Query 021606
Match_columns 310
No_of_seqs 274 out of 1377
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 04:17:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021606.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021606hhsearch_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 1.4E-18 2.9E-23 128.7 7.1 59 177-236 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.7 6.4E-18 1.4E-22 126.6 7.8 61 178-239 1-63 (64)
3 PHA00280 putative NHN endonucl 99.6 9.7E-16 2.1E-20 128.9 8.3 71 159-230 49-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.2 4.1E-11 8.9E-16 86.7 5.8 51 177-227 1-56 (56)
5 cd00018 AP2 DNA-binding domain 99.1 6.3E-11 1.4E-15 87.6 3.9 42 269-310 1-42 (61)
6 PHA00280 putative NHN endonucl 99.1 2E-10 4.3E-15 96.8 7.1 92 213-310 11-107 (121)
7 smart00380 AP2 DNA-binding dom 99.0 2.9E-10 6.2E-15 85.1 3.9 41 270-310 1-41 (64)
8 PF00847 AP2: AP2 domain; Int 98.3 6.3E-07 1.4E-11 64.7 4.2 42 269-310 1-46 (56)
9 cd00652 TBP_TLF TATA box bindi 77.7 27 0.00058 31.1 10.0 127 176-309 33-164 (174)
10 cd04518 TBP_archaea archaeal T 76.5 34 0.00074 30.6 10.4 126 176-309 33-163 (174)
11 cd04517 TLF TBP-like factors ( 66.4 67 0.0014 28.7 9.9 125 178-309 35-164 (174)
12 PLN00062 TATA-box-binding prot 66.3 84 0.0018 28.3 10.5 123 176-309 33-163 (179)
13 cd04516 TBP_eukaryotes eukaryo 64.6 91 0.002 27.9 10.4 126 176-309 33-163 (174)
14 PF14657 Integrase_AP2: AP2-li 64.3 24 0.00053 24.3 5.3 36 190-225 1-42 (46)
15 PRK00394 transcription factor; 63.2 78 0.0017 28.4 9.7 126 176-309 32-164 (179)
16 PF00352 TBP: Transcription fa 49.5 63 0.0014 25.1 6.0 47 177-224 36-82 (86)
17 KOG1924 RhoA GTPase effector D 42.9 99 0.0021 34.4 7.9 36 189-225 629-667 (1102)
18 PHA02601 int integrase; Provis 35.7 49 0.0011 31.1 4.1 39 185-224 5-46 (333)
19 PF13356 DUF4102: Domain of un 34.9 1.4E+02 0.0031 23.0 6.0 37 188-224 34-74 (89)
20 PF08471 Ribonuc_red_2_N: Clas 30.3 55 0.0012 26.7 2.9 21 204-224 70-90 (93)
21 PF05036 SPOR: Sporulation rel 28.9 43 0.00092 24.1 2.0 21 201-221 45-65 (76)
22 PRK10545 nucleotide excision r 27.6 3.6E+02 0.0078 26.1 8.5 25 201-225 140-164 (286)
23 PF08846 DUF1816: Domain of un 23.1 1.3E+02 0.0028 23.2 3.7 28 282-309 10-37 (68)
24 PRK10927 essential cell divisi 23.1 2.4E+02 0.0051 28.0 6.3 51 202-309 250-300 (319)
25 cd04518 TBP_archaea archaeal T 22.2 3.3E+02 0.0071 24.3 6.7 49 175-224 123-171 (174)
26 cd00801 INT_P4 Bacteriophage P 21.8 1.9E+02 0.004 26.8 5.3 37 189-225 10-50 (357)
27 COG2101 SPT15 TATA-box binding 21.5 3.2E+02 0.007 25.0 6.4 128 174-310 37-172 (185)
28 PRK00394 transcription factor; 20.5 3.8E+02 0.0082 24.0 6.8 49 175-224 124-172 (179)
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=99.76 E-value=1.4e-18 Score=128.73 Aligned_cols=59 Identities=53% Similarity=0.840 Sum_probs=55.7
Q ss_pred CCeEeeeeecCCCcEEEEEEeC--CeEeeecCCCCHHHHHHHHHHHHHHHcCCCCCCCCCCC
Q 021606 177 SQYRGVTFYRRTSRWESHIWDC--GKQVYLGGFDTAHSAARAYDRAAIKFRGVDADLNFGVT 236 (310)
Q Consensus 177 S~yrGV~~~~~~gkW~A~I~~~--gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~~NFp~s 236 (310)
|+|+||++++. |||+|+|+++ +|++|||+|+|+||||+|||.|+++++|..+.+|||++
T Consensus 1 s~~~GV~~~~~-gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPW-GKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCC-CcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 78999997765 9999999999 99999999999999999999999999999999999864
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.74 E-value=6.4e-18 Score=126.59 Aligned_cols=61 Identities=57% Similarity=0.897 Sum_probs=57.7
Q ss_pred CeEeeeeecCCCcEEEEEEe--CCeEeeecCCCCHHHHHHHHHHHHHHHcCCCCCCCCCCCchh
Q 021606 178 QYRGVTFYRRTSRWESHIWD--CGKQVYLGGFDTAHSAARAYDRAAIKFRGVDADLNFGVTDYE 239 (310)
