Query 012583
Match_columns 460
No_of_seqs 338 out of 1938
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 04:09:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012583.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012583hhsearch_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 99.7 3.5E-17 7.5E-22 127.6 6.7 59 158-217 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.7 3.8E-17 8.2E-22 128.9 6.2 63 251-313 1-63 (64)
3 cd00018 AP2 DNA-binding domain 99.7 5.6E-17 1.2E-21 126.4 6.7 61 250-310 1-61 (61)
4 smart00380 AP2 DNA-binding dom 99.7 1.2E-16 2.6E-21 126.1 7.8 61 159-220 1-63 (64)
5 PHA00280 putative NHN endonucl 99.4 4.5E-13 9.8E-18 119.3 8.1 65 146-211 55-119 (121)
6 PHA00280 putative NHN endonucl 99.3 1.1E-11 2.3E-16 110.5 7.8 104 194-304 11-119 (121)
7 PF00847 AP2: AP2 domain; Int 99.0 3.8E-10 8.1E-15 86.0 5.9 50 158-207 1-55 (56)
8 PF00847 AP2: AP2 domain; Int 98.8 2E-08 4.3E-13 76.5 6.6 52 250-301 1-56 (56)
9 cd04518 TBP_archaea archaeal T 81.4 28 0.0006 33.2 11.9 134 158-299 34-172 (174)
10 cd00652 TBP_TLF TATA box bindi 80.6 27 0.00058 33.2 11.4 134 158-298 34-172 (174)
11 cd04517 TLF TBP-like factors ( 74.9 43 0.00093 31.9 11.1 132 159-297 35-171 (174)
12 PRK00394 transcription factor; 65.0 91 0.002 29.8 11.0 132 158-298 33-172 (179)
13 PLN00062 TATA-box-binding prot 62.9 1.1E+02 0.0025 29.3 11.2 134 158-298 34-171 (179)
14 cd04516 TBP_eukaryotes eukaryo 62.7 1.1E+02 0.0024 29.2 11.0 132 158-295 34-168 (174)
15 PF08846 DUF1816: Domain of un 45.9 31 0.00068 28.5 3.8 31 262-292 9-39 (68)
16 PF14657 Integrase_AP2: AP2-li 41.5 83 0.0018 23.3 5.2 36 171-206 1-42 (46)
17 PF14657 Integrase_AP2: AP2-li 35.9 1E+02 0.0022 22.8 5.0 38 262-299 1-42 (46)
18 PRK10927 essential cell divisi 27.0 3E+02 0.0065 29.1 8.3 22 275-296 285-306 (319)
19 PF08846 DUF1816: Domain of un 21.8 1.5E+02 0.0033 24.6 4.1 29 170-198 8-38 (68)
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=99.69 E-value=3.5e-17 Score=127.60 Aligned_cols=59 Identities=53% Similarity=0.885 Sum_probs=55.3
Q ss_pred CceEEEEEecCCCeEEEEEeeC--CeEEEeCCCCCHHHHHHHHHHHHHHhcCcccCcccccc
Q 012583 158 SQYRGVTFYRRTGRWESHIWDS--GKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSIE 217 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~--gKri~LGtFdTeEEAArAYD~Aai~l~G~~A~~NFp~s 217 (460)
|+|+||++++ +|||+|+|+++ +|++|||+|+|+||||+|||.|+++++|..+.+|||.+
T Consensus 1 s~~~GV~~~~-~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRP-WGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECC-CCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 6899999765 59999999999 99999999999999999999999999999999999853
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.69 E-value=3.8e-17 Score=128.94 Aligned_cols=63 Identities=52% Similarity=0.769 Sum_probs=59.4
Q ss_pred cccCceeeccccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHHccCCCCCCCCCCcccH
Q 012583 251 KYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPSLYQ 313 (460)
Q Consensus 251 kyRGV~~~k~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~tNF~~s~Y~ 313 (460)
+|+||+++++|+|+|+|+...+++.++||+|+|+||||+|||.|+++++|..+.+|||.+.|.
