Query 043184
Match_columns 270
No_of_seqs 249 out of 1198
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 13:43:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043184.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043184hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00018 AP2 DNA-binding domain 99.8 5.9E-21 1.3E-25 138.7 7.6 61 91-151 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 4.8E-20 1E-24 135.6 8.1 62 92-153 1-62 (64)
3 PHA00280 putative NHN endonucl 99.4 5.9E-13 1.3E-17 110.8 7.0 60 83-145 59-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.1 1.5E-10 3.3E-15 82.0 5.7 52 91-142 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 84.4 2.8 6.1E-05 28.9 4.8 37 103-139 1-41 (46)
6 cd00801 INT_P4 Bacteriophage P 74.4 6.5 0.00014 35.3 5.2 41 99-139 7-49 (357)
7 PHA02601 int integrase; Provis 72.3 5.6 0.00012 36.3 4.3 44 95-139 2-46 (333)
8 PF08846 DUF1816: Domain of un 51.2 27 0.00057 26.9 3.9 38 103-140 9-46 (68)
9 PF05036 SPOR: Sporulation rel 44.9 20 0.00043 25.3 2.3 25 112-136 41-65 (76)
10 PF13356 DUF4102: Domain of un 38.0 41 0.0009 25.7 3.3 38 102-139 35-74 (89)
11 PRK09692 integrase; Provisiona 37.9 85 0.0018 29.9 6.1 34 97-130 34-73 (413)
12 PF10729 CedA: Cell division a 36.0 71 0.0015 25.1 4.2 39 89-130 29-67 (80)
13 PLN00062 TATA-box-binding prot 31.3 1.8E+02 0.0039 25.9 6.6 49 89-140 32-81 (179)
14 PF08471 Ribonuc_red_2_N: Clas 31.2 51 0.0011 26.9 2.9 20 120-139 71-90 (93)
15 cd04517 TLF TBP-like factors ( 29.9 1.7E+02 0.0038 25.7 6.3 46 92-140 35-81 (174)
16 COG0197 RplP Ribosomal protein 27.1 90 0.0019 27.3 3.9 37 103-142 95-131 (146)
17 PF14112 DUF4284: Domain of un 26.2 40 0.00087 27.9 1.5 18 115-132 2-19 (122)
18 cd04516 TBP_eukaryotes eukaryo 24.8 2.8E+02 0.006 24.5 6.6 49 89-140 32-81 (174)
19 PRK10927 essential cell divisi 23.3 1E+02 0.0022 30.2 3.9 34 104-137 273-306 (319)
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=99.84 E-value=5.9e-21 Score=138.65 Aligned_cols=61 Identities=69% Similarity=1.277 Sum_probs=57.3
Q ss_pred CceeeEEeCCCCcEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 043184 91 RHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFKGTKAKLNFPER 151 (270)
Q Consensus 91 S~YRGVr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~G~~A~lNFP~~ 151 (270)
|+||||+++++|||+|+|+++..++++|||+|+|+||||+|||.|+++++|.++.+|||++
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 6899998888899999999986677999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.82 E-value=4.8e-20 Score=135.60 Aligned_cols=62 Identities=71% Similarity=1.305 Sum_probs=57.9
Q ss_pred ceeeEEeCCCCcEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCCcC
Q 043184 92 HYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFKGTKAKLNFPERVQ 153 (270)
Q Consensus 92 ~YRGVr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~G~~A~lNFP~~~~ 153 (270)
+||||+++++|||+|+|+++.+++++|||+|+|+||||+|||.|+++++|.++++|||++.+
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y 62 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLY 62 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccC
Confidence 59999888899999999997778899999999999999999999999999999999998654
No 3
>PHA00280 putative NHN endonuclease
Probab=99.40 E-value=5.9e-13 Score=110.78 Aligned_cols=60 Identities=13% Similarity=0.216 Sum_probs=51.9
Q ss_pred ccCCCCCCCceeeE-EeCCCCcEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhcCCCCC
Q 043184 83 QDQEGTRRRHYRGV-RQRPWGKWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFKGTKAK 145 (270)
Q Consensus 83 ~~~~~~~tS~YRGV-r~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~G~~A~ 145 (270)
+...+.++|+|||| +.+..|||+|+|++.+| +++||.|+++|+|+.||+ ++++++|++|.
