Query 013009
Match_columns 451
No_of_seqs 336 out of 1933
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 08:36:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013009.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013009hhsearch_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 2.4E-17 5.2E-22 128.2 6.5 58 158-216 1-60 (61)
2 smart00380 AP2 DNA-binding dom 99.7 3.3E-17 7.2E-22 129.0 6.1 63 251-313 1-63 (64)
3 cd00018 AP2 DNA-binding domain 99.7 5.3E-17 1.1E-21 126.3 6.6 61 250-310 1-61 (61)
4 smart00380 AP2 DNA-binding dom 99.7 9.5E-17 2.1E-21 126.4 7.4 61 159-220 1-63 (64)
5 PHA00280 putative NHN endonucl 99.4 3.5E-13 7.6E-18 119.7 7.8 65 146-211 55-119 (121)
6 PHA00280 putative NHN endonucl 99.3 6.2E-12 1.3E-16 111.8 8.4 104 194-304 11-119 (121)
7 PF00847 AP2: AP2 domain; Int 99.1 2.8E-10 6.1E-15 86.5 5.8 50 158-207 1-55 (56)
8 PF00847 AP2: AP2 domain; Int 98.8 1.6E-08 3.5E-13 76.8 6.3 51 250-300 1-55 (56)
9 cd04518 TBP_archaea archaeal T 86.8 17 0.00038 34.5 13.0 134 158-299 34-172 (174)
10 cd00652 TBP_TLF TATA box bindi 84.9 23 0.00051 33.5 12.8 134 158-298 34-172 (174)
11 cd04517 TLF TBP-like factors ( 80.1 39 0.00084 32.1 12.4 132 159-297 35-171 (174)
12 PRK00394 transcription factor; 74.3 68 0.0015 30.6 12.3 135 158-299 33-173 (179)
13 cd04516 TBP_eukaryotes eukaryo 69.3 1E+02 0.0023 29.3 12.3 131 158-295 34-168 (174)
14 PLN00062 TATA-box-binding prot 68.2 1.2E+02 0.0025 29.2 12.4 134 158-298 34-171 (179)
15 PF08846 DUF1816: Domain of un 43.9 34 0.00074 28.3 3.7 32 262-293 9-40 (68)
16 PF14657 Integrase_AP2: AP2-li 40.5 77 0.0017 23.4 4.9 36 171-206 1-42 (46)
17 PF14657 Integrase_AP2: AP2-li 36.5 96 0.0021 22.8 4.9 38 262-299 1-42 (46)
18 PRK10927 essential cell divisi 27.8 2.7E+02 0.0059 29.4 8.1 22 275-296 285-306 (319)
19 PRK10545 nucleotide excision r 26.7 1.4E+02 0.0031 30.7 5.8 25 182-206 140-164 (286)
20 KOG3302 TATA-box binding prote 25.0 6.3E+02 0.014 25.1 9.5 118 158-281 55-176 (200)
21 PF00352 TBP: Transcription fa 24.3 1.9E+02 0.0041 23.9 5.2 46 159-205 37-82 (86)
22 PF05036 SPOR: Sporulation rel 21.2 62 0.0013 24.7 1.7 21 275-295 45-65 (76)
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=99.70 E-value=2.4e-17 Score=128.19 Aligned_cols=58 Identities=53% Similarity=0.910 Sum_probs=55.0
Q ss_pred CCeEEEEEecCCCeEEEEeecC--CeEEEeCCCCCHHHHHHHHHHHHHHhcCcccCccccc
Q 013009 158 SQYRGVTFYRRTGRWESHIWDS--GKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSI 216 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~--GK~i~LGtFdTeEeAARAYD~Aaikl~G~~A~~NFp~ 216 (451)
|+|+||++++. |||+|+|+++ +|++|||+|+|+||||+|||.|+++++|..+.+|||.
