Query 042608
Match_columns 192
No_of_seqs 187 out of 1121
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 07:51:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042608.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042608hhsearch_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 99.9 1.3E-21 2.8E-26 135.3 7.6 61 18-78 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.9 3.3E-21 7.1E-26 134.9 8.5 63 19-81 1-63 (64)
3 PHA00280 putative NHN endonucl 99.6 1.3E-15 2.8E-20 120.0 6.9 64 6-72 55-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.2 1.3E-11 2.7E-16 83.3 5.5 52 18-69 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 87.1 2.3 4.9E-05 27.6 5.2 38 30-67 1-42 (46)
6 cd00801 INT_P4 Bacteriophage P 76.2 6 0.00013 33.8 5.3 39 28-66 9-49 (357)
7 PF13356 DUF4102: Domain of un 71.8 18 0.00039 26.1 6.2 44 23-66 27-74 (89)
8 PHA02601 int integrase; Provis 71.4 7 0.00015 33.8 4.6 44 22-66 2-46 (333)
9 PF05036 SPOR: Sporulation rel 61.2 12 0.00025 25.1 3.2 25 39-63 41-65 (76)
10 PF08846 DUF1816: Domain of un 60.9 17 0.00038 26.1 4.1 37 31-67 10-46 (68)
11 PRK09692 integrase; Provisiona 55.3 33 0.00072 31.0 6.0 42 23-64 33-80 (413)
12 COG0197 RplP Ribosomal protein 38.8 55 0.0012 26.9 4.2 36 31-69 96-131 (146)
13 PF08471 Ribonuc_red_2_N: Clas 38.0 35 0.00075 26.1 2.8 21 46-66 70-90 (93)
14 PLN00062 TATA-box-binding prot 35.7 1.5E+02 0.0032 24.8 6.5 49 16-67 32-81 (179)
15 PRK10927 essential cell divisi 35.7 52 0.0011 30.3 4.0 34 31-64 273-306 (319)
16 cd04517 TLF TBP-like factors ( 34.9 1.2E+02 0.0026 25.1 5.8 46 19-67 35-81 (174)
17 PF10729 CedA: Cell division a 32.8 92 0.002 22.9 4.1 39 16-57 29-67 (80)
18 PF07494 Reg_prop: Two compone 31.5 36 0.00077 19.0 1.5 8 43-50 17-24 (24)
19 PF14112 DUF4284: Domain of un 30.2 36 0.00078 26.5 1.8 16 43-58 3-18 (122)
20 TIGR01164 rplP_bact ribosomal 30.2 1.1E+02 0.0025 24.1 4.7 33 31-66 92-124 (126)
21 cd01433 Ribosomal_L16_L10e Rib 29.7 99 0.0022 23.5 4.2 43 22-66 59-105 (112)
22 COG3087 FtsN Cell division pro 28.8 75 0.0016 28.5 3.8 33 31-63 216-250 (264)
23 PRK09203 rplP 50S ribosomal pr 28.8 1.1E+02 0.0023 24.6 4.3 35 31-68 93-127 (138)
24 PF00352 TBP: Transcription fa 28.6 1.1E+02 0.0025 21.9 4.1 46 18-66 36-82 (86)
25 cd04516 TBP_eukaryotes eukaryo 28.4 2.3E+02 0.005 23.5 6.5 48 17-67 33-81 (174)
26 cd00652 TBP_TLF TATA box bindi 27.2 2E+02 0.0044 23.7 5.9 49 16-67 32-81 (174)
27 PF09954 DUF2188: Uncharacteri 26.2 1.7E+02 0.0037 19.6 4.5 39 23-65 3-41 (62)
28 PF07384 DUF1497: Protein of u 25.7 38 0.00083 23.4 1.1 34 46-79 1-34 (59)
29 cd04518 TBP_archaea archaeal T 25.1 2.5E+02 0.0054 23.3 6.1 49 16-67 32-81 (174)
30 PF00626 Gelsolin: Gelsolin re 24.2 1.4E+02 0.0029 20.0 3.7 34 33-66 20-53 (76)
31 PRK12757 cell division protein 24.0 1.2E+02 0.0027 26.9 4.3 34 31-64 210-243 (256)
32 PF14032 PknH_C: PknH-like ext 23.3 1.9E+02 0.0041 23.0 5.0 23 45-67 86-108 (189)
33 PF11821 DUF3341: Protein of u 21.9 74 0.0016 26.6 2.3 39 42-80 2-41 (173)
34 CHL00044 rpl16 ribosomal prote 21.6 1.7E+02 0.0036 23.4 4.2 35 31-68 93-127 (135)
35 PF12286 DUF3622: Protein of u 20.7 2E+02 0.0044 20.9 4.1 30 28-57 15-48 (71)
