Query 039390
Match_columns 263
No_of_seqs 225 out of 1185
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 09:11:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039390.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039390hhsearch_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 6.5E-21 1.4E-25 138.0 7.5 61 154-214 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 5.9E-20 1.3E-24 134.6 8.0 62 155-216 1-62 (64)
3 PHA00280 putative NHN endonucl 99.5 1.5E-13 3.3E-18 113.9 7.4 59 147-208 60-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.1 1.3E-10 2.8E-15 82.1 6.1 52 154-205 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 80.3 6.3 0.00014 27.0 5.4 38 166-203 1-42 (46)
6 PHA02601 int integrase; Provis 65.0 8.8 0.00019 34.9 4.0 44 158-202 2-46 (333)
7 cd00801 INT_P4 Bacteriophage P 56.7 28 0.00061 31.1 5.7 39 164-202 9-49 (357)
8 PF08846 DUF1816: Domain of un 47.1 44 0.00094 25.6 4.5 41 166-206 9-49 (68)
9 PF10729 CedA: Cell division a 46.5 40 0.00088 26.3 4.3 42 152-196 29-70 (80)
10 PRK09692 integrase; Provisiona 41.9 72 0.0016 30.3 6.2 42 159-200 33-80 (413)
11 PF05036 SPOR: Sporulation rel 41.3 19 0.0004 25.4 1.7 24 176-199 42-65 (76)
12 PF13356 DUF4102: Domain of un 36.6 1E+02 0.0022 23.4 5.2 41 160-200 28-72 (89)
13 PF08471 Ribonuc_red_2_N: Clas 33.8 43 0.00093 27.2 2.8 20 183-202 71-90 (93)
14 COG0197 RplP Ribosomal protein 29.3 84 0.0018 27.4 4.1 37 166-205 95-131 (146)
15 PRK10113 cell division modulat 26.2 51 0.0011 25.7 2.0 41 153-196 30-70 (80)
16 PF14112 DUF4284: Domain of un 20.6 67 0.0015 26.5 1.8 18 178-195 2-19 (122)
17 PLN00062 TATA-box-binding prot 20.4 4.8E+02 0.01 23.1 7.3 47 154-203 34-81 (179)
18 cd04516 TBP_eukaryotes eukaryo 20.4 4.9E+02 0.011 22.8 7.3 47 154-203 34-81 (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=99.84 E-value=6.5e-21 Score=137.97 Aligned_cols=61 Identities=74% Similarity=1.319 Sum_probs=57.5
Q ss_pred CCeeeeEECCCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCc
Q 039390 154 RKYRGVRQRPWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFRGNKAKLNFPEN 214 (263)
Q Consensus 154 S~YRGVr~r~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~G~~A~lNFP~~ 214 (263)
|+|+||+++++|||+|+|+++..|+++|||+|+|+||||+|||.++++++|.++.+|||++
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 6899998888899999999955599999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.81 E-value=5.9e-20 Score=134.63 Aligned_cols=62 Identities=76% Similarity=1.350 Sum_probs=58.8
Q ss_pred CeeeeEECCCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCccc
Q 039390 155 KYRGVRQRPWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFRGNKAKLNFPENVK 216 (263)
Q Consensus 155 ~YRGVr~r~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~G~~A~lNFP~~~~ 216 (263)
+|+||+++++|||+|+|+++.+++.+|||+|+|+||||+|||.++++++|.++.+|||...+
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y 62 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLY 62 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccC
Confidence 59999888899999999999999999999999999999999999999999999999998654
No 3
>PHA00280 putative NHN endonuclease
Probab=99.46 E-value=1.5e-13 Score=113.89 Aligned_cols=59 Identities=14% Similarity=0.216 Sum_probs=53.1
Q ss_pred CCCCCCCCCeeeeE-ECCCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhcCCCCC
Q 039390 147 SIVPEPRRKYRGVR-QRPWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFRGNKAK 208 (263)
Q Consensus 147 ~~~~~~tS~YRGVr-~r~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~G~~A~ 208 (263)
+..+.++|+|+||. .+..|||+|+|.+ +||+++||.|+++|+|+.||+ ++.+|+|++|.
