Query 019391
Match_columns 341
No_of_seqs 302 out of 1884
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 09:05:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019391.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019391hhsearch_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 7.9E-18 1.7E-22 126.4 6.7 59 158-217 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.7 1.5E-17 3.3E-22 126.4 6.4 63 251-313 1-63 (64)
3 smart00380 AP2 DNA-binding dom 99.7 2.5E-17 5.5E-22 125.1 7.6 61 159-220 1-63 (64)
4 cd00018 AP2 DNA-binding domain 99.7 2.5E-17 5.4E-22 123.7 6.8 61 250-310 1-61 (61)
5 PHA00280 putative NHN endonucl 99.5 1.4E-13 3E-18 117.8 7.9 65 146-211 55-119 (121)
6 PHA00280 putative NHN endonucl 99.4 2.3E-12 5E-17 110.3 8.8 104 194-304 11-119 (121)
7 PF00847 AP2: AP2 domain; Int 99.1 1.6E-10 3.5E-15 84.8 6.2 50 158-207 1-55 (56)
8 PF00847 AP2: AP2 domain; Int 98.9 4.5E-09 9.8E-14 77.0 6.7 52 250-301 1-56 (56)
9 cd00652 TBP_TLF TATA box bindi 84.9 30 0.00065 31.4 13.4 134 158-298 34-172 (174)
10 cd04518 TBP_archaea archaeal T 81.4 42 0.00092 30.5 13.7 135 157-299 33-172 (174)
11 PF08846 DUF1816: Domain of un 79.1 4 8.6E-05 32.1 4.5 30 262-291 9-38 (68)
12 cd04517 TLF TBP-like factors ( 75.9 62 0.0014 29.4 13.1 132 159-297 35-171 (174)
13 PRK00394 transcription factor; 66.3 1.1E+02 0.0023 28.1 13.0 135 157-298 32-172 (179)
14 cd04516 TBP_eukaryotes eukaryo 63.1 1.2E+02 0.0026 27.6 13.3 132 158-295 34-168 (174)
15 PLN00062 TATA-box-binding prot 62.7 1.3E+02 0.0027 27.7 13.5 134 158-298 34-171 (179)
16 PF14657 Integrase_AP2: AP2-li 48.9 52 0.0011 23.1 5.0 35 171-205 1-41 (46)
17 PF14657 Integrase_AP2: AP2-li 42.1 77 0.0017 22.2 5.0 38 262-299 1-42 (46)
18 COG3087 FtsN Cell division pro 33.5 1.2E+02 0.0026 29.8 6.2 27 182-210 192-218 (264)
19 PRK10545 nucleotide excision r 31.8 1.2E+02 0.0026 29.9 6.1 24 182-205 140-163 (286)
20 PRK10927 essential cell divisi 31.1 1.9E+02 0.004 29.2 7.3 22 275-296 285-306 (319)
21 PF00352 TBP: Transcription fa 30.5 1.6E+02 0.0036 23.2 5.7 46 159-205 37-82 (86)
22 PF08846 DUF1816: Domain of un 25.5 1.3E+02 0.0027 23.8 4.1 29 170-198 8-38 (68)
23 PF05036 SPOR: Sporulation rel 21.3 69 0.0015 23.4 1.9 21 182-202 45-65 (76)
24 PF08471 Ribonuc_red_2_N: Clas 21.2 94 0.002 25.9 2.8 22 277-298 69-90 (93)
25 PHA02601 int integrase; Provis 21.2 1.2E+02 0.0025 28.9 3.9 39 166-205 5-46 (333)
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=99.72 E-value=7.9e-18 Score=126.42 Aligned_cols=59 Identities=53% Similarity=0.885 Sum_probs=55.3
Q ss_pred CCeeEeEEecCCCeEEEEeecC--CeeEEeCCCCCHHHHHHHHHHHHHHhcCCccccccccc
Q 019391 158 SQYRGVTFYRRTGRWESHIWDS--GKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSIE 217 (341)
Q Consensus 158 S~YRGV~~~r~~gKW~A~I~~~--gKri~LGtF~TaEeAArAYD~Aai~l~G~~A~~NFp~s 217 (341)
|+|+||++++ +|||+|+|+++ ++++|||+|+|+||||+|||.|+++++|..+.+|||.+
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=99.71 E-value=1.5e-17 Score=126.37 Aligned_cols=63 Identities=52% Similarity=0.769 Sum_probs=58.8
Q ss_pred cccCeeEeecceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHHhcCCCCCCCCCCcccH
Q 019391 251 KYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPSLYQ 313 (341)
Q Consensus 251 ~yrGV~~~k~GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaikl~G~~A~tNFp~s~Y~ 313 (341)
+|+||++++.|+|+|+|+...+++.++||+|+|+||||+|||.|+++++|..+.+|||+++|.