Q Consensus 178 ~yrGV~~~~~~gkW~A~I~~--~gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~~NFp~s~y~ 239 (310)
+|+||++ +++|||+|+|++ +++++|||+|+|+||||+|||.|+++++|..+.+|||++.|+
T Consensus 1 ~~kGV~~-~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~ 63 (64)
T smart00380 1 KYRGVRQ-RPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD 63 (64)
T ss_pred CEeeEEe-CCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence 5999997 566999999999 899999999999999999999999999999999999999886
No 3
>PHA00280 putative NHN endonuclease
Probab=99.62 E-value=9.7e-16 Score=128.90 Aligned_cols=71 Identities=20% Similarity=0.305 Sum_probs=65.5
Q ss_pred CCchhhcccCCCCCCCCCCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHcCCCCC
Q 021606 159 QQKPQQVRKSRRGPRSRSSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFRGVDAD 230 (310)
Q Consensus 159 ~~~~~~~~~~~~~~~~~tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~ 230 (310)
.....++.+|++..++++|||+||+|+++.+||+|+|+++||+++||+|+++|+|+.||+ ++.+++|.+|.
T Consensus 49 ~~T~~eN~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 49 LALPKENSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTAEGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred hcCHHHHhcccCCCCCCCCCCCeeEEecCCCeEEEEEEECCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 356788899999999999999999999999999999999999999999999999999997 77899998774
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=99.18 E-value=4.1e-11 Score=86.68 Aligned_cols=51 Identities=31% Similarity=0.510 Sum_probs=46.9
Q ss_pred CCeEeeeeecCCCcEEEEEEeC-----CeEeeecCCCCHHHHHHHHHHHHHHHcCC
Q 021606 177 SQYRGVTFYRRTSRWESHIWDC-----GKQVYLGGFDTAHSAARAYDRAAIKFRGV 227 (310)
Q Consensus 177 S~yrGV~~~~~~gkW~A~I~~~-----gK~~~LG~F~T~EeAArAyD~Aa~k~~G~ 227 (310)
|+|+||+|++..++|+|+|++. +|.++||.|+++++|++|++.++++++|.
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 7899999999999999999983 48999999999999999999999999873
No 5
>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=99.10 E-value=6.3e-11 Score=87.61 Aligned_cols=42 Identities=43% Similarity=0.768 Sum_probs=37.4
Q ss_pred CccccceeccCCeeeEEEceecCCeEEEecCCCCHHHHhhhC
Q 021606 269 SKYRGVTLHKCGRWEARMGQLLGKKYVYLGLFDNEAEAARSL 310 (310)
Q Consensus 269 SkYrGV~~~k~gKW~ArIg~~~gkk~~~LG~F~teeEAArAY 310 (310)
|+|+||++++.|+|+|+|.....++.++||+|+|+|||++||
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ay 42 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAY 42 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHH
Confidence 689999998899999999533338999999999999999997
No 6
>PHA00280 putative NHN endonuclease
Probab=99.10 E-value=2e-10 Score=96.84 Aligned_cols=92 Identities=12% Similarity=0.061 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHHcCCCCC---CCCC-CCchhHHHHhhhccCHHHHHHHHhhccCCcccCCCccccceecc-CCeeeEEEc
Q 021606 213 AARAYDRAAIKFRGVDAD---LNFG-VTDYEEDMKQMKHLSKEEFVLILRRQSNGFARGSSKYRGVTLHK-CGRWEARMG 287 (310)
Q Consensus 213 AArAyD~Aa~k~~G~~a~---~NFp-~s~y~~eL~qLr~LSKEE~V~~LRr~s~g~sR~sSkYrGV~~~k-~gKW~ArIg 287 (310)
+-+++..+...++|.-.. +.+- -...+..+..|+.++..+...+.+.. +.++|+|+||+|++ .+||+|+|
T Consensus 11 ~~~~Hrlvw~~~~G~~P~g~~VdHidg~~~dnri~NLr~~T~~eN~~N~~~~----~~N~SG~kGV~~~k~~~kw~A~I- 85 (121)
T PHA00280 11 APRRHIQVWEAANGPIPKGYYIDHIDGNPLNDALDNLRLALPKENSWNMKTP----KSNTSGLKGLSWSKEREMWRGTV- 85 (121)
T ss_pred hhhHhHhhhHHHHCCCCCCCEEEcCCCCCCCCcHHHhhhcCHHHHhcccCCC----CCCCCCCCeeEEecCCCeEEEEE-
Confidence 345677777788884321 1110 12223558888889988888776543 56789999999976 79999999
Q ss_pred eecCCeEEEecCCCCHHHHhhhC
Q 021606 288 QLLGKKYVYLGLFDNEAEAARSL 310 (310)
Q Consensus 288 ~~~gkk~~~LG~F~teeEAArAY 310 (310)
.+++|.++||.|+++|+|+.||
T Consensus 86 -~~~gK~~~lG~f~~~e~A~~a~ 107 (121)
T PHA00280 86 -TAEGKQHNFRSRDLLEVVAWIY 107 (121)
T ss_pred -EECCEEEEcCCCCCHHHHHHHH
Confidence 6899999999999999999987