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~ 63 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD 63 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence 589999988899999997666899999999999999999999999999999999999999985
No 3
>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=99.68 E-value=5.6e-17 Score=126.43 Aligned_cols=61 Identities=52% Similarity=0.797 Sum_probs=56.1
Q ss_pred ccccCceeeccccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHHccCCCCCCCCCCc
Q 012583 250 SKYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPS 310 (460)
Q Consensus 250 SkyRGV~~~k~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~tNF~~s 310 (460)
|+|+||+++++|+|+|+|+....++.++||+|+|+||||+|||.|+++++|..+.+|||.+
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 6899999988999999996544499999999999999999999999999999999999874
No 4
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.67 E-value=1.2e-16 Score=126.13 Aligned_cols=61 Identities=57% Similarity=0.945 Sum_probs=57.6
Q ss_pred ceEEEEEecCCCeEEEEEee--CCeEEEeCCCCCHHHHHHHHHHHHHHhcCcccCcccccccch
Q 012583 159 QYRGVTFYRRTGRWESHIWD--SGKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSIEDYE 220 (460)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~--~gKri~LGtFdTeEEAArAYD~Aai~l~G~~A~~NFp~sdYe 220 (460)
+|+||++ +++|||+|+|++ .++++|||+|+|+||||+|||.|+++++|..+.+|||.++|+
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 5899997 567999999999 899999999999999999999999999999999999999986
No 5
>PHA00280 putative NHN endonuclease
Probab=99.42 E-value=4.5e-13 Score=119.27 Aligned_cols=65 Identities=20% Similarity=0.322 Sum_probs=58.6
Q ss_pred cccCCCCCCCCCCceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcccC
Q 012583 146 LKKSRRGPRSRSSQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAEAD 211 (460)
Q Consensus 146 ~kk~rr~~r~~sSgYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~G~~A~ 211 (460)
..++++..++++|||+||+|++..+||+|+|++.||+++||.|+++|+|+.||+ |+.+++|.+|+
T Consensus 55 N~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 55 NSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTAEGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred HhcccCCCCCCCCCCCeeEEecCCCeEEEEEEECCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 455566678899999999999999999999999999999999999999999997 67789997764
No 6
>PHA00280 putative NHN endonuclease
Probab=99.27 E-value=1.1e-11 Score=110.54 Aligned_cols=104 Identities=16% Similarity=0.109 Sum_probs=80.5
Q ss_pred HHHHHHHHHHHhcCcccC---cccc-cccchhhhhhhccccccceeeeeccccCCCCCCCccccCceeec-cccEEEEec
Q 012583 194 AARAYDRAAIKFRGAEAD---INFS-IEDYEDDLKQMSNLTKEEFVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMG 268 (460)
Q Consensus 194 AArAYD~Aai~l~G~~A~---~NFp-~sdYeeeLkqLreLSKEE~VaaLRRqS~g~~r~sSkyRGV~~~k-~GKW~ArI~ 268 (460)
+-+++..+...++|.-.. +.+- .......+..|+.++..|...+.+.. ..++|+|+||+|++ .|||+|+|
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 445677777788884331 2221 12234567888888988888876544 46789999999986 79999999
Q ss_pred cccCceEEeecCCCCHHHHHHHHHHHHHHccCCCCC
Q 012583 269 QFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAV 304 (460)
Q Consensus 269 ~~~~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~ 304 (460)
..++|.++||.|+|+|+|+.||+ ++.+++|..|.
T Consensus 86 -~~~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 86 -TAEGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred -EECCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 68999999999999999999997 77899998764
No 7
>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=99.04 E-value=3.8e-10 Score=85.99 Aligned_cols=50 Identities=34% Similarity=0.557 Sum_probs=46.8
Q ss_pred CceEEEEEecCCCeEEEEEeeC-----CeEEEeCCCCCHHHHHHHHHHHHHHhcC
Q 012583 158 SQYRGVTFYRRTGRWESHIWDS-----GKQVYLGGFDTAHAAARAYDRAAIKFRG 207 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~-----gKri~LGtFdTeEEAArAYD~Aai~l~G 207 (460)
|+|+||+|++..++|+|.|++. +|.++||.|.++++|++|++.+++.++|
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~ 55 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEG 55 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcC
Confidence 6899999999999999999984 4899999999999999999999999887
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=98.77 E-value=2e-08 Score=76.53 Aligned_cols=52 Identities=37% Similarity=0.554 Sum_probs=45.0
Q ss_pred ccccCceeec-cccEEEEecccc-C--ceEEeecCCCCHHHHHHHHHHHHHHccCC
Q 012583 250 SKYRGVTLHK-CGRWEARMGQFL-G--KKYVYLGLFDTEVEAARAYDRAAVKCNGK 301 (460)
Q Consensus 250 SkyRGV~~~k-~GKW~ArI~~~~-~--gK~i~LGtFdTeEEAArAYD~AAikl~G~ 301 (460)
|+|+||++++ .++|+|+|+... + ++.++||.|++++||++||+.+.++++|.