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 589999888899999996555899999999999999999999999999999999999999995
No 3
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.71 E-value=2.5e-17 Score=125.14 Aligned_cols=61 Identities=57% Similarity=0.945 Sum_probs=57.7
Q ss_pred CeeEeEEecCCCeEEEEeec--CCeeEEeCCCCCHHHHHHHHHHHHHHhcCCccccccccccch
Q 019391 159 QYRGVTFYRRTGRWESHIWD--SGKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSIEDYE 220 (341)
Q Consensus 159 ~YRGV~~~r~~gKW~A~I~~--~gKri~LGtF~TaEeAArAYD~Aai~l~G~~A~~NFp~s~Y~ 220 (341)
+|+||++ +++|||+|+|++ .+++++||+|+|+||||+|||.|+++++|..+.+|||.++|+
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 567999999999 899999999999999999999999999999999999999886
No 4
>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=99.70 E-value=2.5e-17 Score=123.70 Aligned_cols=61 Identities=52% Similarity=0.797 Sum_probs=55.7
Q ss_pred ccccCeeEeecceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHHhcCCCCCCCCCCc
Q 019391 250 SKYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPS 310 (341)
Q Consensus 250 S~yrGV~~~k~GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaikl~G~~A~tNFp~s 310 (341)
|+|+||++++.|+|+|+|+....++.++||+|+|+||||+|||.|+++++|..+.+|||.+
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 6899999988999999995433389999999999999999999999999999999999874
No 5
>PHA00280 putative NHN endonuclease
Probab=99.46 E-value=1.4e-13 Score=117.76 Aligned_cols=65 Identities=20% Similarity=0.322 Sum_probs=58.3
Q ss_pred cccCCCCCCCCCCCeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhcCCccc
Q 019391 146 LKKSRRGPRSRSSQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAEAD 211 (341)
Q Consensus 146 ~kk~~~~~~~~sS~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~G~~A~ 211 (341)
..++++.+++++|+|+||+|++..+||+|+|.++||+++||+|+|+|+|+.||+ ++.+++|.+|+
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 345556677899999999999999999999999999999999999999999997 67889998764
No 6
>PHA00280 putative NHN endonuclease
Probab=99.36 E-value=2.3e-12 Score=110.25 Aligned_cols=104 Identities=16% Similarity=0.111 Sum_probs=78.0
Q ss_pred HHHHHHHHHHHhcCCccc---ccccc-ccchhhhhhccccchhhhhhhhccccCCCCCCCccccCeeEee-cceEEEEec
Q 019391 194 AARAYDRAAIKFRGAEAD---INFSI-EDYEDDLKQMSNLTKEEFVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMG 268 (341)
Q Consensus 194 AArAYD~Aai~l~G~~A~---~NFp~-s~Y~~el~~l~~lskEE~V~~LRRqS~g~~r~sS~yrGV~~~k-~GkW~ArI~ 268 (341)
+-+++..+...++|.-.. +.+-. ......+..|+.++..+...+.+.. ..++|+|+||+|++ .|||+|+|
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 445677777888885331 12211 1233456777777777766665433 46789999999987 89999999
Q ss_pred eecCceeEEeccCCCHHHHHHHHHHHHHHhcCCCCC
Q 019391 269 QFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAV 304 (341)
Q Consensus 269 ~~~~~k~~~LG~FdTeeEAArAYDkAaikl~G~~A~ 304 (341)
..++|+++||+|+++|+|+.||+ ++++|||..|.
