Query 047334
Match_columns 364
No_of_seqs 280 out of 1206
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 10:07:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047334.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047334hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00018 AP2 DNA-binding domain 99.8 2.4E-20 5.2E-25 140.5 7.1 61 208-269 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 1.8E-19 4E-24 137.4 8.0 63 209-272 1-63 (64)
3 PHA00280 putative NHN endonucl 99.6 5.7E-15 1.2E-19 127.5 6.7 64 196-263 55-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.2 2.3E-11 4.9E-16 89.5 6.3 53 208-260 1-56 (56)
5 PHA02601 int integrase; Provis 76.7 3.8 8.3E-05 38.9 4.6 45 212-257 2-46 (333)
6 PF14657 Integrase_AP2: AP2-li 76.1 8.3 0.00018 27.7 5.2 38 220-257 1-41 (46)
7 cd00801 INT_P4 Bacteriophage P 46.3 43 0.00092 31.3 5.4 39 218-257 9-49 (357)
8 PF05036 SPOR: Sporulation rel 38.0 22 0.00048 26.2 1.7 23 232-254 43-65 (76)
9 PF13356 DUF4102: Domain of un 35.9 1E+02 0.0022 24.6 5.3 43 214-257 28-74 (89)
10 PF08471 Ribonuc_red_2_N: Clas 35.1 38 0.00082 28.9 2.8 20 238-257 71-90 (93)
11 PRK09692 integrase; Provisiona 34.0 1.1E+02 0.0023 30.6 6.2 43 213-255 33-80 (413)
12 PF00352 TBP: Transcription fa 25.3 1.9E+02 0.0041 23.2 5.2 46 208-257 36-82 (86)
13 COG0197 RplP Ribosomal protein 24.2 1.1E+02 0.0024 28.0 4.0 36 221-260 96-131 (146)
14 PF07913 DUF1678: Protein of u 24.1 73 0.0016 30.3 2.9 39 205-243 28-73 (201)
15 PF08846 DUF1816: Domain of un 22.2 1.9E+02 0.004 23.4 4.5 40 219-259 8-47 (68)
16 PF14986 DUF4514: Domain of un 21.6 62 0.0013 25.5 1.6 37 40-76 17-53 (61)
17 cd04516 TBP_eukaryotes eukaryo 21.2 3.8E+02 0.0082 24.7 7.0 49 206-258 32-81 (174)
18 PLN00062 TATA-box-binding prot 20.6 3.9E+02 0.0085 24.9 7.0 49 206-258 32-81 (179)
19 cd04517 TLF TBP-like factors ( 20.2 2.8E+02 0.0061 25.5 5.9 45 209-257 35-80 (174)
No 1
>cd00018 AP2 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies.
Probab=99.82 E-value=2.4e-20 Score=140.46 Aligned_cols=61 Identities=74% Similarity=1.275 Sum_probs=56.9
Q ss_pred CceeeeEEcCCCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 047334 208 KHYRGVRRRPWGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLRGSKAILNFPLE 269 (364)
Q Consensus 208 SgYRGV~~r~~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~G~~A~lNFP~~ 269 (364)
|+|+||+++++|||+|+|+++. .|+++|||+|+|+||||+|||.|+++++|.++.+|||++
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~-~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPS-GGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCC-CCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 6899999999999999999954 278999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.80 E-value=1.8e-19 Score=137.44 Aligned_cols=63 Identities=71% Similarity=1.212 Sum_probs=58.8
Q ss_pred ceeeeEEcCCCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCCcCC
Q 047334 209 HYRGVRRRPWGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLRGSKAILNFPLEAGK 272 (364)
Q Consensus 209 gYRGV~~r~~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~G~~A~lNFP~~~~~ 272 (364)
+|+||+++++|||+|+|+++. +|+++|||+|+|+||||+|||.|+.+++|.++.+|||.+.|.
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~-~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~ 63 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPS-KGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD 63 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecC-CCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence 599999988999999999976 478999999999999999999999999999999999998774
No 3
>PHA00280 putative NHN endonuclease
Probab=99.56 E-value=5.7e-15 Score=127.48 Aligned_cols=64 Identities=16% Similarity=0.134 Sum_probs=57.4
Q ss_pred ccccCCCCCCCCCceeeeEEcC-CCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCC
Q 047334 196 RKSKAKPESSEEKHYRGVRRRP-WGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLRGSKAI 263 (364)
Q Consensus 196 ~~~~~k~~~~ntSgYRGV~~r~-~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~G~~A~ 263 (364)
|+.+++..++|+|||+||++++ .|||+|+|++ +||+++||.|+++|+|+.||+ ++.++||++|.
