Query 016650
Match_columns 385
No_of_seqs 348 out of 1870
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 08:45:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016650.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016650hhsearch_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 4.8E-18 1E-22 129.7 6.7 59 171-230 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.7 5.9E-18 1.3E-22 130.7 7.0 63 264-326 1-63 (64)
3 cd00018 AP2 DNA-binding domain 99.7 7.6E-18 1.6E-22 128.6 7.0 61 263-323 1-61 (61)
4 smart00380 AP2 DNA-binding dom 99.7 1.6E-17 3.6E-22 128.3 6.6 61 172-233 1-63 (64)
5 PHA00280 putative NHN endonucl 99.6 3.5E-16 7.5E-21 135.8 6.5 74 148-224 46-119 (121)
6 PHA00280 putative NHN endonucl 99.4 2.1E-12 4.5E-17 112.4 9.0 104 207-317 11-119 (121)
7 PF00847 AP2: AP2 domain; Int 99.2 1.1E-10 2.4E-15 87.0 7.1 51 171-221 1-56 (56)
8 PF00847 AP2: AP2 domain; Int 98.9 2.5E-09 5.4E-14 79.8 6.9 52 263-314 1-56 (56)
9 cd00652 TBP_TLF TATA box bindi 82.8 29 0.00062 32.1 12.3 135 170-311 33-172 (174)
10 cd04518 TBP_archaea archaeal T 81.6 35 0.00075 31.7 12.4 136 169-312 32-172 (174)
11 PRK00394 transcription factor; 74.6 62 0.0013 30.1 11.9 135 169-311 31-172 (179)
12 cd04517 TLF TBP-like factors ( 71.1 71 0.0015 29.6 11.4 130 172-309 35-170 (174)
13 cd04516 TBP_eukaryotes eukaryo 70.1 70 0.0015 29.7 11.1 130 170-307 33-167 (174)
14 PLN00062 TATA-box-binding prot 68.1 82 0.0018 29.4 11.2 132 170-309 33-169 (179)
15 PF14657 Integrase_AP2: AP2-li 49.1 53 0.0011 23.5 5.1 35 184-218 1-41 (46)
16 PF08846 DUF1816: Domain of un 49.1 24 0.00053 28.2 3.6 31 275-305 9-39 (68)
17 PF14657 Integrase_AP2: AP2-li 47.7 54 0.0012 23.4 5.0 38 275-312 1-42 (46)
18 PF00352 TBP: Transcription fa 34.9 1.1E+02 0.0025 24.6 5.6 47 171-218 36-82 (86)
19 PRK10927 essential cell divisi 30.2 2.4E+02 0.0053 28.9 8.1 22 288-309 285-306 (319)
20 PF08471 Ribonuc_red_2_N: Clas 25.4 67 0.0014 27.3 2.7 21 198-218 70-90 (93)
21 PHA02601 int integrase; Provis 24.5 96 0.0021 30.1 4.1 39 179-218 5-46 (333)
22 PRK09692 integrase; Provisiona 22.4 1.7E+02 0.0036 29.7 5.5 41 269-309 34-80 (413)
23 PF05036 SPOR: Sporulation rel 22.1 55 0.0012 24.4 1.5 21 288-308 45-65 (76)
24 PF08846 DUF1816: Domain of un 21.6 1.6E+02 0.0035 23.6 4.1 29 183-211 8-38 (68)
25 PF12286 DUF3622: Protein of u 21.5 1.3E+02 0.0029 24.3 3.5 33 273-306 15-51 (71)
26 PF08471 Ribonuc_red_2_N: Clas 20.5 1E+02 0.0022 26.2 2.9 21 291-311 70-90 (93)
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=99.73 E-value=4.8e-18 Score=129.71 Aligned_cols=59 Identities=53% Similarity=0.852 Sum_probs=55.5
Q ss_pred CCcccceeecCCCcEEEEEEeC--CeEEeeCCCCCHHHHHHHHHHHHHHccCcccccccccc
Q 016650 171 SQYRGVTFYRRTGRWESHIWDC--GKQVYLGGFDTAHAAARAYDRAAIKFRGVDADINFNLA 230 (385)
Q Consensus 171 S~yRGV~~~r~~gKW~A~I~~~--gK~i~LGtFdT~EeAArAYD~Aa~kl~G~~a~~NFp~s 230 (385)
|+|+||++++ +|||+|+|+.+ +|++|||+|+|+||||+|||.|+++++|..+.+|||.+
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 7899999765 59999999999 99999999999999999999999999999999999964
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.73 E-value=5.9e-18 Score=130.74 Aligned_cols=63 Identities=48% Similarity=0.748 Sum_probs=59.4
Q ss_pred cccCeEEeecCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHHHhcCCCcccCCCCCccc
Q 016650 264 KYRGVTLHKCGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAIKCNGREAVTNFEPSTYE 326 (385)
Q Consensus 264 ~yrGV~~~k~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai~l~G~~A~tNF~~~~y~ 326 (385)