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 77899998664
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=99.11 E-value=1.6e-10 Score=84.78 Aligned_cols=50 Identities=34% Similarity=0.557 Sum_probs=46.7
Q ss_pred CCeeEeEEecCCCeEEEEeecC-----CeeEEeCCCCCHHHHHHHHHHHHHHhcC
Q 019391 158 SQYRGVTFYRRTGRWESHIWDS-----GKQVYLGGFDTAHAAARAYDRAAIKFRG 207 (341)
Q Consensus 158 S~YRGV~~~r~~gKW~A~I~~~-----gKri~LGtF~TaEeAArAYD~Aai~l~G 207 (341)
|+|+||+|++..++|+|+|++. +|.++||.|.++++|++|++.+++.++|
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 6899999999999999999883 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=98.90 E-value=4.5e-09 Score=77.04 Aligned_cols=52 Identities=37% Similarity=0.554 Sum_probs=45.0
Q ss_pred ccccCeeEee-cceEEEEeceec-C--ceeEEeccCCCHHHHHHHHHHHHHHhcCC
Q 019391 250 SKYRGVTLHK-CGRWEARMGQFL-G--KKYVYLGLFDTEVEAARAYDRAAVKCNGK 301 (341)
Q Consensus 250 S~yrGV~~~k-~GkW~ArI~~~~-~--~k~~~LG~FdTeeEAArAYDkAaikl~G~ 301 (341)
|+|+||++++ .++|+|+|+... + ++.++||.|++++||++|++.+.++++|.
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 6899999987 899999996521 1 49999999999999999999999999873
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=84.92 E-value=30 Score=31.38 Aligned_cols=134 Identities=16% Similarity=0.162 Sum_probs=80.6
Q ss_pred CCeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhc--CCcc--ccccccccchhhhhhccccchhh
Q 019391 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA--DINFSIEDYEDDLKQMSNLTKEE 233 (341)
Q Consensus 158 S~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~--G~~A--~~NFp~s~Y~~el~~l~~lskEE 233 (341)
.+|.||.++-..-+=.+.|+..||-+--|.. +.++|..|.++.+..+. |... ..||....-......-..+..++
T Consensus 34 e~fpgli~R~~~P~~t~lIf~sGKivitGak-s~~~~~~a~~~~~~~L~~~g~~~~~~~~~~v~NIvas~~l~~~i~L~~ 112 (174)
T cd00652 34 KRFPGVIMRLREPKTTALIFSSGKMVITGAK-SEEDAKLAARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLEE 112 (174)
T ss_pred CccceEEEEcCCCcEEEEEECCCEEEEEecC-CHHHHHHHHHHHHHHHHHcCCCccccCceEEEEEEEEEECCCcccHHH
Confidence 5688999877778888999999998777764 67788888887766663 3221 23443221111111111222333
Q ss_pred hhhhhccccCCCCCCCccccCeeEee-cceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHHh
Q 019391 234 FVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (341)
Q Consensus 234 ~V~~LRRqS~g~~r~sS~yrGV~~~k-~GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaikl 298 (341)
+....+.... =...+|.|+.++- .-+=.+-| +..||-+-.|. .+++|+.+|+++-.-.|
T Consensus 113 la~~~~~~~~---YePe~fpgli~r~~~pk~t~lI--F~sGkvvitGa-ks~~~~~~a~~~i~~~L 172 (174)
T cd00652 113 LALKHPENAS---YEPELFPGLIYRMDEPKVVLLI--FVSGKIVITGA-KSREDIYEAVEKIYPIL 172 (174)
T ss_pred HHhhhhcccE---ECCccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 3333332221 1235789988765 34555555 77788777776 67889999987765443
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=81.40 E-value=42 Score=30.54 Aligned_cols=135 Identities=16% Similarity=0.225 Sum_probs=81.8
Q ss_pred CCCeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhcCCc--c--ccccccccchhhhhhccccchh
Q 019391 157 SSQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAE--A--DINFSIEDYEDDLKQMSNLTKE 232 (341)
Q Consensus 157 sS~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~G~~--A--~~NFp~s~Y~~el~~l~~lskE 232 (341)
..+|.||.++-+.-+=.+-|+..||-+--|. .+.++|..|-++.+..+.... . ..+|.....-.....-..+..+
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 3568999987777788899999999877765 678888888888776664322 1 1222221111110000112222
Q ss_pred hhhhhhccccCCCCCCCccccCeeEee-cceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHHhc
Q 019391 233 EFVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCN 299 (341)
Q Consensus 233 E~V~~LRRqS~g~~r~sS~yrGV~~~k-~GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaikl~ 299 (341)
.+...++ ... =...+|.|+.++- .-+=.+-| +..||-+-.|. .+++|+.+|.++-...|.