T Consensus 1 s~~~GV~~~~~-gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~ 60 (61)
T cd00018 1 SKYRGVRQRPW-GKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPD 60 (61)
T ss_pred CCccCEEECCC-CcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCC
Confidence 68999997654 9999999999 9999999999999999999999999999999999985
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.69 E-value=3.3e-17 Score=128.97 Aligned_cols=63 Identities=52% Similarity=0.769 Sum_probs=59.3
Q ss_pred cccCceeeecccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHhcCCCcccCCCCcchh
Q 013009 251 KYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPSLYQ 313 (451)
Q Consensus 251 kyRGV~~~k~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~tNF~~s~Y~ 313 (451)
+|+||+++++|+|+|+|+...+++.++||+|+|+||||+|||.|+++++|..+.+|||.+.|+
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 589999988999999997666899999999999999999999999999999999999999985
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=5.3e-17 Score=126.28 Aligned_cols=61 Identities=52% Similarity=0.797 Sum_probs=56.0
Q ss_pred ccccCceeeecccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHhcCCCcccCCCCc
Q 013009 250 SKYRGVTLHKCGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAVTNFDPS 310 (451)
Q Consensus 250 SkyRGV~~~k~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~tNF~~s 310 (451)
|+|+||+++++|+|+|+|+....++.++||+|+|+||||+|||.|+++++|..+.+|||.+
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 6899999988999999996444499999999999999999999999999999999999864
No 4
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.68 E-value=9.5e-17 Score=126.39 Aligned_cols=61 Identities=57% Similarity=0.945 Sum_probs=57.6
Q ss_pred CeEEEEEecCCCeEEEEeec--CCeEEEeCCCCCHHHHHHHHHHHHHHhcCcccCccccccchh
Q 013009 159 QYRGVTFYRRTGRWESHIWD--SGKQVYLGGFDTAHAAARAYDRAAIKFRGAEADINFSIEDYE 220 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~--~GK~i~LGtFdTeEeAARAYD~Aaikl~G~~A~~NFp~sdYe 220 (451)
+|+||++ +++|||+|+|++ .+|++|||+|+|+||||+|||.|+++++|..+.+|||.++|+
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 566999999999 899999999999999999999999999999999999999886
No 5
>PHA00280 putative NHN endonuclease
Probab=99.42 E-value=3.5e-13 Score=119.67 Aligned_cols=65 Identities=20% Similarity=0.322 Sum_probs=58.2
Q ss_pred cccCCCCCCCCCCCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcccC
Q 013009 146 LKKSRRGPRSRSSQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAEAD 211 (451)
Q Consensus 146 ~kr~~r~~r~rtSgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~G~~A~ 211 (451)
..++++..++++|+|+||+|++..+||+|+|.++||+++||+|+++|+|+.||+ |+++++|.+|+
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 445556677899999999999999999999999999999999999999999997 77889997764
No 6
>PHA00280 putative NHN endonuclease
Probab=99.31 E-value=6.2e-12 Score=111.78 Aligned_cols=104 Identities=16% Similarity=0.109 Sum_probs=80.7
Q ss_pred HHHHHHHHHHHhcCcccC---cccc-ccchhhhhhhhcccchhhhhhhhccccCCCCCCCccccCceeee-cccEEEEec
Q 013009 194 AARAYDRAAIKFRGAEAD---INFS-IEDYEDDLKQMSNLTKEEFVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMG 268 (451)
Q Consensus 194 AARAYD~Aaikl~G~~A~---~NFp-~sdYeeeLkqLr~LSKEE~VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~ 268 (451)
+-+++..+...++|.-.. +.+- -......+..|+.++..+...+.+.. ..++|+|+||+|++ .|||+|+|
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 445777788888884331 1121 12234567888888988888876544 46789999999986 79999999
Q ss_pred cccCceeeeeccCCCHHHHHHHHHHHHHHhcCCCcc
Q 013009 269 QFLGKKYVYLGLFDTEVEAARAYDRAAVKCNGKDAV 304 (451)
Q Consensus 269 ~~~~gK~i~LGtFdTeEEAArAYD~AAikl~G~~A~ 304 (451)
.+++|.++||.|+|+|+|+.||+ ++.+++|..|.