+|+||+++++|+|+|+|+.+.+++.++||+|+|+||||+|||.|+++++|..+.+|||++.|+
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 589999877999999997666999999999999999999999999999999999999999986
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=99.73 E-value=7.6e-18 Score=128.62 Aligned_cols=61 Identities=51% Similarity=0.788 Sum_probs=56.2
Q ss_pred ccccCeEEeecCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHHHhcCCCcccCCCCC
Q 016650 263 SKYRGVTLHKCGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAIKCNGREAVTNFEPS 323 (385)
Q Consensus 263 S~yrGV~~~k~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai~l~G~~A~tNF~~~ 323 (385)
|+|+||+++++|+|+|+|+....|+.++||+|+|+||||+|||.|+++++|..+.+|||.+
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 6899999988999999996444499999999999999999999999999999999999974
No 4
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.71 E-value=1.6e-17 Score=128.27 Aligned_cols=61 Identities=57% Similarity=0.920 Sum_probs=57.8
Q ss_pred CcccceeecCCCcEEEEEEe--CCeEEeeCCCCCHHHHHHHHHHHHHHccCccccccccccchh
Q 016650 172 QYRGVTFYRRTGRWESHIWD--CGKQVYLGGFDTAHAAARAYDRAAIKFRGVDADINFNLADYE 233 (385)
Q Consensus 172 ~yRGV~~~r~~gKW~A~I~~--~gK~i~LGtFdT~EeAArAYD~Aa~kl~G~~a~~NFp~s~y~ 233 (385)
+|+||++ +++|||+|+|++ +++++|||+|+|+||||+|||.|+++++|..+.+|||.++|+
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 899999999999999999999999999999999999999886
No 5
>PHA00280 putative NHN endonuclease
Probab=99.63 E-value=3.5e-16 Score=135.84 Aligned_cols=74 Identities=19% Similarity=0.299 Sum_probs=66.8
Q ss_pred cccccCCCccccccCCCCCCCCCCCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHccCcccc
Q 016650 148 EVRVTQQSSPVVKKSRRGPRSRSSQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFRGVDAD 224 (385)
Q Consensus 148 ~LR~at~~~n~~nk~r~~~~~~sS~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~G~~a~ 224 (385)
-||++|+.+|..|+++ +++++|||+||+|++..+||+|+|+.+||+++||+|+++|+|+.||+ ++.+|+|.+|.
T Consensus 46 NLr~~T~~eN~~N~~~--~~~N~SG~kGV~~~k~~~kw~A~I~~~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 46 NLRLALPKENSWNMKT--PKSNTSGLKGLSWSKEREMWRGTVTAEGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred HhhhcCHHHHhcccCC--CCCCCCCCCeeEEecCCCeEEEEEEECCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 4788999888888764 45889999999999999999999999999999999999999999997 77899998764
No 6
>PHA00280 putative NHN endonuclease
Probab=99.37 E-value=2.1e-12 Score=112.37 Aligned_cols=104 Identities=15% Similarity=0.083 Sum_probs=76.1
Q ss_pred HHHHHHHHHHHccCcccc---cccc-ccchhhhhhhhhhhhhhhHhhhhhcccccccCCcccccCeEEee-cCeEeEEEc
Q 016650 207 AARAYDRAAIKFRGVDAD---INFN-LADYEDDMKQMKNLTKEEFVHILRRQSTGFSRGSSKYRGVTLHK-CGRWEARMG 281 (385)
Q Consensus 207 AArAYD~Aa~kl~G~~a~---~NFp-~s~y~~el~~m~~lSKEE~V~aLRRqs~g~sr~sS~yrGV~~~k-~gkW~A~I~ 281 (385)
+-+++..+...++|.-.. +.+- -......+.-|...+..|.....+. .++++|+|+||+|++ .|||+|+|
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 APRRHIQVWEAANGPIPKGYYIDHIDGNPLNDALDNLRLALPKENSWNMKT----PKSNTSGLKGLSWSKEREMWRGTV- 85 (121)
T ss_pred hhhHhHhhhHHHHCCCCCCCEEEcCCCCCCCCcHHHhhhcCHHHHhcccCC----CCCCCCCCCeeEEecCCCeEEEEE-
Confidence 345677777778884321 1111 1122345666666677666655433 346789999999987 89999999
Q ss_pred eecCceeeecCCCCCHHHHHHHHHHHHHHhcCCCcc
Q 016650 282 QFLGKKYIYLGLFDSEVEAARAYDKAAIKCNGREAV 317 (385)
Q Consensus 282 ~~~~gK~i~LGtFdTeeEAArAYD~Aai~l~G~~A~ 317 (385)
.++||.++||.|+++|+|+.||+ ++++++|.+|.