T Consensus 112 ~la~~~~-~~~---YePe~fpglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l~ 172 (174)
T cd04518 112 AIAIGLP-NAE---YEPEQFPGLVYRLDEPKVVLLL--FSSGKMVITGA-KSEEDAKRAVEKLLSRLK 172 (174)
T ss_pred HHHhhCC-CCc---cCcccCceEEEEecCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence 3332222 211 1335889988764 34555666 77888777776 678999999888766553
No 11
>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=79.15 E-value=4 Score=32.08 Aligned_cols=30 Identities=27% Similarity=0.367 Sum_probs=25.1
Q ss_pred eEEEEeceecCceeEEeccCCCHHHHHHHH
Q 019391 262 RWEARMGQFLGKKYVYLGLFDTEVEAARAY 291 (341)
Q Consensus 262 kW~ArI~~~~~~k~~~LG~FdTeeEAArAY 291 (341)
.|-++|.-..-...+|.|-|.|.+||..+.
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~ 38 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAAL 38 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHh
Confidence 588999644556899999999999999883
No 12
>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=75.89 E-value=62 Score=29.39 Aligned_cols=132 Identities=20% Similarity=0.190 Sum_probs=77.9
Q ss_pred CeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhc--CCcc--ccccccccchhhhhhccccchhhh
Q 019391 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA--DINFSIEDYEDDLKQMSNLTKEEF 234 (341)
Q Consensus 159 ~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~--G~~A--~~NFp~s~Y~~el~~l~~lskEE~ 234 (341)
+|.||.++-+.-+=.+.|+..||-+--| ..++++|.+|.++.+..+. |-.. ..||....-......-..+..+++
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 7899998777788899999999876665 4788899999888876663 3221 134432211111101111222222
Q ss_pred hhhhccccCCCCCCCccccCeeEeec-ceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHH
Q 019391 235 VHVLRRQSTGFPRGSSKYRGVTLHKC-GRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVK 297 (341)
Q Consensus 235 V~~LRRqS~g~~r~sS~yrGV~~~k~-GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaik 297 (341)
.....+.... ....|.|+.++-. -+=.+.| +..||-+-.|. .+++|+.+|+++-.-.