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 6899999986 799999996532 1 49999999999999999999999999873
No 9
>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=81.39 E-value=28 Score=33.20 Aligned_cols=134 Identities=16% Similarity=0.216 Sum_probs=81.3
Q ss_pred CceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcc--c--Ccccccccchhhhhhhccccccc
Q 012583 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAE--A--DINFSIEDYEDDLKQMSNLTKEE 233 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~G~~--A--~~NFp~sdYeeeLkqLreLSKEE 233 (460)
.+|-||.++-+.-+=.+.|+..||-+--|. .++++|..|-++.+..+.... . ..+|.+........--..+..+.
T Consensus 34 ~~fpgli~Rl~~Pk~t~lIF~SGKiv~tGa-ks~~~a~~a~~~~~~~L~~~g~~~~~~~~~~i~NIVas~~l~~~i~L~~ 112 (174)
T cd04518 34 DQFPGLVYRLEDPKIAALIFRSGKMVCTGA-KSVEDLHRAVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNLDA 112 (174)
T ss_pred CcCcEEEEEccCCcEEEEEECCCeEEEEcc-CCHHHHHHHHHHHHHHHHhcCCCccCCCceEEEEEEEEEEcCCccCHHH
Confidence 568899987777788899999998877775 678888888888776664322 1 12332222111000000111122
Q ss_pred eeeeeccccCCCCCCCccccCceeec-cccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHHcc
Q 012583 234 FVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCN 299 (460)
Q Consensus 234 ~VaaLRRqS~g~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~ 299 (460)
+...++ . ..-...+|-|+..+- .-+=.+-| +..||-+..|. .+++|+.+|.++....|.
T Consensus 113 la~~~~-~---~~YePe~fpglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l~ 172 (174)
T cd04518 113 IAIGLP-N---AEYEPEQFPGLVYRLDEPKVVLLL--FSSGKMVITGA-KSEEDAKRAVEKLLSRLK 172 (174)
T ss_pred HHhhCC-C---CccCcccCceEEEEecCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence 221222 1 122446888988763 34555666 88899888885 678889999888776653
No 10
>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=80.56 E-value=27 Score=33.16 Aligned_cols=134 Identities=16% Similarity=0.153 Sum_probs=79.1
Q ss_pred CceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhcCc--cc--Ccccccccchhhhhhhccccccc
Q 012583 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGA--EA--DINFSIEDYEDDLKQMSNLTKEE 233 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~G~--~A--~~NFp~sdYeeeLkqLreLSKEE 233 (460)
.+|-||.++...-+=.+.|+..||-+--|. .++++|..|.++.+..+... .. ..||.+..-......-..+..+.