T Consensus 60 ~~~~~N~SG~kGV~~~k~~~kw~A~I~~--~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 60 KTPKSNTSGLKGLSWSKEREMWRGTVTA--EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred CCCCCCCCCCCeeEEecCCCeEEEEEEE--CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 45678999999995 5567999999999 999999999999999999997 77899999885
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=99.13 E-value=1.3e-10 Score=82.08 Aligned_cols=52 Identities=35% Similarity=0.534 Sum_probs=44.8
Q ss_pred CCeeeeE-ECCCCeEEEEEeCCCC---CeeEeccCCCCHHHHHHHHHHHHHhhcCC
Q 039390 154 RKYRGVR-QRPWGKWAAEIRDPFK---AARVWLGTFDTAEDAARAYDEAALRFRGN 205 (263)
Q Consensus 154 S~YRGVr-~r~~GKW~A~I~~p~~---gkri~LGtFdT~EEAArAYD~AAl~l~G~ 205 (263)
|+|+||+ .+..++|+|+|+++.. +++++||.|++++||++||+.++++++|+
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 6899995 4557999999998422 49999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=80.29 E-value=6.3 Score=26.97 Aligned_cols=38 Identities=16% Similarity=0.236 Sum_probs=29.2
Q ss_pred eEEEEEe--CCCCC--eeEeccCCCCHHHHHHHHHHHHHhhc
Q 039390 166 KWAAEIR--DPFKA--ARVWLGTFDTAEDAARAYDEAALRFR 203 (263)
Q Consensus 166 KW~A~I~--~p~~g--kri~LGtFdT~EEAArAYD~AAl~l~ 203 (263)
+|...|. ++..| ++++-+-|.|..||..+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5888883 44344 67889999999999999888766553
No 6
>PHA02601 int integrase; Provisional
Probab=64.99 E-value=8.8 Score=34.85 Aligned_cols=44 Identities=25% Similarity=0.274 Sum_probs=30.5
Q ss_pred eeEECCCCeEEEEEeCC-CCCeeEeccCCCCHHHHHHHHHHHHHhh
Q 039390 158 GVRQRPWGKWAAEIRDP-FKAARVWLGTFDTAEDAARAYDEAALRF 202 (263)
Q Consensus 158 GVr~r~~GKW~A~I~~p-~~gkri~LGtFdT~EEAArAYD~AAl~l 202 (263)
+|++.++|+|+++|+.. ..|+++.. +|.|..||....+.....+
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 56777789999999852 23666653 6999999876665544433
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=56.73 E-value=28 Score=31.13 Aligned_cols=39 Identities=26% Similarity=0.305 Sum_probs=28.5
Q ss_pred CCeEEEEEeCCCCCeeEeccCCC--CHHHHHHHHHHHHHhh
Q 039390 164 WGKWAAEIRDPFKAARVWLGTFD--TAEDAARAYDEAALRF 202 (263)
Q Consensus 164 ~GKW~A~I~~p~~gkri~LGtFd--T~EEAArAYD~AAl~l 202 (263)
.+.|..+++..++.+++.||+|+ +.++|..........+
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 35799999996666678899995 6777777666654444
No 8
>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=47.15 E-value=44 Score=25.64 Aligned_cols=41 Identities=22% Similarity=0.361 Sum_probs=30.3
Q ss_pred eEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhcCCC
Q 039390 166 KWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFRGNK 206 (263)
Q Consensus 166 KW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~G~~ 206 (263)
.|=++|.--.-.-..|.|-|++.+||..+.-.-...+..+.
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL~~Eg 49 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDLESEG 49 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHHHhhC
Confidence 36688888555788999999999999888665554444433
No 9
>PF10729 CedA: Cell division activator CedA; InterPro: IPR019666 CedA is made up of four antiparallel beta-strands and an alpha-helix. It activates cell division by inhibiting chromosome over-replication. This is mediated by binding to dsDNA via the beta-sheet [, ]. ; GO: 0003677 DNA binding, 0051301 cell division; PDB: 2BN8_A 2D35_A.