T Consensus 114 a~~~~~~~~Y---ePE~fPgliyr~~~p~~t~lI--F~sGkivitGa-ks~~~~~~a~~~i~pi 171 (174)
T cd04517 114 AAKNRSSASY---EPELHPGVVYRITGPRATLSI--FSTGSVTVTGA-RSMEDVREAVEKIYPI 171 (174)
T ss_pred HHhchhhcEe---CCccCCEEEEEECCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHH
Confidence 2211111111 2347899887653 3444555 77788777775 5788888888765443
No 13
>PRK00394 transcription factor; Reviewed
Probab=66.34 E-value=1.1e+02 Score=28.07 Aligned_cols=135 Identities=16% Similarity=0.192 Sum_probs=81.0
Q ss_pred CCCeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhcC--Ccc--ccccccccchhhhhhccccchh
Q 019391 157 SSQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRG--AEA--DINFSIEDYEDDLKQMSNLTKE 232 (341)
Q Consensus 157 sS~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~G--~~A--~~NFp~s~Y~~el~~l~~lskE 232 (341)
..+|-|+.++-+.-+=.+.|+..||-+--|.. +.++|..|-++.+..+.. -.. ..+|.....-.....-..+..+
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 34688999887888889999999998888875 567788887777665533 221 1233221111000000112223
Q ss_pred hhhhhhc-cccCCCCCCCccccCeeEee-cceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHHh
Q 019391 233 EFVHVLR-RQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (341)
Q Consensus 233 E~V~~LR-RqS~g~~r~sS~yrGV~~~k-~GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaikl 298 (341)
++...+. +... =...+|.|+.++- .-+=..-| +..||-+-.|. .+++|+.+|.++-...+
T Consensus 111 ~la~~~~~~~~~---YePe~fPglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l 172 (179)
T PRK00394 111 AIAIGLGLENIE---YEPEQFPGLVYRLDDPKVVVLL--FGSGKLVITGA-KSEEDAEKAVEKILEKL 172 (179)
T ss_pred HHHHhcCcCCcE---ECcccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 3332221 1111 1235889988764 44556666 77788777776 67899999998876655
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=63.07 E-value=1.2e+02 Score=27.60 Aligned_cols=132 Identities=18% Similarity=0.207 Sum_probs=76.2
Q ss_pred CCeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhc--CCcc-ccccccccchhhhhhccccchhhh
Q 019391 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA-DINFSIEDYEDDLKQMSNLTKEEF 234 (341)
Q Consensus 158 S~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~--G~~A-~~NFp~s~Y~~el~~l~~lskEE~ 234 (341)
.+|-||.++-..-+=.+-|+..||-+--|.. ++|+|..|.++.+..+. |-.. ..||...........-..+..+++
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~SGKiviTGak-s~e~a~~a~~~i~~~L~~~g~~~~~~~~~v~Nivat~~l~~~i~L~~l 112 (174)
T cd04516 34 KRFAAVIMRIREPKTTALIFSSGKMVCTGAK-SEDDSKLAARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGL 112 (174)
T ss_pred ccCcEEEEEeCCCcEEEEEECCCeEEEEecC-CHHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEEEEEECCCcccHHHH
Confidence 4688999877777888999999998877764 67788888887776663 3221 133332211111111111222222
Q ss_pred hhhhccccCCCCCCCccccCeeEeecceEEEEeceecCceeEEeccCCCHHHHHHHHHHHH
Q 019391 235 VHVLRRQSTGFPRGSSKYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAA 295 (341)
Q Consensus 235 V~~LRRqS~g~~r~sS~yrGV~~~k~GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAa 295 (341)
....+.... =....|.|+.++-.+ +.+.+-.+..||-+-+|. .+++|+.+|++.-.
T Consensus 113 a~~~~~~~~---YePE~fPgliyr~~~-pk~~~liF~sGkvvitGa-ks~~~~~~a~~~i~ 168 (174)
T cd04516 113 AHAHKQFSS---YEPELFPGLIYRMVK-PKIVLLIFVSGKIVLTGA-KSREEIYQAFENIY 168 (174)
T ss_pred HHhChhccE---eCCccCceEEEEecC-CcEEEEEeCCCEEEEEec-CCHHHHHHHHHHHH