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 58999999999999999999997 77899998775
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=99.15 E-value=1.1e-10 Score=87.04 Aligned_cols=51 Identities=33% Similarity=0.549 Sum_probs=47.1
Q ss_pred CCcccceeecCCCcEEEEEEeC-----CeEEeeCCCCCHHHHHHHHHHHHHHccCc
Q 016650 171 SQYRGVTFYRRTGRWESHIWDC-----GKQVYLGGFDTAHAAARAYDRAAIKFRGV 221 (385)
Q Consensus 171 S~yRGV~~~r~~gKW~A~I~~~-----gK~i~LGtFdT~EeAArAYD~Aa~kl~G~ 221 (385)
|+|+||+|++..++|+|+|++. +|.++||.|+++++|++||+.++..++|+
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e 56 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE 56 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence 7899999999999999999983 48999999999999999999999999873
No 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=98.94 E-value=2.5e-09 Score=79.78 Aligned_cols=52 Identities=37% Similarity=0.553 Sum_probs=45.2
Q ss_pred ccccCeEEee-cCeEeEEEceec-C--ceeeecCCCCCHHHHHHHHHHHHHHhcCC
Q 016650 263 SKYRGVTLHK-CGRWEARMGQFL-G--KKYIYLGLFDSEVEAARAYDKAAIKCNGR 314 (385)
Q Consensus 263 S~yrGV~~~k-~gkW~A~I~~~~-~--gK~i~LGtFdTeeEAArAYD~Aai~l~G~ 314 (385)
|+|+||++++ .++|+|+|+.+. + +|.++||.|++++||++||+.++++++|.
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 6899999988 899999997532 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=82.76 E-value=29 Score=32.09 Aligned_cols=135 Identities=17% Similarity=0.167 Sum_probs=80.1
Q ss_pred CCCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHcc--Cccc--cccccccchhhhhhhhhhhhhh
Q 016650 170 SSQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFR--GVDA--DINFNLADYEDDMKQMKNLTKE 245 (385)
Q Consensus 170 sS~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~--G~~a--~~NFp~s~y~~el~~m~~lSKE 245 (385)
..+|.||.++...-+=.+.|+..||-+--|. .++|+|..|.++.+..+. |... ..||....--.....--.+..+
T Consensus 33 Pe~fpgli~R~~~P~~t~lIf~sGKivitGa-ks~~~~~~a~~~~~~~L~~~g~~~~~~~~~~v~NIvas~~l~~~i~L~ 111 (174)
T cd00652 33 PKRFPGVIMRLREPKTTALIFSSGKMVITGA-KSEEDAKLAARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLE 111 (174)
T ss_pred CCccceEEEEcCCCcEEEEEECCCEEEEEec-CCHHHHHHHHHHHHHHHHHcCCCccccCceEEEEEEEEEECCCcccHH
Confidence 3688899887777788899999999887776 478888888888877763 3221 1233221100000000011122
Q ss_pred hHhhhhhcccccccCCcccccCeEEee-cCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHHHh
Q 016650 246 EFVHILRRQSTGFSRGSSKYRGVTLHK-CGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAIKC 311 (385)
Q Consensus 246 E~V~aLRRqs~g~sr~sS~yrGV~~~k-~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai~l 311 (385)
++....+... .=....|-|+.++- ..+=.+.| +..||-+-.|. .+++|+.+|+++-...|
T Consensus 112 ~la~~~~~~~---~YePe~fpgli~r~~~pk~t~lI--F~sGkvvitGa-ks~~~~~~a~~~i~~~L 172 (174)
T cd00652 112 ELALKHPENA---SYEPELFPGLIYRMDEPKVVLLI--FVSGKIVITGA-KSREDIYEAVEKIYPIL 172 (174)
T ss_pred HHHhhhhccc---EECCccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 2222222111 11245788998765 34445555 78898887776 57888998987655433
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=81.64 E-value=35 Score=31.69 Aligned_cols=136 Identities=15% Similarity=0.215 Sum_probs=82.3