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 78999999999999999999997 77899997764
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=99.06 E-value=2.8e-10 Score=86.49 Aligned_cols=50 Identities=34% Similarity=0.557 Sum_probs=46.7
Q ss_pred CCeEEEEEecCCCeEEEEeecC-----CeEEEeCCCCCHHHHHHHHHHHHHHhcC
Q 013009 158 SQYRGVTFYRRTGRWESHIWDS-----GKQVYLGGFDTAHAAARAYDRAAIKFRG 207 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~-----GK~i~LGtFdTeEeAARAYD~Aaikl~G 207 (451)
|+|+||+|++..++|+|.|++. +|.++||.|.++++|++|++.+++.++|
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=98.77 E-value=1.6e-08 Score=76.79 Aligned_cols=51 Identities=37% Similarity=0.557 Sum_probs=45.0
Q ss_pred ccccCceeee-cccEEEEecccc-C--ceeeeeccCCCHHHHHHHHHHHHHHhcC
Q 013009 250 SKYRGVTLHK-CGRWEARMGQFL-G--KKYVYLGLFDTEVEAARAYDRAAVKCNG 300 (451)
Q Consensus 250 SkyRGV~~~k-~GKW~ArI~~~~-~--gK~i~LGtFdTeEEAArAYD~AAikl~G 300 (451)
|+|+||++++ .++|+|+|+... + ++.++||.|++++||++||+.+.++++|
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 6899999987 799999996532 1 4999999999999999999999999986
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=86.79 E-value=17 Score=34.47 Aligned_cols=134 Identities=16% Similarity=0.226 Sum_probs=83.3
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhcCcc--c--Cccccccchhhhhhhhcccchhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFRGAE--A--DINFSIEDYEDDLKQMSNLTKEE 233 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~G~~--A--~~NFp~sdYeeeLkqLr~LSKEE 233 (451)
.+|-||.++-+.-+=.+.|+..||-+--|. .++++|..|-++.+..+.... . ..+|.+........--..+..+.
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 568899987777788899999998877765 678888888888776654322 1 12333222111110001122233
Q ss_pred hhhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHhc
Q 013009 234 FVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCN 299 (451)
Q Consensus 234 ~VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~ 299 (451)
+...++ ... =...+|-|+.++- .-+=.+-| +..||-+..|. .+++|+.+|.++-...|.
T Consensus 113 la~~~~-~~~---YePe~fpglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l~ 172 (174)
T cd04518 113 IAIGLP-NAE---YEPEQFPGLVYRLDEPKVVLLL--FSSGKMVITGA-KSEEDAKRAVEKLLSRLK 172 (174)
T ss_pred HHhhCC-CCc---cCcccCceEEEEecCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence 333333 221 1335788988764 34556666 78899888885 578889999888776653
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=84.92 E-value=23 Score=33.46 Aligned_cols=134 Identities=16% Similarity=0.166 Sum_probs=82.2
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc--Cccccccchhhhhhhhcccchhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA--DINFSIEDYEDDLKQMSNLTKEE 233 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A--~~NFp~sdYeeeLkqLr~LSKEE 233 (451)
.+|-||.++...-+=.+.|+..||-+--|. .++++|..|.++.+..+. |... ..||.+..-.....--..+..+.
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 468899987777888899999999877776 467788888888766653 3221 23443322111111111223333
Q ss_pred hhhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 234 FVHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 234 ~VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
+....+..... ...+|-|+.++- ..+=..-| +..||-+..|. .+++|+.+|+++-.-.|
T Consensus 113 la~~~~~~~~Y---ePe~fpgli~r~~~pk~t~lI--F~sGkvvitGa-ks~~~~~~a~~~i~~~L 172 (174)
T cd00652 113 LALKHPENASY---EPELFPGLIYRMDEPKVVLLI--FVSGKIVITGA-KSREDIYEAVEKIYPIL 172 (174)
T ss_pred HHhhhhcccEE---CCccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 44333322222 234688888774 34555666 77899888885 56888999987765544
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=80.14 E-value=39 Score=32.08 Aligned_cols=132 Identities=20% Similarity=0.186 Sum_probs=79.8
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc--Cccccccchhhhhhhhcccchhhh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA--DINFSIEDYEDDLKQMSNLTKEEF 234 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A--~~NFp~sdYeeeLkqLr~LSKEE~ 234 (451)
+|-||.++-+.-+=.+.|+..||-+--| ..++++|.+|.++.+..+. |... ..||.+..-......-..+..+++
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 7889998777778889999999876666 4788999999988776663 3221 234443221111111111222333
Q ss_pred hhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHH
Q 013009 235 VHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVK 297 (451)
Q Consensus 235 VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAik 297 (451)
.....+.... ...+|-|+.++- ..+=.+.| +..||-+..|. .+++|+.+|+++-.-.