Confidence 221111111 123578998876522 334443377888777775 57888888876543
No 15
>PLN00062 TATA-box-binding protein; Provisional
Probab=62.69 E-value=1.3e+02 Score=27.67 Aligned_cols=134 Identities=16% Similarity=0.157 Sum_probs=77.5
Q ss_pred CCeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHhcCCccc---cccccccchhhhhhccccchhhh
Q 019391 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAEAD---INFSIEDYEDDLKQMSNLTKEEF 234 (341)
Q Consensus 158 S~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l~G~~A~---~NFp~s~Y~~el~~l~~lskEE~ 234 (341)
.+|-||.++-+.-+=.+-|+..||-+--|. .++++|..|.++.+..+....-. .||...........-..+..+.+
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 468899988788888999999998776664 67788888888877666332212 23332211111000011222222
Q ss_pred hhhhccccCCCCCCCccccCeeEeec-ceEEEEeceecCceeEEeccCCCHHHHHHHHHHHHHHh
Q 019391 235 VHVLRRQSTGFPRGSSKYRGVTLHKC-GRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (341)
Q Consensus 235 V~~LRRqS~g~~r~sS~yrGV~~~k~-GkW~ArI~~~~~~k~~~LG~FdTeeEAArAYDkAaikl 298 (341)
......... =....|.|+.++-. -+=...| +..||-+-.|. .+++|+..|.+.-.-.|
T Consensus 113 a~~~~~~~~---YePE~fPgliyr~~~pk~~~li--F~sGkvvitGa-ks~~~~~~ai~~i~p~L 171 (179)
T PLN00062 113 AYAHGAFSS---YEPELFPGLIYRMKQPKIVLLI--FVSGKIVITGA-KVREEIYTAFENIYPVL 171 (179)
T ss_pred HHhchhhcc---cCcccCceEEEEeCCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 221111111 12358889887653 2344444 77888777776 56888888876654433
No 16
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=48.90 E-value=52 Score=23.08 Aligned_cols=35 Identities=29% Similarity=0.548 Sum_probs=26.7
Q ss_pred eEEEEee--c--CC--eeEEeCCCCCHHHHHHHHHHHHHHh
Q 019391 171 RWESHIW--D--SG--KQVYLGGFDTAHAAARAYDRAAIKF 205 (341)
Q Consensus 171 KW~A~I~--~--~g--Kri~LGtF~TaEeAArAYD~Aai~l 205 (341)
+|...|. . .| ++++-+.|.|..||-.+...+...+
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~ 41 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAEL 41 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHH
Confidence 5777773 2 24 4789999999999999988776654
No 17
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=42.10 E-value=77 Score=22.23 Aligned_cols=38 Identities=24% Similarity=0.213 Sum_probs=27.6
Q ss_pred eEEEEe-cee-cCc--eeEEeccCCCHHHHHHHHHHHHHHhc
Q 019391 262 RWEARM-GQF-LGK--KYVYLGLFDTEVEAARAYDRAAVKCN 299 (341)
Q Consensus 262 kW~ArI-~~~-~~~--k~~~LG~FdTeeEAArAYDkAaikl~ 299 (341)
+|..+| +.. ..| ++++-+-|.|..||-.+..+....+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 477777 211 123 57888899999999999998877654
No 18
>COG3087 FtsN Cell division protein [Cell division and chromosome partitioning]
Probab=33.49 E-value=1.2e+02 Score=29.81 Aligned_cols=27 Identities=30% Similarity=0.438 Sum_probs=20.5
Q ss_pred eEEeCCCCCHHHHHHHHHHHHHHhcCCcc
Q 019391 182 QVYLGGFDTAHAAARAYDRAAIKFRGAEA 210 (341)
Q Consensus 182 ri~LGtF~TaEeAArAYD~Aai~l~G~~A 210 (341)
-+..|.|.+.++|-+. +|-+.|.|.++
T Consensus 192 ~LQcGaFk~~~qAE~~--rA~LAmlG~ss 218 (264)
T COG3087 192 MLQCGAFKTAEQAESV--RAQLAMLGISS 218 (264)
T ss_pred EEeecccccHHHHHHH--HHHHHhccccc
Confidence 3567999999999876 56677777554
No 19
>PRK10545 nucleotide excision repair endonuclease; Provisional
Probab=31.85 E-value=1.2e+02 Score=29.89 Aligned_cols=24 Identities=25% Similarity=0.191 Sum_probs=20.8
Q ss_pred eEEeCCCCCHHHHHHHHHHHHHHh
Q 019391 182 QVYLGGFDTAHAAARAYDRAAIKF 205 (341)
Q Consensus 182 ri~LGtF~TaEeAArAYD~Aai~l 205 (341)
..++|.|.+..+|-++-...+..+