Q ss_pred CCCCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHccCcc--c--cccccccchhhhhhhhhhhhh
Q 016650 169 RSSQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFRGVD--A--DINFNLADYEDDMKQMKNLTK 244 (385)
Q Consensus 169 ~sS~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~G~~--a--~~NFp~s~y~~el~~m~~lSK 244 (385)
+..+|.||.++-+.-+=.+.|+..||-+--|. .++++|..|-++.+..+.... . ..+|.....-.....--.+..
T Consensus 32 ~P~~fpgli~Rl~~Pk~t~lIF~SGKiv~tGa-ks~~~a~~a~~~~~~~L~~~g~~~~~~~~~~i~NIVas~~l~~~i~L 110 (174)
T cd04518 32 NPDQFPGLVYRLEDPKIAALIFRSGKMVCTGA-KSVEDLHRAVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNL 110 (174)
T ss_pred CCCcCcEEEEEccCCcEEEEEECCCeEEEEcc-CCHHHHHHHHHHHHHHHHhcCCCccCCCceEEEEEEEEEEcCCccCH
Confidence 34688999987777788899999999877765 688899999888887764322 1 112222110000000001112
Q ss_pred hhHhhhhhcccccccCCcccccCeEEee-cCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHHHhc
Q 016650 245 EEFVHILRRQSTGFSRGSSKYRGVTLHK-CGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAIKCN 312 (385)
Q Consensus 245 EE~V~aLRRqs~g~sr~sS~yrGV~~~k-~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai~l~ 312 (385)
+.+...++. -.=....|-|+.++- .-+=.+.| +..||-+-.|. .+++|+.+|.++....+.
T Consensus 111 ~~la~~~~~----~~YePe~fpglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l~ 172 (174)
T cd04518 111 DAIAIGLPN----AEYEPEQFPGLVYRLDEPKVVLLL--FSSGKMVITGA-KSEEDAKRAVEKLLSRLK 172 (174)
T ss_pred HHHHhhCCC----CccCcccCceEEEEecCCcEEEEE--eCCCEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence 222222221 112346788998765 34555555 78898887776 678899999887766553
No 11
>PRK00394 transcription factor; Reviewed
Probab=74.63 E-value=62 Score=30.12 Aligned_cols=135 Identities=17% Similarity=0.238 Sum_probs=81.8
Q ss_pred CCCCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHcc--Cccc--cccccccchh--hhhhhhhhh
Q 016650 169 RSSQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFR--GVDA--DINFNLADYE--DDMKQMKNL 242 (385)
Q Consensus 169 ~sS~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~--G~~a--~~NFp~s~y~--~el~~m~~l 242 (385)
...+|-|+.++-+.-+=.+.|+..||-+--|.. ++++|..|-++.+..+. |... ..+|.....- .++. -.+
T Consensus 31 ePe~fpgli~Rl~~Pk~t~lIf~sGKiv~tGa~-S~~~a~~a~~~~~~~l~~~g~~~~~~~~~~i~NiVas~~l~--~~i 107 (179)
T PRK00394 31 NPEQFPGLVYRLEDPKIAALIFRSGKVVCTGAK-SVEDLHEAVKIIIKKLKELGIKVIDEPEIKVQNIVASADLG--VEL 107 (179)
T ss_pred CcccCceEEEEecCCceEEEEEcCCcEEEEccC-CHHHHHHHHHHHHHHHHHcCCCccCCCceEEEEEEEEEEcC--CeE
Confidence 335788999877777889999999998888875 67788888888776653 3221 1222221100 0010 011
Q ss_pred hhhhHhhhhhcccccccCCcccccCeEEee-cCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHHHh
Q 016650 243 TKEEFVHILRRQSTGFSRGSSKYRGVTLHK-CGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAIKC 311 (385)
Q Consensus 243 SKEE~V~aLRRqs~g~sr~sS~yrGV~~~k-~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai~l 311 (385)
.-+.+...+.... -.=....|-|+.++- .-|=.+.| +..||-+-.|. .+++|+.+|.++....+
T Consensus 108 ~L~~la~~~~~~~--~~YePe~fPglvyR~~~pk~~~lI--F~SGKvvitGa-ks~~~~~~a~~~i~~~l 172 (179)
T PRK00394 108 NLNAIAIGLGLEN--IEYEPEQFPGLVYRLDDPKVVVLL--FGSGKLVITGA-KSEEDAEKAVEKILEKL 172 (179)