No 7
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.01 E-value=2.9e-10 Score=85.13 Aligned_cols=41 Identities=44% Similarity=0.713 Sum_probs=37.4
Q ss_pred ccccceeccCCeeeEEEceecCCeEEEecCCCCHHHHhhhC
Q 021606 270 KYRGVTLHKCGRWEARMGQLLGKKYVYLGLFDNEAEAARSL 310 (310)
Q Consensus 270 kYrGV~~~k~gKW~ArIg~~~gkk~~~LG~F~teeEAArAY 310 (310)
+|+||++++.|+|+|+|....+++.++||+|+|+||||+||
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ay 41 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAY 41 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHH
Confidence 58999998889999999655589999999999999999997
No 8
>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=98.33 E-value=6.3e-07 Score=64.65 Aligned_cols=42 Identities=38% Similarity=0.607 Sum_probs=35.3
Q ss_pred Cccccceecc-CCeeeEEEceecC---CeEEEecCCCCHHHHhhhC
Q 021606 269 SKYRGVTLHK-CGRWEARMGQLLG---KKYVYLGLFDNEAEAARSL 310 (310)
Q Consensus 269 SkYrGV~~~k-~gKW~ArIg~~~g---kk~~~LG~F~teeEAArAY 310 (310)
|+|+||++++ .++|+|+|+.... ++.++||.|++++||++||
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a 46 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAA 46 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHH
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHH
Confidence 6899999977 8999999965311 4899999999999999875
No 9
>cd00652 TBP_TLF 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. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=77.67 E-value=27 Score=31.13 Aligned_cols=127 Identities=17% Similarity=0.186 Sum_probs=75.9
Q ss_pred CCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHc--CCCC--CCCCCCCchhHHHHhhhccCHH
Q 021606 176 SSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFR--GVDA--DLNFGVTDYEEDMKQMKHLSKE 251 (310)
Q Consensus 176 tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~--G~~a--~~NFp~s~y~~eL~qLr~LSKE 251 (310)
..+|.||.++.+.-+=.+.|+..||-+--|. .++++|..|.++.+..+. |... ..||....--.....--.+..+
T Consensus 33 Pe~fpgli~R~~~P~~t~lIf~sGKivitGa-ks~~~~~~a~~~~~~~L~~~g~~~~~~~~~~v~NIvas~~l~~~i~L~ 111 (174)
T cd00652 33 PKRFPGVIMRLREPKTTALIFSSGKMVITGA-KSEEDAKLAARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLE 111 (174)
T ss_pred CCccceEEEEcCCCcEEEEEECCCEEEEEec-CCHHHHHHHHHHHHHHHHHcCCCccccCceEEEEEEEEEECCCcccHH
Confidence 4579999988888889999999999988776 477888888888877663 3221 1233210000000000123344
Q ss_pred HHHHHHhhccCCcccCCCccccceecc-CCeeeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 252 EFVLILRRQSNGFARGSSKYRGVTLHK-CGRWEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 252 E~V~~LRr~s~g~sR~sSkYrGV~~~k-~gKW~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
.+...++.. ..=.-..|-|+.++- ..+=.+.| |..||-+..|. .+++|+.+|
T Consensus 112 ~la~~~~~~---~~YePe~fpgli~r~~~pk~t~lI--F~sGkvvitGa-ks~~~~~~a 164 (174)
T cd00652 112 ELALKHPEN---ASYEPELFPGLIYRMDEPKVVLLI--FVSGKIVITGA-KSREDIYEA 164 (174)
T ss_pred HHHhhhhcc---cEECCccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHH
Confidence 444443311 111345789987754 34555666 78888776665 667777665
No 10
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, 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=76.48 E-value=34 Score=30.60 Aligned_cols=126 Identities=15% Similarity=0.228 Sum_probs=75.6
Q ss_pred CCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHcCCCCC----CCCCCCchhHHHHhhhccCHH
Q 021606 176 SSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFRGVDAD----LNFGVTDYEEDMKQMKHLSKE 251 (310)
Q Consensus 176 tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~----~NFp~s~y~~eL~qLr~LSKE 251 (310)
..+|.||.++-+.-+=.+.|+..||-+..|. .++++|..|-++.+..+...... .+|.....-.....--.+..+
T Consensus 33 P~~fpgli~Rl~~Pk~t~lIF~SGKiv~tGa-ks~~~a~~a~~~~~~~L~~~g~~~~~~~~~~i~NIVas~~l~~~i~L~ 111 (174)