T Consensus 55 N~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~---~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 55 NSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTA---EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred HhcccCCCCCCCCCCCeeEEecCCCeEEEEEEE---CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 4556667889999999999877 7999999999 899999999999999999997 77889999985
No 4
>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes. Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.
Probab=99.23 E-value=2.3e-11 Score=89.49 Aligned_cols=53 Identities=34% Similarity=0.444 Sum_probs=46.7
Q ss_pred CceeeeEEcC-CCceEEEEecCCCCC--eEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 047334 208 KHYRGVRRRP-WGKYAAEIRDPTRRG--VRVWLGTFDTAIEAARAYDRAAFQLRGS 260 (364)
Q Consensus 208 SgYRGV~~r~-~GKW~A~I~~~~k~G--krv~LGtFdT~EEAArAYD~AA~k~~G~ 260 (364)
|+|+||++++ .++|+|+|++...+| ++++||.|++++||++||+.++.+++|+
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e 56 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE 56 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence 6899999887 799999999853333 8999999999999999999999999885
No 5
>PHA02601 int integrase; Provisional
Probab=76.69 E-value=3.8 Score=38.89 Aligned_cols=45 Identities=29% Similarity=0.282 Sum_probs=31.7
Q ss_pred eeEEcCCCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 047334 212 GVRRRPWGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQL 257 (364)
Q Consensus 212 GV~~r~~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~ 257 (364)
||++.+.|+|+++++.....|+++.- +|.|..||.+..+.....+
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~~-~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIRK-RFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhhh-hhcCHHHHHHHHHHHHHhc
Confidence 56666789999999864445776653 6999999877666554444
No 6
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=76.14 E-value=8.3 Score=27.73 Aligned_cols=38 Identities=18% Similarity=0.135 Sum_probs=28.9
Q ss_pred ceEEEEe-cC--CCCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 047334 220 KYAAEIR-DP--TRRGVRVWLGTFDTAIEAARAYDRAAFQL 257 (364)
Q Consensus 220 KW~A~I~-~~--~k~Gkrv~LGtFdT~EEAArAYD~AA~k~ 257 (364)
+|..+|. .. .++.++++-+-|.|..||..+...+...+
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~ 41 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAEL 41 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHH
Confidence 5888883 32 33347788999999999999998877665
No 7
>cd00801 INT_P4 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall reaction mechanism with the superfamily of DNA breaking-rejoining enzymes. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes.
Probab=46.34 E-value=43 Score=31.34 Aligned_cols=39 Identities=26% Similarity=0.270 Sum_probs=27.4
Q ss_pred CCceEEEEecCCCCCeEEeecCCC--CHHHHHHHHHHHHHHh
Q 047334 218 WGKYAAEIRDPTRRGVRVWLGTFD--TAIEAARAYDRAAFQL 257 (364)
Q Consensus 218 ~GKW~A~I~~~~k~Gkrv~LGtFd--T~EEAArAYD~AA~k~ 257 (364)
.+.|+.+++..+++ +++.||+|+ +.++|....+.....+
T Consensus 9 ~~~~~~~~~~~g~~-~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAGKR-KRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCCce-eEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 45699999885433 568899995 6777777666655544
No 8
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=38.02 E-value=22 Score=26.22 Aligned_cols=23 Identities=30% Similarity=0.352 Sum_probs=19.2
Q ss_pred CeEEeecCCCCHHHHHHHHHHHH
Q 047334 232 GVRVWLGTFDTAIEAARAYDRAA 254 (364)
Q Consensus 232 Gkrv~LGtFdT~EEAArAYD~AA 254 (364)
.-+|.+|.|++.++|..+-....