T Consensus 59 ~~~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK--~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 59 MKTPKSNTSGLKGLSWSKEREMWRGTVTAEGK--QHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred cCCCCCCCCCCCeeEEecCCCeEEEEEEECCE--EEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 34456789999999 56777999999997655 999999999999999997 78899999875
No 4
>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes. Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.
Probab=99.10 E-value=1.5e-10 Score=81.99 Aligned_cols=52 Identities=33% Similarity=0.505 Sum_probs=44.4
Q ss_pred CceeeEE-eCCCCcEEEEEeCCC---CCceEecCCCCCHHHHHHHHHHHHHHhcCC
Q 043184 91 RHYRGVR-QRPWGKWAAEIRDPK---KAARVWLGTFETAEDAAMAYDKAALKFKGT 142 (270)
Q Consensus 91 S~YRGVr-~r~~GKW~A~I~~~~---kgkri~LGtFdT~EEAArAYD~AA~~l~G~ 142 (270)
|+|+||+ .+..++|+|+|++.. ++++++||.|++++||++|++.++++++|+
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 6899995 566799999999831 137999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=84.37 E-value=2.8 Score=28.86 Aligned_cols=37 Identities=22% Similarity=0.284 Sum_probs=29.6
Q ss_pred cEEEEEe--C--CCCCceEecCCCCCHHHHHHHHHHHHHHh
Q 043184 103 KWAAEIR--D--PKKAARVWLGTFETAEDAAMAYDKAALKF 139 (270)
Q Consensus 103 KW~A~I~--~--~~kgkri~LGtFdT~EEAArAYD~AA~~l 139 (270)
+|..+|. + .++.++++-+-|.|..||..+...+...+
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~ 41 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAEL 41 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHH
Confidence 5888883 3 35567889999999999999988876665
No 6
>cd00801 INT_P4 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall reaction mechanism with the superfamily of DNA breaking-rejoining enzymes. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes.
Probab=74.43 E-value=6.5 Score=35.34 Aligned_cols=41 Identities=22% Similarity=0.272 Sum_probs=30.9
Q ss_pred CCCCcEEEEEeCCCCCceEecCCCC--CHHHHHHHHHHHHHHh
Q 043184 99 RPWGKWAAEIRDPKKAARVWLGTFE--TAEDAAMAYDKAALKF 139 (270)
Q Consensus 99 r~~GKW~A~I~~~~kgkri~LGtFd--T~EEAArAYD~AA~~l 139 (270)
...+.|..+++..++..++.||+|+ +.++|.....+....+
T Consensus 7 ~g~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 7 SGSKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CCCEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 3335799999998888889999995 6777777666654444
No 7
>PHA02601 int integrase; Provisional
Probab=72.28 E-value=5.6 Score=36.30 Aligned_cols=44 Identities=25% Similarity=0.338 Sum_probs=30.2
Q ss_pred eEEeCCCCcEEEEEeCC-CCCceEecCCCCCHHHHHHHHHHHHHHh
Q 043184 95 GVRQRPWGKWAAEIRDP-KKAARVWLGTFETAEDAAMAYDKAALKF 139 (270)
Q Consensus 95 GVr~r~~GKW~A~I~~~-~kgkri~LGtFdT~EEAArAYD~AA~~l 139 (270)
+|++.++|+|+++|+.. ..|+++. .+|.|..||....+.....+
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~-~~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIR-KRFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhh-hhhcCHHHHHHHHHHHHHhc
Confidence 57777789999999853 2345554 36999998876665544444
No 8
>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=51.23 E-value=27 Score=26.91 Aligned_cols=38 Identities=21% Similarity=0.414 Sum_probs=28.2
Q ss_pred cEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhc
Q 043184 103 KWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFK 140 (270)
Q Consensus 103 KW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~ 140 (270)
.|=++|.-..-.-..|.|-|+|.+||..+.-.-...+.
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL~ 46 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDLE 46 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHHH
Confidence 46688886554458999999999999988655444443
No 9
>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=44.95 E-value=20 Score=25.35 Aligned_cols=25 Identities=32% Similarity=0.365 Sum_probs=20.2
Q ss_pred CCCceEecCCCCCHHHHHHHHHHHH
Q 043184 112 KKAARVWLGTFETAEDAAMAYDKAA 136 (270)
Q Consensus 112 ~kgkri~LGtFdT~EEAArAYD~AA 136 (270)
...-+|.+|.|+|.++|..+..+..