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=99.86 E-value=1.3e-21 Score=135.27 Aligned_cols=61 Identities=61% Similarity=0.933 Sum_probs=57.5
Q ss_pred CceeEEEECCCCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 042608 18 SRFLGVRQRPSGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLRGRNAKTNFIHH 78 (192)
Q Consensus 18 S~yrGV~~r~~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~G~~a~~NFp~~ 78 (192)
|+|+||+++++|||+|+|+++..++++|||+|+|+|||+.|||.++++++|.++.+|||.+
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 6899999999999999999876688999999999999999999999999999999999953
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.85 E-value=3.3e-21 Score=134.86 Aligned_cols=63 Identities=57% Similarity=0.891 Sum_probs=59.8
Q ss_pred ceeEEEECCCCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhcCCCCCCCCCCCCcc
Q 042608 19 RFLGVRQRPSGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLRGRNAKTNFIHHGII 81 (192)
Q Consensus 19 ~yrGV~~r~~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~G~~a~~NFp~~~~~ 81 (192)
+|+||+++++|||+|+|+++..++++|||+|+|+||||.|||.++++++|.++.+|||.+.|.
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 589999888999999999987888999999999999999999999999999999999998875
No 3
>PHA00280 putative NHN endonuclease
Probab=99.61 E-value=1.3e-15 Score=119.99 Aligned_cols=64 Identities=19% Similarity=0.206 Sum_probs=54.6
Q ss_pred ccccccCCCCCCCceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhcCCCCC
Q 042608 6 NNNLHENGNRSKSRFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLRGRNAK 72 (192)
Q Consensus 6 n~~~~~~~~~n~S~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~G~~a~ 72 (192)
|..+++..++|+|||+||++++ .|||+|+|+. .+|+++||.|+++|+|+.||+ ++.++||++|.
T Consensus 55 N~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~--~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 55 NSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTA--EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred HhcccCCCCCCCCCCCeeEEecCCCeEEEEEEE--CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 3333446779999999999876 8999999996 667899999999999999997 77889999884
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=99.25 E-value=1.3e-11 Score=83.26 Aligned_cols=52 Identities=37% Similarity=0.474 Sum_probs=45.5
Q ss_pred CceeEEEECC-CCcEEEEEEeCCC---CcEEeeccccCHHHHHHHHHHHHHHhcCC
Q 042608 18 SRFLGVRQRP-SGRWVAEIKESSQ---KLRLWLGTFDKAEEAAMAYDIAARLLRGR 69 (192)
Q Consensus 18 S~yrGV~~r~-~GkW~A~I~~~~~---kkri~LGtFdt~EEAA~AYd~Aa~~~~G~ 69 (192)
|+|+||++++ .++|+|+|++... +++++||.|++++||++||+.++++++|+
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 6899999877 8999999998321 48999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=87.11 E-value=2.3 Score=27.56 Aligned_cols=38 Identities=16% Similarity=0.210 Sum_probs=29.9
Q ss_pred cEEEEEE--e--CCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 30 RWVAEIK--E--SSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 30 kW~A~I~--~--~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
+|..+|. . .++.++++-+-|.|..||..+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5888883 3 345578899999999999999988777653