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 3221222211 234688888874 33455556 78899888885 5678888888765543
No 12
>PRK00394 transcription factor; Reviewed
Probab=74.34 E-value=68 Score=30.60 Aligned_cols=135 Identities=16% Similarity=0.206 Sum_probs=82.1
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc--Cccccccchhhhhhhhcccchhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA--DINFSIEDYEDDLKQMSNLTKEE 233 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A--~~NFp~sdYeeeLkqLr~LSKEE 233 (451)
.+|-|+.++-+.-+=.+.|+..||-+--|.. ++++|..|-++.+..+. |... ..+|.+........--..+..+.
T Consensus 33 e~fpgli~Rl~~Pk~t~lIf~sGKiv~tGa~-S~~~a~~a~~~~~~~l~~~g~~~~~~~~~~i~NiVas~~l~~~i~L~~ 111 (179)
T PRK00394 33 EQFPGLVYRLEDPKIAALIFRSGKVVCTGAK-SVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGVELNLNA 111 (179)
T ss_pred ccCceEEEEecCCceEEEEEcCCcEEEEccC-CHHHHHHHHHHHHHHHHHcCCCccCCCceEEEEEEEEEEcCCeEcHHH
Confidence 3677999877777889999999998888875 56678888777665553 3222 12333322111100001122233
Q ss_pred hhhhhc-cccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHhc
Q 013009 234 FVHVLR-RQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKCN 299 (451)
Q Consensus 234 ~VaaLR-RqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl~ 299 (451)
+...+. +.... ...+|-|+.++- ..|=..-| +..||-+..|. .+++|+.+|.++-...+.
T Consensus 112 la~~~~~~~~~Y---ePe~fPglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l~ 173 (179)
T PRK00394 112 IAIGLGLENIEY---EPEQFPGLVYRLDDPKVVVLL--FGSGKLVITGA-KSEEDAEKAVEKILEKLE 173 (179)
T ss_pred HHHhcCcCCcEE---CcccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 333321 11111 235788888774 44666667 78899888885 578889999888776653
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=69.29 E-value=1e+02 Score=29.27 Aligned_cols=131 Identities=18% Similarity=0.238 Sum_probs=77.2
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc-Cccccccchhhhhhhhcccchhhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA-DINFSIEDYEDDLKQMSNLTKEEF 234 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A-~~NFp~sdYeeeLkqLr~LSKEE~ 234 (451)
.+|-||.++...-+=.+.|+..||-+--|. .++|+|..|.++.+..+. |-.. ..||.+.........-..+..+.+
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 467799987777788899999999887776 466788888888766653 3211 234433222211111112223333
Q ss_pred hhhhccccCCCCCCCccccCceeeec-ccEEEEeccccCceeeeeccCCCHHHHHHHHHHHH
Q 013009 235 VHVLRRQSTGFPRGSSKYRGVTLHKC-GRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAA 295 (451)
Q Consensus 235 VaaLRRqS~G~~r~sSkyRGV~~~k~-GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AA 295 (451)
....+.... =....|-|+.++-. -|=..-| +..||-+.+|. .+++|+.+|++.-.