T Consensus 34 e~fpgli~R~~~P~~t~lIf~sGKivitGa-ks~~~~~~a~~~~~~~L~~~g~~~~~~~~~~v~NIvas~~l~~~i~L~~ 112 (174)
T cd00652 34 KRFPGVIMRLREPKTTALIFSSGKMVITGA-KSEEDAKLAARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLEE 112 (174)
T ss_pred CccceEEEEcCCCcEEEEEECCCEEEEEec-CCHHHHHHHHHHHHHHHHHcCCCccccCceEEEEEEEEEECCCcccHHH
Confidence 468899887777788899999999877776 46678888888776665321 11 23443221111000000111122
Q ss_pred eeeeeccccCCCCCCCccccCceeec-cccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHHc
Q 012583 234 FVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (460)
Q Consensus 234 ~VaaLRRqS~g~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (460)
+....+... .-...+|-|+..+- ..+=..-| +..||-+..|. .+++|+.+|+++-.-.|
T Consensus 113 la~~~~~~~---~YePe~fpgli~r~~~pk~t~lI--F~sGkvvitGa-ks~~~~~~a~~~i~~~L 172 (174)
T cd00652 113 LALKHPENA---SYEPELFPGLIYRMDEPKVVLLI--FVSGKIVITGA-KSREDIYEAVEKIYPIL 172 (174)
T ss_pred HHhhhhccc---EECCccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 222222111 12345788888764 34555566 78899888885 56888999988765443
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=74.88 E-value=43 Score=31.87 Aligned_cols=132 Identities=20% Similarity=0.189 Sum_probs=77.5
Q ss_pred ceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc--Ccccccccchhhhhhhccccccce
Q 012583 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA--DINFSIEDYEDDLKQMSNLTKEEF 234 (460)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~--G~~A--~~NFp~sdYeeeLkqLreLSKEE~ 234 (460)
+|-||.++-+.-+=.+.|+..||-+--| ..++++|.+|.+..+..+. |-.. ..||.+..-......-..+..+++
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~sGKiviTG-aks~~~~~~a~~~~~~~l~~~g~~~~~~~~f~v~nIvat~~~~~~i~L~~l 113 (174)
T cd04517 35 RYPKVTMRLREPRATASVWSSGKITITG-ATSEEEAKQAARRAARLLQKLGFKVVRFSNFRVVNVLATCSMPFPIRLDEL 113 (174)
T ss_pred CCCEEEEEecCCcEEEEEECCCeEEEEc-cCCHHHHHHHHHHHHHHHHHcCCCcccCCceEEEEEEEEEeCCCcccHHHH
Confidence 6889998777778889999999876666 4788999999988776663 2211 234432221110000001111111
Q ss_pred eeeeccccCCCCCCCccccCceeec-cccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHH
Q 012583 235 VHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVK 297 (460)
Q Consensus 235 VaaLRRqS~g~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAik 297 (460)
.....+.. .-...+|-|+..+- ..+=.+.| +..||-+..|. .+++|+.+|+++-.-.
T Consensus 114 a~~~~~~~---~YePE~fPgliyr~~~p~~t~lI--F~sGkivitGa-ks~~~~~~a~~~i~pi 171 (174)
T cd04517 114 AAKNRSSA---SYEPELHPGVVYRITGPRATLSI--FSTGSVTVTGA-RSMEDVREAVEKIYPI 171 (174)
T ss_pred HHhchhhc---EeCCccCCEEEEEECCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHH
Confidence 11111111 11345788888764 23445555 88899888885 5678888888765543
No 12
>PRK00394 transcription factor; Reviewed
Probab=64.98 E-value=91 Score=29.85 Aligned_cols=132 Identities=17% Similarity=0.233 Sum_probs=79.7
Q ss_pred CceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhcC--ccc--Ccccccccchh--hhhhhccccc
Q 012583 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRG--AEA--DINFSIEDYED--DLKQMSNLTK 231 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~G--~~A--~~NFp~sdYee--eLkqLreLSK 231 (460)
.+|-|+.++-+.-+=.+.|+..||-+--|.. ++++|..|-+..+..+.. -.. ..+|.+..... ++.. .+..