T cd04518 33 PDQFPGLVYRLEDPKIAALIFRSGKMVCTGA-KSVEDLHRAVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNLD 111 (174)
T ss_pred CCcCcEEEEEccCCcEEEEEECCCeEEEEcc-CCHHHHHHHHHHHHHHHHhcCCCccCCCceEEEEEEEEEEcCCccCHH
Confidence 4679999988888888999999999887775 68889999988887776532211 122110000000000123334
Q ss_pred HHHHHHhhccCCcccCCCccccceecc-CCeeeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 252 EFVLILRRQSNGFARGSSKYRGVTLHK-CGRWEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 252 E~V~~LRr~s~g~sR~sSkYrGV~~~k-~gKW~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
.+...++. ..=.-.+|-|+.++- .-+=.+-| |..||-+..|. .+++|+.+|
T Consensus 112 ~la~~~~~----~~YePe~fpglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a 163 (174)
T cd04518 112 AIAIGLPN----AEYEPEQFPGLVYRLDEPKVVLLL--FSSGKMVITGA-KSEEDAKRA 163 (174)
T ss_pred HHHhhCCC----CccCcccCceEEEEecCCcEEEEE--eCCCEEEEEec-CCHHHHHHH
Confidence 44333331 112346899987643 34555666 78888666665 677777665
No 11
>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=66.37 E-value=67 Score=28.69 Aligned_cols=125 Identities=19% Similarity=0.199 Sum_probs=72.5
Q ss_pred CeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHc--CCCC--CCCCCCCchhHHHHhhhccCHHHH
Q 021606 178 QYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFR--GVDA--DLNFGVTDYEEDMKQMKHLSKEEF 253 (310)
Q Consensus 178 ~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~--G~~a--~~NFp~s~y~~eL~qLr~LSKEE~ 253 (310)
+|.||.++-+.-+=.+.|+..||-+--|. .++++|.+|.++.+..+. |... ..||....--.....--.+..+++
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~sGKiviTGa-ks~~~~~~a~~~~~~~l~~~g~~~~~~~~f~v~nIvat~~~~~~i~L~~l 113 (174)
T cd04517 35 RYPKVTMRLREPRATASVWSSGKITITGA-TSEEEAKQAARRAARLLQKLGFKVVRFSNFRVVNVLATCSMPFPIRLDEL 113 (174)
T ss_pred CCCEEEEEecCCcEEEEEECCCeEEEEcc-CCHHHHHHHHHHHHHHHHHcCCCcccCCceEEEEEEEEEeCCCcccHHHH
Confidence 89999988888888999999999877764 789999999988877763 3221 123321100000000011223333
Q ss_pred HHHHhhccCCcccCCCccccceecc-CCeeeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 254 VLILRRQSNGFARGSSKYRGVTLHK-CGRWEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 254 V~~LRr~s~g~sR~sSkYrGV~~~k-~gKW~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
.....+. ..=.-..|-|+.++- ..+=.+.| +..||-+..|. .+++|+.+|
T Consensus 114 a~~~~~~---~~YePE~fPgliyr~~~p~~t~lI--F~sGkivitGa-ks~~~~~~a 164 (174)
T cd04517 114 AAKNRSS---ASYEPELHPGVVYRITGPRATLSI--FSTGSVTVTGA-RSMEDVREA 164 (174)
T ss_pred HHhchhh---cEeCCccCCEEEEEECCCcEEEEE--eCCCEEEEEec-CCHHHHHHH
Confidence 2211111 011335789987754 33445555 78888776665 566666655
No 12
>PLN00062 TATA-box-binding protein; Provisional
Probab=66.30 E-value=84 Score=28.29 Aligned_cols=123 Identities=15% Similarity=0.194 Sum_probs=72.6
Q ss_pred CCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHcCCCCCCCCCCCchhHHHHhh-------hcc
Q 021606 176 SSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFRGVDADLNFGVTDYEEDMKQM-------KHL 248 (310)
Q Consensus 176 tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~~NFp~s~y~~eL~qL-------r~L 248 (310)
..+|-||.++.+.-+=.+-|+..||-+.-|. .++++|..|.++.+..+....-..+|+ ++. +..+ -.+
T Consensus 33 Pe~fpgli~Rl~~Pk~t~lIF~SGKiviTGa-ks~e~a~~a~~~~~~~L~~lg~~~~~~--~f~--v~NIvas~~l~~~i 107 (179)
T PLN00062 33 PKRFAAVIMRIREPKTTALIFASGKMVCTGA-KSEHDSKLAARKYARIIQKLGFPAKFK--DFK--IQNIVGSCDVKFPI 107 (179)
T ss_pred CccCcEEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcCCC--ccE--EEEEEEEEECCCcc
Confidence 4478999988888888999999999887764 678889889888887774322222221 111 0111 112
Q ss_pred CHHHHHHHHhhccCCcccCCCccccceecc-CCeeeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 249 SKEEFVLILRRQSNGFARGSSKYRGVTLHK-CGRWEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 249 SKEE~V~~LRr~s~g~sR~sSkYrGV~~~k-~gKW~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