Probab=46.47 E-value=40 Score=26.34 Aligned_cols=42 Identities=24% Similarity=0.172 Sum_probs=28.4
Q ss_pred CCCCeeeeEECCCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHH
Q 039390 152 PRRKYRGVRQRPWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYD 196 (263)
Q Consensus 152 ~tS~YRGVr~r~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD 196 (263)
+--+||-||.-+ |||+|.+.. +-.-.---.|..+|.|-|--.
T Consensus 29 k~dgfrdvw~lr-gkyvafvl~--ge~f~rsp~fs~pesaqrwa~ 70 (80)
T PF10729_consen 29 KMDGFRDVWQLR-GKYVAFVLM--GEHFRRSPAFSVPESAQRWAN 70 (80)
T ss_dssp -TTTECCECCCC-CEEEEEEES--SS-EEE---BSSHHHHHHHHH
T ss_pred hcccccceeeec-cceEEEEEe--cchhccCCCcCCcHHHHHHHH
Confidence 346799998877 999999998 444444467888888876533
No 10
>PRK09692 integrase; Provisional
Probab=41.94 E-value=72 Score=30.30 Aligned_cols=42 Identities=21% Similarity=0.317 Sum_probs=26.8
Q ss_pred eEECCCC--eEEEEEeCCCCCee--EeccCCC--CHHHHHHHHHHHHH
Q 039390 159 VRQRPWG--KWAAEIRDPFKAAR--VWLGTFD--TAEDAARAYDEAAL 200 (263)
Q Consensus 159 Vr~r~~G--KW~A~I~~p~~gkr--i~LGtFd--T~EEAArAYD~AAl 200 (263)
|+-++.| .|..+.+.+.+|++ +-||.|. |..+|..+..++..
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 3444544 59999876544444 6899999 67777665554433
No 11
>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=41.27 E-value=19 Score=25.39 Aligned_cols=24 Identities=29% Similarity=0.374 Sum_probs=19.2
Q ss_pred CCeeEeccCCCCHHHHHHHHHHHH
Q 039390 176 KAARVWLGTFDTAEDAARAYDEAA 199 (263)
Q Consensus 176 ~gkri~LGtFdT~EEAArAYD~AA 199 (263)
..-+|.+|.|++.++|..+.....
T Consensus 42 ~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 42 PWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp TCEEEEECCECTCCHHHHHHHHHH
T ss_pred ceEEEEECCCCCHHHHHHHHHHHh
Confidence 355788899999999988877655
No 12
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=36.57 E-value=1e+02 Score=23.40 Aligned_cols=41 Identities=22% Similarity=0.183 Sum_probs=26.3
Q ss_pred EECCC--CeEEEEEeCCCCCeeEeccCCCC--HHHHHHHHHHHHH
Q 039390 160 RQRPW--GKWAAEIRDPFKAARVWLGTFDT--AEDAARAYDEAAL 200 (263)
Q Consensus 160 r~r~~--GKW~A~I~~p~~gkri~LGtFdT--~EEAArAYD~AAl 200 (263)
+-.+. ..|.-+.+..++.+++-||.|.. .++|.........
T Consensus 28 ~v~~~G~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~ 72 (89)
T PF13356_consen 28 RVTPSGSKTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRA 72 (89)
T ss_dssp EE-TTS-EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHH
T ss_pred EEEeCCCeEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHH
Confidence 34444 35998988855567799999976 5566555544433
No 13
>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=33.77 E-value=43 Score=27.22 Aligned_cols=20 Identities=45% Similarity=0.625 Sum_probs=17.4
Q ss_pred cCCCCHHHHHHHHHHHHHhh
Q 039390 183 GTFDTAEDAARAYDEAALRF 202 (263)
Q Consensus 183 GtFdT~EEAArAYD~AAl~l 202 (263)
|+|+|+|+|..=||+....|
T Consensus 71 GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 71 GYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCcCCHHHHHHHHHHHHHHH
Confidence 99999999999999876554
No 14
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=29.25 E-value=84 Score=27.40 Aligned_cols=37 Identities=22% Similarity=0.193 Sum_probs=30.3
Q ss_pred eEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhcCC
Q 039390 166 KWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFRGN 205 (263)
Q Consensus 166 KW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~G~ 205 (263)
.|+|+|.. |+.++-=..+.++.|..|..+|+.+|=+.