T ss_pred cHHHHHHhcCcCC--cEECcccCceEEEEecCCcEEEEE--EcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 1222222221000 111246788998765 44555666 78898887776 67899999988776655
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=71.13 E-value=71 Score=29.57 Aligned_cols=130 Identities=23% Similarity=0.235 Sum_probs=76.8
Q ss_pred CcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHcc--Cccc--cccccccchh--hhhhhhhhhhhh
Q 016650 172 QYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFR--GVDA--DINFNLADYE--DDMKQMKNLTKE 245 (385)
Q Consensus 172 ~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~--G~~a--~~NFp~s~y~--~el~~m~~lSKE 245 (385)
+|.||.++-+.-+=.+.|+..||-+--| ..++|+|.+|.++.+..+. |... ..+|....-- .+++. .+.-+
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~sGKiviTG-aks~~~~~~a~~~~~~~l~~~g~~~~~~~~f~v~nIvat~~~~~--~i~L~ 111 (174)
T cd04517 35 RYPKVTMRLREPRATASVWSSGKITITG-ATSEEEAKQAARRAARLLQKLGFKVVRFSNFRVVNVLATCSMPF--PIRLD 111 (174)
T ss_pred CCCEEEEEecCCcEEEEEECCCeEEEEc-cCCHHHHHHHHHHHHHHHHHcCCCcccCCceEEEEEEEEEeCCC--cccHH
Confidence 8899998777778889999999977665 4789999999988887763 3221 1233321100 00000 11112
Q ss_pred hHhhhhhcccccccCCcccccCeEEeecCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHH
Q 016650 246 EFVHILRRQSTGFSRGSSKYRGVTLHKCGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAI 309 (385)
Q Consensus 246 E~V~aLRRqs~g~sr~sS~yrGV~~~k~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai 309 (385)
++...-.+.. .=....|-|+.++-.+ +.+.+..+..||-+-.|. .+++|+.+|+++..-
T Consensus 112 ~la~~~~~~~---~YePE~fPgliyr~~~-p~~t~lIF~sGkivitGa-ks~~~~~~a~~~i~p 170 (174)
T cd04517 112 ELAAKNRSSA---SYEPELHPGVVYRITG-PRATLSIFSTGSVTVTGA-RSMEDVREAVEKIYP 170 (174)
T ss_pred HHHHhchhhc---EeCCccCCEEEEEECC-CcEEEEEeCCCEEEEEec-CCHHHHHHHHHHHHH
Confidence 2211111111 0123568899876532 334443378898887776 578888888866543
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=70.14 E-value=70 Score=29.68 Aligned_cols=130 Identities=18% Similarity=0.235 Sum_probs=76.8
Q ss_pred CCCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHccCcccc---ccccccchhh--hhhhhhhhhh
Q 016650 170 SSQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFRGVDAD---INFNLADYED--DMKQMKNLTK 244 (385)
Q Consensus 170 sS~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~G~~a~---~NFp~s~y~~--el~~m~~lSK 244 (385)
..+|-||.++-+.-+=.+.|+..||-+--|. .++|+|..|.++.+..+....-. .||.....-. +++. .+.-
T Consensus 33 Pe~fpgli~Rl~~Pk~t~lIF~SGKiviTGa-ks~e~a~~a~~~i~~~L~~~g~~~~~~~~~v~Nivat~~l~~--~i~L 109 (174)
T cd04516 33 PKRFAAVIMRIREPKTTALIFSSGKMVCTGA-KSEDDSKLAARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKF--PIRL 109 (174)
T ss_pred CccCcEEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEEEEEECCC--cccH
Confidence 3578899987777788899999999887776 47888888888888776332211 2332111100 0110 1111
Q ss_pred hhHhhhhhcccccccCCcccccCeEEeecCeEeEEEceecCceeeecCCCCCHHHHHHHHHHH
Q 016650 245 EEFVHILRRQSTGFSRGSSKYRGVTLHKCGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKA 307 (385)
Q Consensus 245 EE~V~aLRRqs~g~sr~sS~yrGV~~~k~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~A 307 (385)