..+.+...-+.. ..=.-..|-|+.++- .-+=...| +..||-+..|. .+++|+.+|
T Consensus 108 ~L~~la~~~~~~---~~YePE~fPgliyr~~~pk~~~li--F~sGkvvitGa-ks~~~~~~a 163 (179)
T PLN00062 108 RLEGLAYAHGAF---SSYEPELFPGLIYRMKQPKIVLLI--FVSGKIVITGA-KVREEIYTA 163 (179)
T ss_pred cHHHHHHhchhh---cccCcccCceEEEEeCCCcEEEEE--eCCCEEEEEec-CCHHHHHHH
Confidence 233333211111 112346888987643 23344445 78888777765 556666554
No 13
>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=64.57 E-value=91 Score=27.88 Aligned_cols=126 Identities=13% Similarity=0.164 Sum_probs=72.8
Q ss_pred CCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHcCCCCCCCCCCCchh--H---HHHhhhccCH
Q 021606 176 SSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFRGVDADLNFGVTDYE--E---DMKQMKHLSK 250 (310)
Q Consensus 176 tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~~NFp~s~y~--~---eL~qLr~LSK 250 (310)
..+|-||.++.+.-+=.+.|+..||-+.-|. .++|+|..|.++.+..+....-...|+ ++. . ....--.+..
T Consensus 33 Pe~fpgli~Rl~~Pk~t~lIF~SGKiviTGa-ks~e~a~~a~~~i~~~L~~~g~~~~~~--~~~v~Nivat~~l~~~i~L 109 (174)
T cd04516 33 PKRFAAVIMRIREPKTTALIFSSGKMVCTGA-KSEDDSKLAARKYARIIQKLGFPAKFT--DFKIQNIVGSCDVKFPIRL 109 (174)
T ss_pred CccCcEEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCCCCC--ceEEEEEEEEEECCCcccH
Confidence 4578999988888888999999999988886 477888888888877764322112331 111 0 0000011233
Q ss_pred HHHHHHHhhccCCcccCCCccccceeccCCeeeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 251 EEFVLILRRQSNGFARGSSKYRGVTLHKCGRWEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 251 EE~V~~LRr~s~g~sR~sSkYrGV~~~k~gKW~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
+.+....+.. ..=.-..|-|+.++-.+ +.+.+--+..||-+..|. .+++|+.+|
T Consensus 110 ~~la~~~~~~---~~YePE~fPgliyr~~~-pk~~~liF~sGkvvitGa-ks~~~~~~a 163 (174)
T cd04516 110 EGLAHAHKQF---SSYEPELFPGLIYRMVK-PKIVLLIFVSGKIVLTGA-KSREEIYQA 163 (174)
T ss_pred HHHHHhChhc---cEeCCccCceEEEEecC-CcEEEEEeCCCEEEEEec-CCHHHHHHH
Confidence 3333211111 11234578998764322 344443378888776665 566666554
No 14
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=64.27 E-value=24 Score=24.33 Aligned_cols=36 Identities=25% Similarity=0.451 Sum_probs=27.8
Q ss_pred cEEEEEE-e---CC--eEeeecCCCCHHHHHHHHHHHHHHHc
Q 021606 190 RWESHIW-D---CG--KQVYLGGFDTAHSAARAYDRAAIKFR 225 (310)
Q Consensus 190 kW~A~I~-~---~g--K~~~LG~F~T~EeAArAyD~Aa~k~~ 225 (310)
+|...|. . .| ++++-+.|.|..||-.+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5777773 2 34 47888999999999999988876653
No 15
>PRK00394 transcription factor; Reviewed
Probab=63.24 E-value=78 Score=28.42 Aligned_cols=126 Identities=15% Similarity=0.222 Sum_probs=75.0
Q ss_pred CCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHc--CCCC--CCCCCCCchhHHHHhhhccCHH
Q 021606 176 SSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFR--GVDA--DLNFGVTDYEEDMKQMKHLSKE 251 (310)
Q Consensus 176 tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~--G~~a--~~NFp~s~y~~eL~qLr~LSKE 251 (310)
..+|-|+.++.+.-+=.+.|+..||-+..|.. ++++|..|.++.+..+. |... ..+|.....-....---.+..+
T Consensus 32 Pe~fpgli~Rl~~Pk~t~lIf~sGKiv~tGa~-S~~~a~~a~~~~~~~l~~~g~~~~~~~~~~i~NiVas~~l~~~i~L~ 110 (179)
T PRK00394 32 PEQFPGLVYRLEDPKIAALIFRSGKVVCTGAK-SVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGVELNLN 110 (179)
T ss_pred cccCceEEEEecCCceEEEEEcCCcEEEEccC-CHHHHHHHHHHHHHHHHHcCCCccCCCceEEEEEEEEEEcCCeEcHH
Confidence 44789999888888999999999999988875 67788888887776664 3221 1122110000000000123334
Q ss_pred HHHHHH--hhccCCcccCCCccccceecc-CCeeeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 252 EFVLIL--RRQSNGFARGSSKYRGVTLHK-CGRWEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 252 E~V~~L--Rr~s~g~sR~sSkYrGV~~~k-~gKW~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
.+...+ +.- .=.-..|-|+.++- .-|=..-| |..||-+..|. .+++|+.+|