T Consensus 140 ~~~~GpF~s~~~a~~~L~~l~~~f 163 (286)
T PRK10545 140 PNLFGLFANRRAALQALQSIADEQ 163 (286)
T ss_pred CcEEEEECCHHHHHHHHHHHHHHH
Confidence 469999999999999988887776
No 20
>PRK10927 essential cell division protein FtsN; Provisional
Probab=31.09 E-value=1.9e+02 Score=29.20 Aligned_cols=22 Identities=18% Similarity=0.255 Sum_probs=18.0
Q ss_pred eEEeccCCCHHHHHHHHHHHHH
Q 019391 275 YVYLGLFDTEVEAARAYDRAAV 296 (341)
Q Consensus 275 ~~~LG~FdTeeEAArAYDkAai 296 (341)
++.||-|.+.++|.++.++..-
T Consensus 285 RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 285 RVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred EEEeCCCCCHHHHHHHHHHHHH
Confidence 5788999999999999776543
No 21
>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=30.49 E-value=1.6e+02 Score=23.18 Aligned_cols=46 Identities=22% Similarity=0.367 Sum_probs=37.1
Q ss_pred CeeEeEEecCCCeEEEEeecCCeeEEeCCCCCHHHHHHHHHHHHHHh
Q 019391 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKF 205 (341)
Q Consensus 159 ~YRGV~~~r~~gKW~A~I~~~gKri~LGtF~TaEeAArAYD~Aai~l 205 (341)
+|.||.++-..-+-.+.|+..||-+..|. .+.++|..|.++....+
T Consensus 37 ~fpgl~~r~~~p~~t~~IF~sGki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 37 RFPGLIYRLRNPKATVLIFSSGKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TESSEEEEETTTTEEEEEETTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred cCCeEEEeecCCcEEEEEEcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 58899877777788999999999888775 57888888888776544
No 22
>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=25.50 E-value=1.3e+02 Score=23.75 Aligned_cols=29 Identities=28% Similarity=0.405 Sum_probs=22.9
Q ss_pred CeEEEEee--cCCeeEEeCCCCCHHHHHHHH
Q 019391 170 GRWESHIW--DSGKQVYLGGFDTAHAAARAY 198 (341)
Q Consensus 170 gKW~A~I~--~~gKri~LGtF~TaEeAArAY 198 (341)
-.|=++|. .+....|.|-|.|.++|..+.
T Consensus 8 laWWveI~T~~P~ctYyFGPF~s~~eA~~~~ 38 (68)
T PF08846_consen 8 LAWWVEIETQNPNCTYYFGPFDSREEAEAAL 38 (68)
T ss_pred CcEEEEEEcCCCCEEEEeCCcCCHHHHHHHh
Confidence 34557776 467899999999999998764
No 23
>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=21.32 E-value=69 Score=23.39 Aligned_cols=21 Identities=24% Similarity=0.377 Sum_probs=17.2
Q ss_pred eEEeCCCCCHHHHHHHHHHHH
Q 019391 182 QVYLGGFDTAHAAARAYDRAA 202 (341)
Q Consensus 182 ri~LGtF~TaEeAArAYD~Aa 202 (341)
++.+|.|.+.++|..+-....
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 788999999999988776544
No 24
>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=21.23 E-value=94 Score=25.93 Aligned_cols=22 Identities=32% Similarity=0.327 Sum_probs=18.3
Q ss_pred EeccCCCHHHHHHHHHHHHHHh
Q 019391 277 YLGLFDTEVEAARAYDRAAVKC 298 (341)
Q Consensus 277 ~LG~FdTeeEAArAYDkAaikl 298 (341)
--|+|+|+++|..=||.-+..|
T Consensus 69 ~~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 69 KGGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred hCCCcCCHHHHHHHHHHHHHHH
Confidence 3699999999999999876554
No 25
>PHA02601 int integrase; Provisional
Probab=21.22 E-value=1.2e+02 Score=28.93 Aligned_cols=39 Identities=21% Similarity=0.353 Sum_probs=26.6
Q ss_pred ecCCCeEEEEeecC---CeeEEeCCCCCHHHHHHHHHHHHHHh
Q 019391 166 YRRTGRWESHIWDS---GKQVYLGGFDTAHAAARAYDRAAIKF 205 (341)
Q Consensus 166 ~r~~gKW~A~I~~~---gKri~LGtF~TaEeAArAYD~Aai~l 205 (341)
.+.+|+|++.|+.. |+++.. +|.|..+|-.........+
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 45678999999864 676653 6899888766555443333
Done!