T Consensus 113 a~~~~~~~~---YePE~fPgliyr~~~pk~~~li--F~sGkvvitGa-ks~~~~~~a~~~i~ 168 (174)
T cd04516 113 AHAHKQFSS---YEPELFPGLIYRMVKPKIVLLI--FVSGKIVLTGA-KSREEIYQAFENIY 168 (174)
T ss_pred HHhChhccE---eCCccCceEEEEecCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHH
Confidence 322122211 12357888887642 3344445 88899888885 56777888876543
No 14
>PLN00062 TATA-box-binding protein; Provisional
Probab=68.17 E-value=1.2e+02 Score=29.18 Aligned_cols=134 Identities=18% Similarity=0.177 Sum_probs=78.6
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHhc--Cccc-Cccccccchhhhhhhhcccchhhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKFR--GAEA-DINFSIEDYEDDLKQMSNLTKEEF 234 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl~--G~~A-~~NFp~sdYeeeLkqLr~LSKEE~ 234 (451)
..|-||.++-+.-+=.+.|+..||-+--|. .++|+|..|.++.+..+. |-.. ..||.+.........-..+..+.+
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 357899987777788899999998776664 677888888888776663 3211 134433222111111112222333
Q ss_pred hhhhccccCCCCCCCccccCceeeec-ccEEEEeccccCceeeeeccCCCHHHHHHHHHHHHHHh
Q 013009 235 VHVLRRQSTGFPRGSSKYRGVTLHKC-GRWEARMGQFLGKKYVYLGLFDTEVEAARAYDRAAVKC 298 (451)
Q Consensus 235 VaaLRRqS~G~~r~sSkyRGV~~~k~-GKW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~AAikl 298 (451)
....++... =....|-|+.++-. -+=..-| +..||-+..|. .+++|+..|.+.-.-.|
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 322122221 12357888887642 3444555 88899888885 55777877776554433
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=43.85 E-value=34 Score=28.27 Aligned_cols=32 Identities=25% Similarity=0.327 Sum_probs=26.0
Q ss_pred cEEEEeccccCceeeeeccCCCHHHHHHHHHH
Q 013009 262 RWEARMGQFLGKKYVYLGLFDTEVEAARAYDR 293 (451)
Q Consensus 262 KW~ArI~~~~~gK~i~LGtFdTeEEAArAYD~ 293 (451)
.|.++|.-.......|.|-|+|.+||..+..-
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~g 40 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPG 40 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhcc
Confidence 58999965556789999999999999887543
No 16
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=40.47 E-value=77 Score=23.36 Aligned_cols=36 Identities=25% Similarity=0.468 Sum_probs=27.0
Q ss_pred eEEEEee-c---CC--eEEEeCCCCCHHHHHHHHHHHHHHhc
Q 013009 171 RWESHIW-D---SG--KQVYLGGFDTAHAAARAYDRAAIKFR 206 (451)
Q Consensus 171 KW~A~I~-~---~G--K~i~LGtFdTeEeAARAYD~Aaikl~ 206 (451)
+|...|. . .| ++++-+.|.|..||-.+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 4666663 2 24 57889999999999999988776653
No 17
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=36.54 E-value=96 Score=22.84 Aligned_cols=38 Identities=21% Similarity=0.143 Sum_probs=27.6
Q ss_pred cEEEEec--cccCc--eeeeeccCCCHHHHHHHHHHHHHHhc
Q 013009 262 RWEARMG--QFLGK--KYVYLGLFDTEVEAARAYDRAAVKCN 299 (451)
Q Consensus 262 KW~ArI~--~~~~g--K~i~LGtFdTeEEAArAYD~AAikl~ 299 (451)
+|..+|. ....| ++++-+-|.|..||-.+...+...+.
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 67778889999999999998877763
No 18
>PRK10927 essential cell division protein FtsN; Provisional
Probab=27.81 E-value=2.7e+02 Score=29.37 Aligned_cols=22 Identities=18% Similarity=0.255 Sum_probs=18.3
Q ss_pred eeeeccCCCHHHHHHHHHHHHH
Q 013009 275 YVYLGLFDTEVEAARAYDRAAV 296 (451)
Q Consensus 275 ~i~LGtFdTeEEAArAYD~AAi 296 (451)
+|.||-|.+.++|.++.++...