T Consensus 43 ~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 43 WYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp CEEEEECCECTCCHHHHHHHHHH
T ss_pred eEEEEECCCCCHHHHHHHHHHHh
Confidence 35799999999999988877655
No 9
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=35.87 E-value=1e+02 Score=24.58 Aligned_cols=43 Identities=19% Similarity=0.166 Sum_probs=25.9
Q ss_pred EEcCC--CceEEEEecCCCCCeEEeecCCCC--HHHHHHHHHHHHHHh
Q 047334 214 RRRPW--GKYAAEIRDPTRRGVRVWLGTFDT--AIEAARAYDRAAFQL 257 (364)
Q Consensus 214 ~~r~~--GKW~A~I~~~~k~Gkrv~LGtFdT--~EEAArAYD~AA~k~ 257 (364)
+..+. ..|.-+.+..++ .+++-||.|.. ..+|..........+
T Consensus 28 ~v~~~G~kt~~~r~~~~gk-~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 28 RVTPSGSKTFYFRYRINGK-RRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EE-TTS-EEEEEEEEETTE-EEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred EEEeCCCeEEEEEEEecce-EEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 34444 349988877543 36789999976 555555544444333
No 10
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=35.08 E-value=38 Score=28.94 Aligned_cols=20 Identities=35% Similarity=0.564 Sum_probs=17.9
Q ss_pred cCCCCHHHHHHHHHHHHHHh
Q 047334 238 GTFDTAIEAARAYDRAAFQL 257 (364)
Q Consensus 238 GtFdT~EEAArAYD~AA~k~ 257 (364)
|+|+|+|+|..-||..+..+
T Consensus 71 GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 71 GYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCcCCHHHHHHHHHHHHHHH
Confidence 99999999999999987654
No 11
>PRK09692 integrase; Provisional
Probab=33.98 E-value=1.1e+02 Score=30.57 Aligned_cols=43 Identities=14% Similarity=0.175 Sum_probs=26.0
Q ss_pred eEEcCCC--ceEEEEecC-CCCCeEEeecCCC--CHHHHHHHHHHHHH
Q 047334 213 VRRRPWG--KYAAEIRDP-TRRGVRVWLGTFD--TAIEAARAYDRAAF 255 (364)
Q Consensus 213 V~~r~~G--KW~A~I~~~-~k~Gkrv~LGtFd--T~EEAArAYD~AA~ 255 (364)
|+.++.| .|+.+.+.+ +++.+++-||.|. |..+|..+..++..
T Consensus 33 l~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~~~ 80 (413)
T PRK09692 33 LLIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAESRS 80 (413)
T ss_pred EEEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHHHH
Confidence 4455544 499888643 2233447899999 66666555444433
No 12
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=25.28 E-value=1.9e+02 Score=23.15 Aligned_cols=46 Identities=24% Similarity=0.208 Sum_probs=34.3
Q ss_pred CceeeeEEcC-CCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 047334 208 KHYRGVRRRP-WGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQL 257 (364)
Q Consensus 208 SgYRGV~~r~-~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~ 257 (364)
.+|.||..|- .-+-.+.|.. .||-+..|. .+.++|..|+++....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF~---sGki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIFS---SGKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEET---TSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEEc---CCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 4688987655 3567777777 788777775 78999999998877654
No 13
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=24.22 E-value=1.1e+02 Score=28.04 Aligned_cols=36 Identities=25% Similarity=0.142 Sum_probs=31.1
Q ss_pred eEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 047334 221 YAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLRGS 260 (364)
Q Consensus 221 W~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~G~ 260 (364)
|.|+|.. |+.++-=..+.++.|..|..+|+.|+=+.
T Consensus 96 waArVkp----G~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 96 WAARVKP----GRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEecC----CcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 9999976 67788888889999999999999988654
No 14
>PF07913 DUF1678: Protein of unknown function (DUF1678); InterPro: IPR012465 This family is composed of uncharacterised proteins expressed by Methanopyrus kandleri, a hyperthermophilic archaeon.
Probab=24.06 E-value=73 Score=30.25 Aligned_cols=39 Identities=31% Similarity=0.434 Sum_probs=26.8
Q ss_pred CCCCceeeeEEcC-CCc-----eEEEEecCC-CCCeEEeecCCCCH
Q 047334 205 SEEKHYRGVRRRP-WGK-----YAAEIRDPT-RRGVRVWLGTFDTA 243 (364)
Q Consensus 205 ~ntSgYRGV~~r~-~GK-----W~A~I~~~~-k~Gkrv~LGtFdT~ 243 (364)
+++.-+-||+++. +|+ |+|+-++.. ++|+++|||--+++
T Consensus 28 Rg~~P~levtYRtvnG~tcGPYYvARWr~~r~~~GRTlYLGk~eNe 73 (201)
T PF07913_consen 28 RGKKPSLEVTYRTVNGSTCGPYYVARWRDSRFERGRTLYLGKPENE 73 (201)
T ss_pred cccCCccceeEEecCCcccCcceeeeecCccccCCceeeccCCcCc
Confidence 3455567787766 565 667666432 57999999988763
No 15
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=22.21 E-value=1.9e+02 Score=23.43 Aligned_cols=40 Identities=23% Similarity=0.250 Sum_probs=28.7
Q ss_pred CceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcC
Q 047334 219 GKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLRG 259 (364)
Q Consensus 219 GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~G 259 (364)
-.|=++|.-..-+ -..|.|-|+|.+||..+.-.-...+..