T Consensus 95 gwaArVkp---G~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 95 GWAARVKP---GRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEEecC---CcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 49999986 77887777888899999999988876443
No 15
>PRK10113 cell division modulator; Provisional
Probab=26.23 E-value=51 Score=25.73 Aligned_cols=41 Identities=22% Similarity=0.207 Sum_probs=28.7
Q ss_pred CCCeeeeEECCCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHH
Q 039390 153 RRKYRGVRQRPWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYD 196 (263)
Q Consensus 153 tS~YRGVr~r~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD 196 (263)
--+||-||.-+ |||+|.+.. .-.-.---.|..+|.|-|--.
T Consensus 30 md~frDVW~Lr-GKYVAFvl~--ge~FrRSPaFs~PEsAQRWAn 70 (80)
T PRK10113 30 MDSFRDVWMLR-GKYVAFVLM--GESFLRSPAFSVPESAQRWAN 70 (80)
T ss_pred hcchhhhheec-cceEEEEEe--chhhccCCccCCcHHHHHHHH
Confidence 35799998877 999999987 322222356888888876543
No 16
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=20.58 E-value=67 Score=26.46 Aligned_cols=18 Identities=17% Similarity=0.807 Sum_probs=13.6
Q ss_pred eeEeccCCCCHHHHHHHH
Q 039390 178 ARVWLGTFDTAEDAARAY 195 (263)
Q Consensus 178 kri~LGtFdT~EEAArAY 195 (263)
-.||||+|.++++-..=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 368999999988765433
No 17
>PLN00062 TATA-box-binding protein; Provisional
Probab=20.42 E-value=4.8e+02 Score=23.05 Aligned_cols=47 Identities=21% Similarity=0.146 Sum_probs=34.1
Q ss_pred CCeeeeEEC-CCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhc
Q 039390 154 RKYRGVRQR-PWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFR 203 (263)
Q Consensus 154 S~YRGVr~r-~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~ 203 (263)
.+|-||..| ..-+-.+-|.. .||-+--|. .++|+|..|.++.+..+.
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~--SGKiviTGa-ks~e~a~~a~~~~~~~L~ 81 (179)
T PLN00062 34 KRFAAVIMRIREPKTTALIFA--SGKMVCTGA-KSEHDSKLAARKYARIIQ 81 (179)
T ss_pred ccCcEEEEEeCCCcEEEEEEC--CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 479998433 34566777777 888877774 678888888888776663
No 18
>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=20.41 E-value=4.9e+02 Score=22.82 Aligned_cols=47 Identities=21% Similarity=0.168 Sum_probs=34.5
Q ss_pred CCeeeeEEC-CCCeEEEEEeCCCCCeeEeccCCCCHHHHHHHHHHHHHhhc
Q 039390 154 RKYRGVRQR-PWGKWAAEIRDPFKAARVWLGTFDTAEDAARAYDEAALRFR 203 (263)
Q Consensus 154 S~YRGVr~r-~~GKW~A~I~~p~~gkri~LGtFdT~EEAArAYD~AAl~l~ 203 (263)
.+|-||..| ..-+-.+.|.. .||-+--|. .++|+|..|.++.+..+.
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~--SGKiviTGa-ks~e~a~~a~~~i~~~L~ 81 (174)
T cd04516 34 KRFAAVIMRIREPKTTALIFS--SGKMVCTGA-KSEDDSKLAARKYARIIQ 81 (174)
T ss_pred ccCcEEEEEeCCCcEEEEEEC--CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 578998433 33566778887 999888887 467888888888766663
Done!