T Consensus 33 e~fpgli~Rl~~Pk~t~lIf~sGKiv~tGa~-S~~~a~~a~~~~~~~l~~~g~~~~~~~~~~i~NiVas~~l~~--~i~L 109 (179)
T PRK00394 33 EQFPGLVYRLEDPKIAALIFRSGKVVCTGAK-SVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGV--ELNL 109 (179)
T ss_pred ccCceEEEEecCCceEEEEEcCCcEEEEccC-CHHHHHHHHHHHHHHHHHcCCCccCCCceEEEEEEEEEEcCC--eEcH
Confidence 3577998877777889999999998888875 566788787776655533 221 12333222110 0100 1111
Q ss_pred cceeeeec-cccCCCCCCCccccCceeec-cccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHHc
Q 012583 232 EEFVHVLR-RQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (460)
Q Consensus 232 EE~VaaLR-RqS~g~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (460)
+.+...+. +. ..-...+|-|+..+- ..|=..-| +..||-+..|. .+++|+.+|.++....+
T Consensus 110 ~~la~~~~~~~---~~YePe~fPglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l 172 (179)
T PRK00394 110 NAIAIGLGLEN---IEYEPEQFPGLVYRLDDPKVVVLL--FGSGKLVITGA-KSEEDAEKAVEKILEKL 172 (179)
T ss_pred HHHHHhcCcCC---cEECcccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 11211110 11 112346788988763 44566666 78899888885 57888999988877665
No 13
>PLN00062 TATA-box-binding protein; Provisional
Probab=62.88 E-value=1.1e+02 Score=29.29 Aligned_cols=134 Identities=16% Similarity=0.155 Sum_probs=77.0
Q ss_pred CceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcccC---cccccccchhhhhhhccccccce
Q 012583 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAEAD---INFSIEDYEDDLKQMSNLTKEEF 234 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~G~~A~---~NFp~sdYeeeLkqLreLSKEE~ 234 (460)
..|-||.++-+.-+=.+.|+..||-+--|. .++|+|..|.++.+..+....-. .||.+.........-..+..+.+
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~SGKiviTGa-ks~e~a~~a~~~~~~~L~~lg~~~~~~~f~v~NIvas~~l~~~i~L~~l 112 (179)
T PLN00062 34 KRFAAVIMRIREPKTTALIFASGKMVCTGA-KSEHDSKLAARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGL 112 (179)
T ss_pred ccCcEEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcCCCccEEEEEEEEEECCCcccHHHH
Confidence 357799887777788899999998776664 67788888888877666332211 23332221111000001111212
Q ss_pred eeeeccccCCCCCCCccccCceeecc-ccEEEEeccccCceEEeecCCCCHHHHHHHHHHHHHHc
Q 012583 235 VHVLRRQSTGFPRGSSKYRGVTLHKC-GRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (460)
Q Consensus 235 VaaLRRqS~g~~r~sSkyRGV~~~k~-GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (460)
....++.. .-...+|-|+..+-. -+=...| +..||-+..|. .+++|+..|.+.-.-.|
T Consensus 113 a~~~~~~~---~YePE~fPgliyr~~~pk~~~li--F~sGkvvitGa-ks~~~~~~ai~~i~p~L 171 (179)
T PLN00062 113 AYAHGAFS---SYEPELFPGLIYRMKQPKIVLLI--FVSGKIVITGA-KVREEIYTAFENIYPVL 171 (179)
T ss_pred HHhchhhc---ccCcccCceEEEEeCCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 11111111 223467888887642 2444445 88899888885 56777888876654433
No 14
>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=62.68 E-value=1.1e+02 Score=29.22 Aligned_cols=132 Identities=17% Similarity=0.196 Sum_probs=75.2
Q ss_pred CceEEEEEecCCCeEEEEEeeCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcc--c-Ccccccccchhhhhhhccccccce
Q 012583 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAE--A-DINFSIEDYEDDLKQMSNLTKEEF 234 (460)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~gKri~LGtFdTeEEAArAYD~Aai~l~G~~--A-~~NFp~sdYeeeLkqLreLSKEE~ 234 (460)
.+|-||.++...-+=.+.|+..||-+--|. .++|+|..|.++.+..+.... . ..||...........-..+..+++
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~SGKiviTGa-ks~e~a~~a~~~i~~~L~~~g~~~~~~~~~v~Nivat~~l~~~i~L~~l 112 (174)
T cd04516 34 KRFAAVIMRIREPKTTALIFSSGKMVCTGA-KSEDDSKLAARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGL 112 (174)
T ss_pred ccCcEEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEEEEEECCCcccHHHH
Confidence 467799887777788899999999887776 466788888887766653321 1 133332221111100011111222
Q ss_pred eeeeccccCCCCCCCccccCceeeccccEEEEeccccCceEEeecCCCCHHHHHHHHHHHH
Q 012583 235 VHVLRRQSTGFPRGSSKYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAA 295 (460)
Q Consensus 235 VaaLRRqS~g~~r~sSkyRGV~~~k~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AA 295 (460)
....+... .-....|-|+..+-.+ +.+.+-.+..||-+.+|. .+++|+.+|++.-.
