_B 3ORR_B 4E4T_B 2Z04_A ....
Probab=24.51 E-value=28 Score=23.50 Aligned_cols=25 Identities=20% Similarity=0.426 Sum_probs=20.4
Q ss_pred chhhhhhcccCCccchhccccccCCC
Q 042147 4 NAIALVDAFNYTDHYLGSVLGRYDGN 29 (69)
Q Consensus 4 ~av~LvDaf~~~D~~L~S~iG~~DG~ 29 (69)
+....++.+++|- +|.++.|-|||+
T Consensus 19 ~l~~a~~~iG~P~-vlK~~~~GYDGk 43 (172)
T PF02222_consen 19 DLEEAAESIGFPA-VLKTRRGGYDGK 43 (172)
T ss_dssp HHHHHHHHHTSSE-EEEESSSSCTTT
T ss_pred HHHHHHHHcCCCE-EEEccCcCcCCC
Confidence 3456678889996 899999999985
No 16
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=23.66 E-value=44 Score=23.58 Aligned_cols=42 Identities=17% Similarity=0.185 Sum_probs=31.0
Q ss_pred chhccccccCCChHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHhhh
Q 042147 18 YLGSVLGRYDGNVYPKLYEEAWKDPLNDSVVPDGYHEYIRPLLKQQ 63 (69)
Q Consensus 18 ~L~S~iG~~DG~vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l~~~ 63 (69)
.|...||......|-.++.......+++. .|.+.+..+|.+.
T Consensus 17 ~l~~~LG~~~~~~Y~~~l~~fl~~klsk~----Efd~~~~~~L~~~ 58 (252)
T PF12767_consen 17 QLQKRLGPDRWKKYFQSLKRFLSGKLSKE----EFDKECRRILGRE 58 (252)
T ss_pred HHHHHHChHHHHHHHHHHHHHHHhccCHH----HHHHHHHHHhChh
Confidence 36678888888888888887777777753 3777777777654
No 17
>PF09077 Phage-MuB_C: Mu B transposition protein, C terminal ; InterPro: IPR009084 Bacteriophage Mu can integrate into the host bacterial genome and replicate via transposition. Mu requires the activity of four proteins for DNA transposition. Two of these proteins are the phage-encoded A and B transposition proteins, while the other two are host-specified accessory factors HU and IHF. These four proteins can form nucleoprotein complexes (transposomes), which enable strand transfer. The stable protein-DNA intermediate is subsequently disassembled prior to DNA replication by host proteins. The Mu B transposition protein is an ATP-dependent, DNA-binding protein required for target capture and immunity, as well as for activating transpososome function []. The C-terminal domain of the B transposition protein is believed to be involved in both DNA-binding and protein-protein contacts with the Mu A transposition protein. The structure of the C-terminal domain consists of four helices in an irregular array [].; GO: 0003677 DNA binding, 0006313 transposition, DNA-mediated; PDB: 1F6V_A.
Probab=23.50 E-value=48 Score=20.18 Aligned_cols=38 Identities=16% Similarity=0.167 Sum_probs=25.4
Q ss_pred ccchhhhhhcccCCccch---hccccccCCChHHHHHHHHHh
Q 042147 2 RPNAIALVDAFNYTDHYL---GSVLGRYDGNVYPKLYEEAWK 40 (69)
Q Consensus 2 r~~av~LvDaf~~~D~~L---~S~iG~~DG~vYe~l~~~~~~ 40 (69)
++|..++++||++.|-.. -..||..-|-. ..+-+..+.
T Consensus 14 ~~Di~Ai~~AWgI~d~~~~~~l~~I~~k~GaL-R~l~ktLrl 54 (78)
T PF09077_consen 14 KADIKAIAKAWGITDKEERKLLQSIAEKPGAL-RQLTKTLRL 54 (78)
T ss_dssp GGGTTHHHHSSSSSSSHHHHHHHTTSSS-S-H-HHHHHHHGG
T ss_pred HHHHHHHHHHhCCCCHHHHHHHHHHcccccHH-HHHHHHHHH
Confidence 468899999999987654 35688887744 555554443
No 18
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.92 E-value=42 Score=19.31 Aligned_cols=13 Identities=31% Similarity=0.749 Sum_probs=9.4
Q ss_pred CHHHHHHHHHhhh
Q 042147 51 GYHEYIRPLLKQQ 63 (69)
Q Consensus 51 ~~~~~l~p~l~~~ 63 (69)
.|..+++|++...
T Consensus 18 ~Fsq~vRP~l~~~ 30 (55)
T PF08073_consen 18 AFSQHVRPLLAKA 30 (55)
T ss_pred HHHHHHHHHHHHH
Confidence 3677888888765
No 19
>PRK13671 hypothetical protein; Provisional
Probab=20.84 E-value=1.4e+02 Score=22.16 Aligned_cols=49 Identities=18% Similarity=0.327 Sum_probs=34.3
Q ss_pred chhhhhhcccCCccchhccccccCCCh--HHHHHHHHHhCCCCCCCCCCCHHHHHHHHHhhh
Q 042147 4 NAIALVDAFNYTDHYLGSVLGRYDGNV--YPKLYEEAWKDPLNDSVVPDGYHEYIRPLLKQQ 63 (69)
Q Consensus 4 ~av~LvDaf~~~D~~L~S~iG~~DG~v--Ye~l~~~~~~~p~n~~~~~~~~~~~l~p~l~~~ 63 (69)
.||+|.++.+ =|++ ++|.-.|++ +..+.+...++ ++.|++.++..|+++
T Consensus 84 gaV~lL~~lg-vd~l---~FGsE~~d~~~l~~~a~~l~~~-------~~~~~~~l~~~l~~G 134 (298)
T PRK13671 84 GAIKKLNKEK-IDKL---IFGSESNDIELMYKIANTIKEN-------EEEYNQLLKKNLKQG 134 (298)
T ss_pred HHHHHHHHcC-CCEE---EECCCCCCHHHHHHHHHHHHhC-------cHHHHHHHHHHHHCC
Confidence 4788999999 5665 499999985 55555444432 345778888777765
No 20
>PF14337 DUF4393: Domain of unknown function (DUF4393)
Probab=20.35 E-value=93 Score=20.50 Aligned_cols=30 Identities=20% Similarity=0.312 Sum_probs=18.8
Q ss_pred hHHHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q 042147 30 VYPKLYEEAWKDPLNDSVVPDGYHEYIRPLL 60 (69)
Q Consensus 30 vYe~l~~~~~~~p~n~~~~~~~~~~~l~p~l 60 (69)
.|.+|...+.....+ ..++|.|-++|+.+-
T Consensus 38 mfa~LLass~d~~~~-~~~hp~fv~Ii~qLs 67 (186)
T PF14337_consen 38 MFANLLASSMDKRKN-DDVHPSFVEIIKQLS 67 (186)
T ss_pred HHHHHHHHHhCcCcc-ccccHHHHHHHHhCC
Confidence 445555444443333 458899999988874
Done!