T Consensus 111 ~la~~~~~~~~----~YePe~fPglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a 164 (179)
T PRK00394 111 AIAIGLGLENI----EYEPEQFPGLVYRLDDPKVVVLL--FGSGKLVITGA-KSEEDAEKA 164 (179)
T ss_pred HHHHhcCcCCc----EECcccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHH
Confidence 444333 111 11346889987643 44556666 78888776665 677777665
No 16
>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=49.48 E-value=63 Score=25.10 Aligned_cols=47 Identities=19% Similarity=0.362 Sum_probs=38.8
Q ss_pred CCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHH
Q 021606 177 SQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKF 224 (310)
Q Consensus 177 S~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~ 224 (310)
..|.||.++.+.-+-.+.|+..||-+..|. .++++|..|.++....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF~sGki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIFSSGKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEETTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEEcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 368899888788899999999999888875 68889999988877554
No 17
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=42.89 E-value=99 Score=34.39 Aligned_cols=36 Identities=14% Similarity=0.235 Sum_probs=24.8
Q ss_pred CcEEEEEE---eCCeEeeecCCCCHHHHHHHHHHHHHHHc
Q 021606 189 SRWESHIW---DCGKQVYLGGFDTAHSAARAYDRAAIKFR 225 (310)
Q Consensus 189 gkW~A~I~---~~gK~~~LG~F~T~EeAArAyD~Aa~k~~ 225 (310)
-.|.+ |. ...+..|+++=+..-+--.-+++.+.+|.
T Consensus 629 ~nW~k-I~p~d~s~~cFWvkv~Edk~en~dlfakL~~~Fa 667 (1102)
T KOG1924|consen 629 FNWSK-IVPRDLSENCFWVKVNEDKLENDDLFAKLALKFA 667 (1102)
T ss_pred CCccc-cCccccCccceeeecchhhccchHHHHHHHHHhh
Confidence 34665 33 23567899988777777777888777773
No 18
>PHA02601 int integrase; Provisional
Probab=35.74 E-value=49 Score=31.07 Aligned_cols=39 Identities=18% Similarity=0.279 Sum_probs=27.9
Q ss_pred ecCCCcEEEEEEeC---CeEeeecCCCCHHHHHHHHHHHHHHH
Q 021606 185 YRRTSRWESHIWDC---GKQVYLGGFDTAHSAARAYDRAAIKF 224 (310)
Q Consensus 185 ~~~~gkW~A~I~~~---gK~~~LG~F~T~EeAArAyD~Aa~k~ 224 (310)
.++.|+|+++++.. |+++.. +|.|..||-.........+
T Consensus 5 ~~~~g~w~~~~~~~~~~g~r~~~-~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 5 KLKDGKWLCEIYPNGRDGKRIRK-RFATKGEALAFENYTMAEV 46 (333)
T ss_pred EcCCCCEEEEEEECCCCCchhhh-hhcCHHHHHHHHHHHHHhc
Confidence 46678999999864 776654 6999988876666554444
No 19
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=34.87 E-value=1.4e+02 Score=23.02 Aligned_cols=37 Identities=14% Similarity=0.109 Sum_probs=24.2
Q ss_pred CCcEEEEEEeCCe--EeeecCCCC--HHHHHHHHHHHHHHH
Q 021606 188 TSRWESHIWDCGK--QVYLGGFDT--AHSAARAYDRAAIKF 224 (310)
Q Consensus 188 ~gkW~A~I~~~gK--~~~LG~F~T--~EeAArAyD~Aa~k~ 224 (310)
...|..+.+.+|| ++.||.|.. ..+|-.........+
T Consensus 34 ~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 34 SKTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp -EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred CeEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 3469989888888 589999976 445544444443333
No 20
>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=30.32 E-value=55 Score=26.74 Aligned_cols=21 Identities=29% Similarity=0.319 Sum_probs=18.3
Q ss_pred ecCCCCHHHHHHHHHHHHHHH
Q 021606 204 LGGFDTAHSAARAYDRAAIKF 224 (310)
Q Consensus 204 LG~F~T~EeAArAyD~Aa~k~ 224 (310)
-|+|+|+++|..=||.....|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 499999999999999887654
No 21
>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=28.91 E-value=43 Score=24.13 Aligned_cols=21 Identities=24% Similarity=0.381 Sum_probs=17.9
Q ss_pred EeeecCCCCHHHHHHHHHHHH
Q 021606 201 QVYLGGFDTAHSAARAYDRAA 221 (310)
Q Consensus 201 ~~~LG~F~T~EeAArAyD~Aa 221 (310)
+|.+|.|.+.++|..+.....