T Consensus 113 a~~~~~~~---~YePE~fPgliyr~~~-pk~~~liF~sGkvvitGa-ks~~~~~~a~~~i~ 168 (174)
T cd04516 113 AHAHKQFS---SYEPELFPGLIYRMVK-PKIVLLIFVSGKIVLTGA-KSREEIYQAFENIY 168 (174)
T ss_pred HHhChhcc---EeCCccCceEEEEecC-CcEEEEEeCCCEEEEEec-CCHHHHHHHHHHHH
Confidence 21111111 2234678898876422 333333388899888885 56777888876543
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=45.87 E-value=31 Score=28.55 Aligned_cols=31 Identities=26% Similarity=0.348 Sum_probs=25.7
Q ss_pred cEEEEeccccCceEEeecCCCCHHHHHHHHH
Q 012583 262 RWEARMGQFLGKKYVYLGLFDTEVEAARAYD 292 (460)
Q Consensus 262 KW~ArI~~~~~gK~i~LGtFdTeEEAArAYD 292 (460)
.|.++|.-.......|.|-|.|.+||..+..
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~ 39 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALP 39 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhc
Confidence 5899996555678999999999999987754
No 16
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=41.49 E-value=83 Score=23.26 Aligned_cols=36 Identities=25% Similarity=0.468 Sum_probs=27.1
Q ss_pred eEEEEEe-e---CC--eEEEeCCCCCHHHHHHHHHHHHHHhc
Q 012583 171 RWESHIW-D---SG--KQVYLGGFDTAHAAARAYDRAAIKFR 206 (460)
Q Consensus 171 KW~A~I~-~---~g--Kri~LGtFdTeEEAArAYD~Aai~l~ 206 (460)
+|...|. . .| ++++-+.|.|..||-.+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 4677773 2 24 57889999999999999988776653
No 17
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=35.90 E-value=1e+02 Score=22.78 Aligned_cols=38 Identities=21% Similarity=0.143 Sum_probs=27.6
Q ss_pred cEEEEec--cccCc--eEEeecCCCCHHHHHHHHHHHHHHcc
Q 012583 262 RWEARMG--QFLGK--KYVYLGLFDTEVEAARAYDRAAVKCN 299 (460)
Q Consensus 262 KW~ArI~--~~~~g--K~i~LGtFdTeEEAArAYD~AAikl~ 299 (460)
+|..+|. ....| ++++-+-|.|..||-.+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 4666662 22233 67788899999999999998877653
No 18
>PRK10927 essential cell division protein FtsN; Provisional
Probab=27.03 E-value=3e+02 Score=29.14 Aligned_cols=22 Identities=18% Similarity=0.255 Sum_probs=18.5
Q ss_pred EEeecCCCCHHHHHHHHHHHHH
Q 012583 275 YVYLGLFDTEVEAARAYDRAAV 296 (460)
Q Consensus 275 ~i~LGtFdTeEEAArAYD~AAi 296 (460)
+|.||-|.+.++|.++.++..-
T Consensus 285 RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 285 RVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred EEEeCCCCCHHHHHHHHHHHHH
Confidence 5779999999999999887543
No 19
>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=21.78 E-value=1.5e+02 Score=24.56 Aligned_cols=29 Identities=28% Similarity=0.405 Sum_probs=22.7
Q ss_pred CeEEEEEe--eCCeEEEeCCCCCHHHHHHHH
Q 012583 170 GRWESHIW--DSGKQVYLGGFDTAHAAARAY 198 (460)
Q Consensus 170 GKW~A~I~--~~gKri~LGtFdTeEEAArAY 198 (460)
-.|=++|. .+....|.|=|.|.+||..+.
T Consensus 8 laWWveI~T~~P~ctYyFGPF~s~~eA~~~~ 38 (68)
T PF08846_consen 8 LAWWVEIETQNPNCTYYFGPFDSREEAEAAL 38 (68)
T ss_pred CcEEEEEEcCCCCEEEEeCCcCCHHHHHHHh
Confidence 34557776 457899999999999998654
Done!