T Consensus 8 laWWveI~T~~P~-ctYyFGPF~s~~eA~~~~~gyieDL~~ 47 (68)
T PF08846_consen 8 LAWWVEIETQNPN-CTYYFGPFDSREEAEAALPGYIEDLES 47 (68)
T ss_pred CcEEEEEEcCCCC-EEEEeCCcCCHHHHHHHhccHHHHHHh
Confidence 3477888764333 578999999999999986655554443
No 16
>PF14986 DUF4514: Domain of unknown function (DUF4514)
Probab=21.57 E-value=62 Score=25.50 Aligned_cols=37 Identities=27% Similarity=0.311 Sum_probs=24.8
Q ss_pred EEEeccccchhhHHhhhcCccccchHHHHHhhhcCCC
Q 047334 40 FLRFKNSIRDTACLVAMATPIEKSALEFIEQHLFGEN 76 (364)
Q Consensus 40 ~~~~~~~~~~~~~~~~MAt~~E~SaL~~I~~hLl~d~ 76 (364)
-..||-.|--||.-|+...-==+.-+.+||+||.++=
T Consensus 17 eid~KYa~IGtalGvaisAgFLaLKicmIrkhlfD~d 53 (61)
T PF14986_consen 17 EIDIKYAIIGTALGVAISAGFLALKICMIRKHLFDND 53 (61)
T ss_pred eeeeeeeeehhHHHHHHHHHHHHHHHHHHHHhhccCc
Confidence 3567878888887777654222334568999997753
No 17
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=21.18 E-value=3.8e+02 Score=24.74 Aligned_cols=49 Identities=22% Similarity=0.140 Sum_probs=37.0
Q ss_pred CCCceeeeEEcC-CCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhc
Q 047334 206 EEKHYRGVRRRP-WGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLR 258 (364)
Q Consensus 206 ntSgYRGV~~r~-~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~ 258 (364)
+..+|-||..|- .-|=.+.|.. .||-+--|. .++|+|..|.++.+..+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~---SGKiviTGa-ks~e~a~~a~~~i~~~L~ 81 (174)
T cd04516 32 NPKRFAAVIMRIREPKTTALIFS---SGKMVCTGA-KSEDDSKLAARKYARIIQ 81 (174)
T ss_pred CCccCcEEEEEeCCCcEEEEEEC---CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 345788987665 4567788887 788777776 578899999998887763
No 18
>PLN00062 TATA-box-binding protein; Provisional
Probab=20.58 E-value=3.9e+02 Score=24.86 Aligned_cols=49 Identities=22% Similarity=0.145 Sum_probs=36.4
Q ss_pred CCCceeeeEEcC-CCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHhc
Q 047334 206 EEKHYRGVRRRP-WGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQLR 258 (364)
Q Consensus 206 ntSgYRGV~~r~-~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~~ 258 (364)
+..+|-||..|- .-|=.+.|.. .||-+--|. .++|+|..|.++.+..+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~---SGKiviTGa-ks~e~a~~a~~~~~~~L~ 81 (179)
T PLN00062 32 NPKRFAAVIMRIREPKTTALIFA---SGKMVCTGA-KSEHDSKLAARKYARIIQ 81 (179)
T ss_pred CCccCcEEEEEeCCCcEEEEEEC---CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 345789987665 4667788887 677665564 788999999998887763
No 19
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=20.23 E-value=2.8e+02 Score=25.53 Aligned_cols=45 Identities=29% Similarity=0.210 Sum_probs=35.0
Q ss_pred ceeeeEEcC-CCceEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 047334 209 HYRGVRRRP-WGKYAAEIRDPTRRGVRVWLGTFDTAIEAARAYDRAAFQL 257 (364)
Q Consensus 209 gYRGV~~r~-~GKW~A~I~~~~k~Gkrv~LGtFdT~EEAArAYD~AA~k~ 257 (364)
+|.||..|- .-|=.+.|+. .||-+--| ..+.|+|++|.++.+..+
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~---sGKiviTG-aks~~~~~~a~~~~~~~l 80 (174)
T cd04517 35 RYPKVTMRLREPRATASVWS---SGKITITG-ATSEEEAKQAARRAARLL 80 (174)
T ss_pred CCCEEEEEecCCcEEEEEEC---CCeEEEEc-cCCHHHHHHHHHHHHHHH
Confidence 899998665 4677888888 77755555 588999999999887766
Done!