T Consensus 45 rV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 45 RVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEECCECTCCHHHHHHHHHH
T ss_pred EEEECCCCCHHHHHHHHHHHh
Confidence 788999999999988877655
No 22
>PRK10545 nucleotide excision repair endonuclease; Provisional
Probab=27.63 E-value=3.6e+02 Score=26.13 Aligned_cols=25 Identities=20% Similarity=0.202 Sum_probs=21.8
Q ss_pred EeeecCCCCHHHHHHHHHHHHHHHc
Q 021606 201 QVYLGGFDTAHSAARAYDRAAIKFR 225 (310)
Q Consensus 201 ~~~LG~F~T~EeAArAyD~Aa~k~~ 225 (310)
..++|.|.+..+|-++-...+..++
T Consensus 140 ~~~~GpF~s~~~a~~~L~~l~~~fr 164 (286)
T PRK10545 140 PNLFGLFANRRAALQALQSIADEQK 164 (286)
T ss_pred CcEEEEECCHHHHHHHHHHHHHHHc
Confidence 4689999999999999998888873
No 23
>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=23.14 E-value=1.3e+02 Score=23.21 Aligned_cols=28 Identities=25% Similarity=0.412 Sum_probs=21.5
Q ss_pred eeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 282 WEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 282 W~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
|=++|.-..-.-.+|.|=|.+.+||..+
T Consensus 10 WWveI~T~~P~ctYyFGPF~s~~eA~~~ 37 (68)
T PF08846_consen 10 WWVEIETQNPNCTYYFGPFDSREEAEAA 37 (68)
T ss_pred EEEEEEcCCCCEEEEeCCcCCHHHHHHH
Confidence 6678843344468999999999999875
No 24
>PRK10927 essential cell division protein FtsN; Provisional
Probab=23.11 E-value=2.4e+02 Score=27.99 Aligned_cols=51 Identities=25% Similarity=0.425 Sum_probs=0.0
Q ss_pred eeecCCCCHHHHHHHHHHHHHHHcCCCCCCCCCCCchhHHHHhhhccCHHHHHHHHhhccCCcccCCCccccceeccCCe
Q 021606 202 VYLGGFDTAHSAARAYDRAAIKFRGVDADLNFGVTDYEEDMKQMKHLSKEEFVLILRRQSNGFARGSSKYRGVTLHKCGR 281 (310)
Q Consensus 202 ~~LG~F~T~EeAArAyD~Aa~k~~G~~a~~NFp~s~y~~eL~qLr~LSKEE~V~~LRr~s~g~sR~sSkYrGV~~~k~gK 281 (310)
|.+|+|.+.+.|.+. +|.+.+.|
T Consensus 250 VQvGSF~n~~nAE~L--rAkLa~~G------------------------------------------------------- 272 (319)
T PRK10927 250 VQCGSFRGAEQAETV--RAQLAFEG------------------------------------------------------- 272 (319)
T ss_pred EEeCccCCHHHHHHH--HHHHHHcC-------------------------------------------------------
Q ss_pred eeEEEceecCCeEEEecCCCCHHHHhhh
Q 021606 282 WEARMGQLLGKKYVYLGLFDNEAEAARS 309 (310)
Q Consensus 282 W~ArIg~~~gkk~~~LG~F~teeEAArA 309 (310)
|.|+|..-.+-.++.||=|.+.++|-++
T Consensus 273 ~~A~I~~~g~~~RVrVGPf~sr~eAe~a 300 (319)
T PRK10927 273 FDSKITTNNGWNRVVIGPVKGKENADST 300 (319)
T ss_pred CeeEEccCCcEEEEEeCCCCCHHHHHHH
No 25
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, 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=22.15 E-value=3.3e+02 Score=24.35 Aligned_cols=49 Identities=18% Similarity=0.360 Sum_probs=40.4
Q ss_pred CCCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHH
Q 021606 175 RSSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKF 224 (310)
Q Consensus 175 ~tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~ 224 (310)
...+|-|+.++-..-|=.+-|+..||-+-.|. .+++++.+|.+.....+
T Consensus 123 ePe~fpglvyR~~~pk~~~lIF~SGKvvitGa-ks~~~~~~a~~~i~~~l 171 (174)
T cd04518 123 EPEQFPGLVYRLDEPKVVLLLFSSGKMVITGA-KSEEDAKRAVEKLLSRL 171 (174)
T ss_pred CcccCceEEEEecCCcEEEEEeCCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 45679999988777888999999999988886 67888888887776554
No 26
>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=21.80 E-value=1.9e+02 Score=26.81 Aligned_cols=37 Identities=22% Similarity=0.342 Sum_probs=27.1
Q ss_pred CcEEEEEEeCCeE--eeecCCC--CHHHHHHHHHHHHHHHc
Q 021606 189 SRWESHIWDCGKQ--VYLGGFD--TAHSAARAYDRAAIKFR 225 (310)
Q Consensus 189 gkW~A~I~~~gK~--~~LG~F~--T~EeAArAyD~Aa~k~~ 225 (310)
+.|..++..+|++ +.||.|+ +.++|..........+.