T Consensus 41 ~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 41 GPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp TTCEEEEECCECTCCHHHHHHHHHH
T ss_pred CceEEEEECCCCCHHHHHHHHHHHh
Confidence 4456899999999999988877655
No 10
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=37.99 E-value=41 Score=25.66 Aligned_cols=38 Identities=16% Similarity=0.112 Sum_probs=27.5
Q ss_pred CcEEEEEeCCCCCceEecCCCCC--HHHHHHHHHHHHHHh
Q 043184 102 GKWAAEIRDPKKAARVWLGTFET--AEDAAMAYDKAALKF 139 (270)
Q Consensus 102 GKW~A~I~~~~kgkri~LGtFdT--~EEAArAYD~AA~~l 139 (270)
..|..+.+..++.+++-||.|.+ ..+|.....+....+
T Consensus 35 kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 35 KTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred eEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 35999999888888999999976 566655554444333
No 11
>PRK09692 integrase; Provisional
Probab=37.86 E-value=85 Score=29.94 Aligned_cols=34 Identities=26% Similarity=0.381 Sum_probs=21.9
Q ss_pred EeCCCC--cEEEEEeCC--CCCceEecCCCC--CHHHHHH
Q 043184 97 RQRPWG--KWAAEIRDP--KKAARVWLGTFE--TAEDAAM 130 (270)
Q Consensus 97 r~r~~G--KW~A~I~~~--~kgkri~LGtFd--T~EEAAr 130 (270)
+-++.| .|..+.+.+ ++.+++-||.|. |..+|..
T Consensus 34 ~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~ 73 (413)
T PRK09692 34 LIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARN 73 (413)
T ss_pred EEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHH
Confidence 334444 599998754 444457899998 5555544
No 12
>PF10729 CedA: Cell division activator CedA; InterPro: IPR019666 CedA is made up of four antiparallel beta-strands and an alpha-helix. It activates cell division by inhibiting chromosome over-replication. This is mediated by binding to dsDNA via the beta-sheet [, ]. ; GO: 0003677 DNA binding, 0051301 cell division; PDB: 2BN8_A 2D35_A.
Probab=35.98 E-value=71 Score=25.11 Aligned_cols=39 Identities=23% Similarity=0.202 Sum_probs=25.6
Q ss_pred CCCceeeEEeCCCCcEEEEEeCCCCCceEecCCCCCHHHHHH
Q 043184 89 RRRHYRGVRQRPWGKWAAEIRDPKKAARVWLGTFETAEDAAM 130 (270)
Q Consensus 89 ~tS~YRGVr~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAAr 130 (270)
+--+||-||.-+ |||+|.+..... -.---.|..+|.|-|
T Consensus 29 k~dgfrdvw~lr-gkyvafvl~ge~--f~rsp~fs~pesaqr 67 (80)
T PF10729_consen 29 KMDGFRDVWQLR-GKYVAFVLMGEH--FRRSPAFSVPESAQR 67 (80)
T ss_dssp -TTTECCECCCC-CEEEEEEESSS---EEE---BSSHHHHHH
T ss_pred hcccccceeeec-cceEEEEEecch--hccCCCcCCcHHHHH
Confidence 456899998766 999999996433 334457777777654
No 13
>PLN00062 TATA-box-binding protein; Provisional
Probab=31.33 E-value=1.8e+02 Score=25.89 Aligned_cols=49 Identities=18% Similarity=0.046 Sum_probs=34.7
Q ss_pred CCCceeeEE-eCCCCcEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhc
Q 043184 89 RRRHYRGVR-QRPWGKWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFK 140 (270)
Q Consensus 89 ~tS~YRGVr-~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~ 140 (270)
+..+|-||. +-..-|-.+-|+..|| - .+=...++|+|..|.++.+..+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~SGK--i-viTGaks~e~a~~a~~~~~~~L~ 81 (179)
T PLN00062 32 NPKRFAAVIMRIREPKTTALIFASGK--M-VCTGAKSEHDSKLAARKYARIIQ 81 (179)
T ss_pred CCccCcEEEEEeCCCcEEEEEECCCe--E-EEEecCCHHHHHHHHHHHHHHHH
Confidence 345799983 3344577888887655 4 44345789999999999888774
No 14
>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=31.23 E-value=51 Score=26.90 Aligned_cols=20 Identities=40% Similarity=0.594 Sum_probs=17.8
Q ss_pred CCCCCHHHHHHHHHHHHHHh
Q 043184 120 GTFETAEDAAMAYDKAALKF 139 (270)
Q Consensus 120 GtFdT~EEAArAYD~AA~~l 139 (270)
|.|+|+|+|..=||+.+..|
T Consensus 71 GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 71 GYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCcCCHHHHHHHHHHHHHHH
Confidence 99999999999999877655
No 15
>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=29.94 E-value=1.7e+02 Score=25.68 Aligned_cols=46 Identities=20% Similarity=0.162 Sum_probs=34.5
Q ss_pred ceeeEE-eCCCCcEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhc
Q 043184 92 HYRGVR-QRPWGKWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFK 140 (270)
Q Consensus 92 ~YRGVr-~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~ 140 (270)
+|.||. +-..-|-.+-|+..|| +.+=...++|+|++|.++.+..+.