T Consensus 285 RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 285 RVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred EEEeCCCCCHHHHHHHHHHHHH
Confidence 5789999999999999877543
No 19
>PRK10545 nucleotide excision repair endonuclease; Provisional
Probab=26.67 E-value=1.4e+02 Score=30.69 Aligned_cols=25 Identities=24% Similarity=0.219 Sum_probs=21.4
Q ss_pred EEEeCCCCCHHHHHHHHHHHHHHhc
Q 013009 182 QVYLGGFDTAHAAARAYDRAAIKFR 206 (451)
Q Consensus 182 ~i~LGtFdTeEeAARAYD~Aaikl~ 206 (451)
..++|.|.+..+|-++-...+..++
T Consensus 140 ~~~~GpF~s~~~a~~~L~~l~~~fr 164 (286)
T PRK10545 140 PNLFGLFANRRAALQALQSIADEQK 164 (286)
T ss_pred CcEEEEECCHHHHHHHHHHHHHHHc
Confidence 4699999999999999988887763
No 20
>KOG3302 consensus TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=25.00 E-value=6.3e+02 Score=25.08 Aligned_cols=118 Identities=22% Similarity=0.201 Sum_probs=67.4
Q ss_pred CCeEEEEEecCCCeEEEEeecCCeEEEeCCCCC--HHHHHHHHHHHHHHhcCccc-Cccccccchhhhhhhhcccchhhh
Q 013009 158 SQYRGVTFYRRTGRWESHIWDSGKQVYLGGFDT--AHAAARAYDRAAIKFRGAEA-DINFSIEDYEDDLKQMSNLTKEEF 234 (451)
Q Consensus 158 SgYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdT--eEeAARAYD~Aaikl~G~~A-~~NFp~sdYeeeLkqLr~LSKEE~ 234 (451)
..+..|-.+.+.=+=.|.||..||-+-.|.+.- +.-|||-|-+...++ |-.+ -+||.+..-......--.+-.+++
T Consensus 55 k~~~aVimrir~P~~ta~I~ssGKi~ctgA~se~~ar~aark~aRilqkL-gf~~~f~~fki~nv~asc~vpF~IrLe~~ 133 (200)
T KOG3302|consen 55 KRFAAVIMRIRSPRTTALIFSSGKIVCTGAKSEDSARLAARKYARILQKL-GFPVKFRDFKINNVVASCDVPFPIRLEGL 133 (200)
T ss_pred ccccEEEEEEcCCceEEEEecCCcEEEeccCCHHHHHHHHHHHHHHHHHc-CCCceehheeeEEEEEEEeccceeehhHh
Confidence 346678777778888899999999988887632 233444454444444 3222 356654333222222122223333
Q ss_pred hhhhccccCCCCCCCccccCceeee-cccEEEEeccccCceeeeeccC
Q 013009 235 VHVLRRQSTGFPRGSSKYRGVTLHK-CGRWEARMGQFLGKKYVYLGLF 281 (451)
Q Consensus 235 VaaLRRqS~G~~r~sSkyRGV~~~k-~GKW~ArI~~~~~gK~i~LGtF 281 (451)
...-+..+ .-..+.|-|+.++- .-|-+=.| +..|+.+.+|.=
T Consensus 134 ~~~h~~~s---sYepel~PgliYrm~~pkv~l~I--F~tG~VvvtgA~ 176 (200)
T KOG3302|consen 134 ALRHPVFS---SYEPELFPGLIYRMVKPKVVLLI--FVTGKVVVTGAK 176 (200)
T ss_pred hhhCCccc---ccCcccCceeEEEecCCcEEEEE--ecCCEEEEEecc
Confidence 33222222 22456888988873 44555555 888998888843
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=24.28 E-value=1.9e+02 Score=23.91 Aligned_cols=46 Identities=22% Similarity=0.367 Sum_probs=36.6
Q ss_pred CeEEEEEecCCCeEEEEeecCCeEEEeCCCCCHHHHHHHHHHHHHHh
Q 013009 159 QYRGVTFYRRTGRWESHIWDSGKQVYLGGFDTAHAAARAYDRAAIKF 205 (451)
Q Consensus 159 gYRGV~~~r~~GKW~A~I~~~GK~i~LGtFdTeEeAARAYD~Aaikl 205 (451)
.|-||.++-..-+-.+.|+..||-+..|. .++++|..|.+.....+
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 57788877777788999999999887775 67888888888776544
No 22
>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=21.18 E-value=62 Score=24.68 Aligned_cols=21 Identities=29% Similarity=0.350 Sum_probs=17.4
Q ss_pred eeeeccCCCHHHHHHHHHHHH
Q 013009 275 YVYLGLFDTEVEAARAYDRAA 295 (451)
Q Consensus 275 ~i~LGtFdTeEEAArAYD~AA 295 (451)
+|.+|.|++.++|..+..+..
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 567899999999988877655
Done!