T Consensus 10 ~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~~ 50 (357)
T cd00801 10 KSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALLA 50 (357)
T ss_pred EEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHHH
Confidence 5699999988875 6789995 67777776666555553
No 27
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=21.48 E-value=3.2e+02 Score=24.98 Aligned_cols=128 Identities=16% Similarity=0.238 Sum_probs=75.7
Q ss_pred CCCCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHHcCCCCCCCCCCCchhHHHHhh-------h
Q 021606 174 SRSSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKFRGVDADLNFGVTDYEEDMKQM-------K 246 (310)
Q Consensus 174 ~~tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~~G~~a~~NFp~s~y~~eL~qL-------r 246 (310)
=+..+|-|+-++-..-|-.+-|+..||-+..|. .+.|+..+|-.+.+.+++.......|.+. -.++++ .
T Consensus 37 YnP~qFpGlv~Rl~ePk~a~LIF~SGK~VcTGa-Ks~ed~~~av~~~~~~L~~~g~~~~~~p~---i~iQNIVaSadL~~ 112 (185)
T COG2101 37 YNPEQFPGLVYRLEEPKTAALIFRSGKVVCTGA-KSVEDVHRAVKKLAKKLKDGGIDIDFEPE---IKVQNIVASADLGV 112 (185)
T ss_pred cCHhHCCeeEEEecCCcceEEEEecCcEEEecc-CcHHHHHHHHHHHHHHHHhcCcCcCCCCc---eEEEEEEEEeccCc
Confidence 456789999998899999999999999999987 67888888888888887763333332211 011111 1
Q ss_pred ccCHHHHHHHHhhccCCcccCCCccccceec-cCCeeeEEEceecCCeEEEecCCCCHHHHhhhC
Q 021606 247 HLSKEEFVLILRRQSNGFARGSSKYRGVTLH-KCGRWEARMGQLLGKKYVYLGLFDNEAEAARSL 310 (310)
Q Consensus 247 ~LSKEE~V~~LRr~s~g~sR~sSkYrGV~~~-k~gKW~ArIg~~~gkk~~~LG~F~teeEAArAY 310 (310)
.+..+...-.+-..-.- =---.|-|.-++ ..-|=..-| |..+|-+.- .-.+++||.+|+
T Consensus 113 ~lnL~~iA~~lg~e~~e--YEPEqFPGLVYRl~~P~VV~Li--F~SGK~ViT-GaK~~ed~~~Av 172 (185)
T COG2101 113 ELNLNAIAIGLGLENIE--YEPEQFPGLVYRLDEPRVVLLL--FGSGKLVIT-GAKSEEDAEQAV 172 (185)
T ss_pred cccHHHHHHhccccccc--cccccCCeeEEEcCCCCEEEEE--ecCCcEEEe-cCCCHHHHHHHH
Confidence 12222222222111000 012367785443 345555555 666664444 457888888774
No 28
>PRK00394 transcription factor; Reviewed
Probab=20.52 E-value=3.8e+02 Score=24.02 Aligned_cols=49 Identities=18% Similarity=0.350 Sum_probs=40.7
Q ss_pred CCCCeEeeeeecCCCcEEEEEEeCCeEeeecCCCCHHHHHHHHHHHHHHH
Q 021606 175 RSSQYRGVTFYRRTSRWESHIWDCGKQVYLGGFDTAHSAARAYDRAAIKF 224 (310)
Q Consensus 175 ~tS~yrGV~~~~~~gkW~A~I~~~gK~~~LG~F~T~EeAArAyD~Aa~k~ 224 (310)
...+|-|+.++-..-|=.+-|+..||-+-.|. .+++++.+|.+.....+
T Consensus 124 ePe~fPglvyR~~~pk~~~lIF~SGKvvitGa-ks~~~~~~a~~~i~~~l 172 (179)
T PRK00394 124 EPEQFPGLVYRLDDPKVVVLLFGSGKLVITGA-KSEEDAEKAVEKILEKL 172 (179)
T ss_pred CcccCceEEEEecCCcEEEEEEcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 45679999988888899999999999998886 67888888887776555
Done!