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~sGK---iviTGaks~~~~~~a~~~~~~~l~ 81 (174)
T cd04517 35 RYPKVTMRLREPRATASVWSSGK---ITITGATSEEEAKQAARRAARLLQ 81 (174)
T ss_pred CCCEEEEEecCCcEEEEEECCCe---EEEEccCCHHHHHHHHHHHHHHHH
Confidence 899984 3333578889997665 444556899999999998887773
No 16
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=27.14 E-value=90 Score=27.35 Aligned_cols=37 Identities=24% Similarity=0.202 Sum_probs=30.0
Q ss_pred cEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhcCC
Q 043184 103 KWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFKGT 142 (270)
Q Consensus 103 KW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~G~ 142 (270)
-|+|+|.- |+.++-=..+.++.|..|..+|+.+|=+.
T Consensus 95 gwaArVkp---G~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 95 GWAARVKP---GRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEEecC---CcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 49999983 55777777888999999999999887543
No 17
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=26.19 E-value=40 Score=27.90 Aligned_cols=18 Identities=17% Similarity=0.776 Sum_probs=14.1
Q ss_pred ceEecCCCCCHHHHHHHH
Q 043184 115 ARVWLGTFETAEDAAMAY 132 (270)
Q Consensus 115 kri~LGtFdT~EEAArAY 132 (270)
..||||+|.++++-..=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 469999999988876543
No 18
>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=24.78 E-value=2.8e+02 Score=24.48 Aligned_cols=49 Identities=22% Similarity=0.182 Sum_probs=34.5
Q ss_pred CCCceeeEE-eCCCCcEEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHHHhc
Q 043184 89 RRRHYRGVR-QRPWGKWAAEIRDPKKAARVWLGTFETAEDAAMAYDKAALKFK 140 (270)
Q Consensus 89 ~tS~YRGVr-~r~~GKW~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~~l~ 140 (270)
+..+|-||. +-..-|-.+-|+..|| -+--|. .++|+|..|.++.+..+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~SGK--iviTGa-ks~e~a~~a~~~i~~~L~ 81 (174)
T cd04516 32 NPKRFAAVIMRIREPKTTALIFSSGK--MVCTGA-KSEDDSKLAARKYARIIQ 81 (174)
T ss_pred CCccCcEEEEEeCCCcEEEEEECCCe--EEEEec-CCHHHHHHHHHHHHHHHH
Confidence 346788983 3334577888887655 554454 678999999998887774
No 19
>PRK10927 essential cell division protein FtsN; Provisional
Probab=23.35 E-value=1e+02 Score=30.19 Aligned_cols=34 Identities=18% Similarity=0.318 Sum_probs=25.6
Q ss_pred EEEEEeCCCCCceEecCCCCCHHHHHHHHHHHHH
Q 043184 104 WAAEIRDPKKAARVWLGTFETAEDAAMAYDKAAL 137 (270)
Q Consensus 104 W~A~I~~~~kgkri~LGtFdT~EEAArAYD~AA~ 137 (270)
|.|+|...+.-.||.||-|.+.++|.++.++...
T Consensus 273 ~~A~I~~~g~~~RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 273 FDSKITTNNGWNRVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred CeeEEccCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 4566654444578999999999999999876543
Done!