+++.. +.+.. -.=....|-|+.++-.+ +.+.+-.+..||-+-.|. .+++|+.+|++.-
T Consensus 110 ~~la~-~~~~~--~~YePE~fPgliyr~~~-pk~~~liF~sGkvvitGa-ks~~~~~~a~~~i 167 (174)
T cd04516 110 EGLAH-AHKQF--SSYEPELFPGLIYRMVK-PKIVLLIFVSGKIVLTGA-KSREEIYQAFENI 167 (174)
T ss_pred HHHHH-hChhc--cEeCCccCceEEEEecC-CcEEEEEeCCCEEEEEec-CCHHHHHHHHHHH
Confidence 22221 11110 11234678899876532 444444478898887776 5678888887553
No 14
>PLN00062 TATA-box-binding protein; Provisional
Probab=68.13 E-value=82 Score=29.40 Aligned_cols=132 Identities=16% Similarity=0.159 Sum_probs=77.1
Q ss_pred CCCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHccCccccc---cccccchh--hhhhhhhhhhh
Q 016650 170 SSQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKFRGVDADI---NFNLADYE--DDMKQMKNLTK 244 (385)
Q Consensus 170 sS~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl~G~~a~~---NFp~s~y~--~el~~m~~lSK 244 (385)
..+|-||.++-+.-+=.+.|+..||-+--|. .++|+|..|.++.+..+....-.. ||.....- .+++. .+..
T Consensus 33 Pe~fpgli~Rl~~Pk~t~lIF~SGKiviTGa-ks~e~a~~a~~~~~~~L~~lg~~~~~~~f~v~NIvas~~l~~--~i~L 109 (179)
T PLN00062 33 PKRFAAVIMRIREPKTTALIFASGKMVCTGA-KSEHDSKLAARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKF--PIRL 109 (179)
T ss_pred CccCcEEEEEeCCCcEEEEEECCCeEEEEec-CCHHHHHHHHHHHHHHHHHcCCCcCCCccEEEEEEEEEECCC--cccH
Confidence 3578899987777888999999999876664 688899989988887773322122 33211110 00110 1111
Q ss_pred hhHhhhhhcccccccCCcccccCeEEeecCeEeEEEceecCceeeecCCCCCHHHHHHHHHHHHH
Q 016650 245 EEFVHILRRQSTGFSRGSSKYRGVTLHKCGRWEARMGQFLGKKYIYLGLFDSEVEAARAYDKAAI 309 (385)
Q Consensus 245 EE~V~aLRRqs~g~sr~sS~yrGV~~~k~gkW~A~I~~~~~gK~i~LGtFdTeeEAArAYD~Aai 309 (385)
+.+.. +... .-.=....|-|+.++-.+ +.+.+-.+..||-+-.|. .+++|+.+|.+.-.-
T Consensus 110 ~~la~-~~~~--~~~YePE~fPgliyr~~~-pk~~~liF~sGkvvitGa-ks~~~~~~ai~~i~p 169 (179)
T PLN00062 110 EGLAY-AHGA--FSSYEPELFPGLIYRMKQ-PKIVLLIFVSGKIVITGA-KVREEIYTAFENIYP 169 (179)
T ss_pred HHHHH-hchh--hcccCcccCceEEEEeCC-CcEEEEEeCCCEEEEEec-CCHHHHHHHHHHHHH
Confidence 22211 1111 011234678899876522 344444478899888876 567788878765443
No 15
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=49.14 E-value=53 Score=23.53 Aligned_cols=35 Identities=26% Similarity=0.458 Sum_probs=27.2
Q ss_pred cEEEEEE-e---CC--eEEeeCCCCCHHHHHHHHHHHHHHc
Q 016650 184 RWESHIW-D---CG--KQVYLGGFDTAHAAARAYDRAAIKF 218 (385)
Q Consensus 184 KW~A~I~-~---~g--K~i~LGtFdT~EeAArAYD~Aa~kl 218 (385)
+|...|. . .| ++++-+.|.|..||-.+...+...+
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 34 5789999999999999998877665
No 16
>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=49.13 E-value=24 Score=28.21 Aligned_cols=31 Identities=29% Similarity=0.359 Sum_probs=25.4
Q ss_pred eEeEEEceecCceeeecCCCCCHHHHHHHHH
Q 016650 275 RWEARMGQFLGKKYIYLGLFDSEVEAARAYD 305 (385)
Q Consensus 275 kW~A~I~~~~~gK~i~LGtFdTeeEAArAYD 305 (385)
.|-++|.-..-...+|.|-|.|.+||..+.-
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~ 39 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALP 39 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhc
Confidence 5889995445578899999999999998753
No 17
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=47.69 E-value=54 Score=23.45 Aligned_cols=38 Identities=24% Similarity=0.220 Sum_probs=26.9
Q ss_pred eEeEEE-c-eecCc--eeeecCCCCCHHHHHHHHHHHHHHhc
Q 016650 275 RWEARM-G-QFLGK--KYIYLGLFDSEVEAARAYDKAAIKCN 312 (385)
Q Consensus 275 kW~A~I-~-~~~~g--K~i~LGtFdTeeEAArAYD~Aai~l~ 312 (385)
+|..+| + ....| ++++-+-|.|..||-.+..++...+.
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 2 12233 56778889999999999888766653
No 18
>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=34.90 E-value=1.1e+02 Score=24.57 Aligned_cols=47 Identities=19% Similarity=0.346 Sum_probs=38.4
Q ss_pred CCcccceeecCCCcEEEEEEeCCeEEeeCCCCCHHHHHHHHHHHHHHc
Q 016650 171 SQYRGVTFYRRTGRWESHIWDCGKQVYLGGFDTAHAAARAYDRAAIKF 218 (385)
Q Consensus 171 S~yRGV~~~r~~gKW~A~I~~~gK~i~LGtFdT~EeAArAYD~Aa~kl 218 (385)
.+|.||.++-..-+-.+.|+..||-+..|. .++++|..|.++....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF~sGki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIFSSGKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEETTSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEEcCCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 468888877777788999999999888875 68889999988876654
No 19
>PRK10927 essential cell division protein FtsN; Provisional
Probab=30.18 E-value=2.4e+02 Score=28.91 Aligned_cols=22 Identities=9% Similarity=0.256 Sum_probs=17.8
Q ss_pred eeecCCCCCHHHHHHHHHHHHH
Q 016650 288 YIYLGLFDSEVEAARAYDKAAI 309 (385)
Q Consensus 288 ~i~LGtFdTeeEAArAYD~Aai 309 (385)
+|.||-|.+.++|-++.++..-
T Consensus 285 RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 285 RVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred EEEeCCCCCHHHHHHHHHHHHH
Confidence 5678999999999999766543
No 20
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=25.43 E-value=67 Score=27.29 Aligned_cols=21 Identities=29% Similarity=0.306 Sum_probs=18.4
Q ss_pred eCCCCCHHHHHHHHHHHHHHc
Q 016650 198 LGGFDTAHAAARAYDRAAIKF 218 (385)
Q Consensus 198 LGtFdT~EeAArAYD~Aa~kl 218 (385)
-|+|+|+|+|..=||..+..|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 399999999999999987665
No 21
>PHA02601 int integrase; Provisional
Probab=24.50 E-value=96 Score=30.11 Aligned_cols=39 Identities=21% Similarity=0.330 Sum_probs=27.5
Q ss_pred ecCCCcEEEEEEeC---CeEEeeCCCCCHHHHHHHHHHHHHHc
Q 016650 179 YRRTGRWESHIWDC---GKQVYLGGFDTAHAAARAYDRAAIKF 218 (385)
Q Consensus 179 ~r~~gKW~A~I~~~---gK~i~LGtFdT~EeAArAYD~Aa~kl 218 (385)
.+.+|+|+++++.. |+++.. +|.|..+|-...+.....+
T Consensus 5 ~~~~g~w~~~~~~~~~~g~r~~~-~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 5 KLKDGKWLCEIYPNGRDGKRIRK-RFATKGEALAFENYTMAEV 46 (333)
T ss_pred EcCCCCEEEEEEECCCCCchhhh-hhcCHHHHHHHHHHHHHhc
Confidence 46678999999864 676654 6899988876665554444
No 22
>PRK09692 integrase; Provisional
Probab=22.39 E-value=1.7e+02 Score=29.71 Aligned_cols=41 Identities=17% Similarity=0.234 Sum_probs=25.3
Q ss_pred EEeecC--eEeEEEceecCcee--eecCCCC--CHHHHHHHHHHHHH
Q 016650 269 TLHKCG--RWEARMGQFLGKKY--IYLGLFD--SEVEAARAYDKAAI 309 (385)
Q Consensus 269 ~~~k~g--kW~A~I~~~~~gK~--i~LGtFd--TeeEAArAYD~Aai 309 (385)
...+.| .|..+-+...+|++ +.||.|. |..+|..+..++..
T Consensus 34 ~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~~~ 80 (413)
T PRK09692 34 LIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAESRS 80 (413)
T ss_pred EEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHHHH
Confidence 334444 59888754344554 6899999 77777655544433
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=22.10 E-value=55 Score=24.42 Aligned_cols=21 Identities=33% Similarity=0.365 Sum_probs=16.9
Q ss_pred eeecCCCCCHHHHHHHHHHHH
Q 016650 288 YIYLGLFDSEVEAARAYDKAA 308 (385)
Q Consensus 288 ~i~LGtFdTeeEAArAYD~Aa 308 (385)
++.+|.|++.++|..+..+..
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 566799999999998876554
No 24
>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=21.64 E-value=1.6e+02 Score=23.55 Aligned_cols=29 Identities=28% Similarity=0.365 Sum_probs=22.6
Q ss_pred CcEEEEEE--eCCeEEeeCCCCCHHHHHHHH
Q 016650 183 GRWESHIW--DCGKQVYLGGFDTAHAAARAY 211 (385)
Q Consensus 183 gKW~A~I~--~~gK~i~LGtFdT~EeAArAY 211 (385)
-.|=++|. .+....|.|-|++.++|..+.
T Consensus 8 laWWveI~T~~P~ctYyFGPF~s~~eA~~~~ 38 (68)
T PF08846_consen 8 LAWWVEIETQNPNCTYYFGPFDSREEAEAAL 38 (68)
T ss_pred CcEEEEEEcCCCCEEEEeCCcCCHHHHHHHh
Confidence 35656666 467899999999999998654
No 25
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=21.48 E-value=1.3e+02 Score=24.32 Aligned_cols=33 Identities=24% Similarity=0.377 Sum_probs=21.6
Q ss_pred cCeEeEEEceecCceeeec----CCCCCHHHHHHHHHH
Q 016650 273 CGRWEARMGQFLGKKYIYL----GLFDSEVEAARAYDK 306 (385)
Q Consensus 273 ~gkW~A~I~~~~~gK~i~L----GtFdTeeEAArAYD~ 306 (385)
.+.|.|+|.+-+..++.-+ --|+||+||. +|-.
T Consensus 15 ~~~W~aEItR~vTsrkTvVSK~~~GF~SEaeAq-~W~e 51 (71)
T PF12286_consen 15 RNGWTAEITRRVTSRKTVVSKRQDGFASEAEAQ-AWGE 51 (71)
T ss_pred CCceeeeeeeeecCceeEEEecccCcccHHHHH-HHHH
Confidence 6789999966554333222 4699999976 5533
No 26
>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=20.51 E-value=1e+02 Score=26.21 Aligned_cols=21 Identities=29% Similarity=0.379 Sum_probs=18.0
Q ss_pred cCCCCCHHHHHHHHHHHHHHh
Q 016650 291 LGLFDSEVEAARAYDKAAIKC 311 (385)
Q Consensus 291 LGtFdTeeEAArAYD~Aai~l 311 (385)
-|+|+|+++|..=||..+..|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 599999999999999877654
Done!