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=76.20 E-value=6 Score=33.78 Aligned_cols=39 Identities=31% Similarity=0.400 Sum_probs=30.6
Q ss_pred CCcEEEEEEeCCCCcEEeecccc--CHHHHHHHHHHHHHHh
Q 042608 28 SGRWVAEIKESSQKLRLWLGTFD--KAEEAAMAYDIAARLL 66 (192)
Q Consensus 28 ~GkW~A~I~~~~~kkri~LGtFd--t~EEAA~AYd~Aa~~~ 66 (192)
.+.|..+++.+++.+++.||+|+ +.++|.....+....+
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 35699999998888889999995 7778877776655555
No 7
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=71.78 E-value=18 Score=26.08 Aligned_cols=44 Identities=23% Similarity=0.336 Sum_probs=29.4
Q ss_pred EEECCCC--cEEEEEEeCCCCcEEeeccccC--HHHHHHHHHHHHHHh
Q 042608 23 VRQRPSG--RWVAEIKESSQKLRLWLGTFDK--AEEAAMAYDIAARLL 66 (192)
Q Consensus 23 V~~r~~G--kW~A~I~~~~~kkri~LGtFdt--~EEAA~AYd~Aa~~~ 66 (192)
|+..+.| .|.-+.+.+++.+++.||.|.. ..||..........+
T Consensus 27 l~v~~~G~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 27 LRVTPSGSKTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EEE-TTS-EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred EEEEeCCCeEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 3455554 4999999888889999999974 555555544444444
No 8
>PHA02601 int integrase; Provisional
Probab=71.40 E-value=7 Score=33.80 Aligned_cols=44 Identities=23% Similarity=0.351 Sum_probs=29.5
Q ss_pred EEEECCCCcEEEEEEeC-CCCcEEeeccccCHHHHHHHHHHHHHHh
Q 042608 22 GVRQRPSGRWVAEIKES-SQKLRLWLGTFDKAEEAAMAYDIAARLL 66 (192)
Q Consensus 22 GV~~r~~GkW~A~I~~~-~~kkri~LGtFdt~EEAA~AYd~Aa~~~ 66 (192)
+|++.++|+|.++++.. ..++++. .+|.|..||....+......
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 46666789999999853 2344554 36999999876655544443
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=61.22 E-value=12 Score=25.10 Aligned_cols=25 Identities=28% Similarity=0.327 Sum_probs=19.6
Q ss_pred CCCcEEeeccccCHHHHHHHHHHHH
Q 042608 39 SQKLRLWLGTFDKAEEAAMAYDIAA 63 (192)
Q Consensus 39 ~~kkri~LGtFdt~EEAA~AYd~Aa 63 (192)
...-+|++|.|++.+||..+.....
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 3445789999999999988877665
No 10
>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=60.93 E-value=17 Score=26.13 Aligned_cols=37 Identities=30% Similarity=0.436 Sum_probs=27.7
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
|=++|.-..-.-..|-|-|++.+||..+......-+.
T Consensus 10 WWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL~ 46 (68)
T PF08846_consen 10 WWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDLE 46 (68)
T ss_pred EEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHHH
Confidence 5588875555567899999999999998655554443
No 11
>PRK09692 integrase; Provisional
Probab=55.26 E-value=33 Score=30.96 Aligned_cols=42 Identities=12% Similarity=0.180 Sum_probs=26.9
Q ss_pred EEECCCC--cEEEEEEeC--CCCcEEeecccc--CHHHHHHHHHHHHH
Q 042608 23 VRQRPSG--RWVAEIKES--SQKLRLWLGTFD--KAEEAAMAYDIAAR 64 (192)
Q Consensus 23 V~~r~~G--kW~A~I~~~--~~kkri~LGtFd--t~EEAA~AYd~Aa~ 64 (192)
|+.++.| .|..+-+.+ ++.+++-||.|. |..||..+..++..
T Consensus 33 l~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~~~ 80 (413)
T PRK09692 33 LLIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAESRS 80 (413)
T ss_pred EEEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHHHH
Confidence 4555655 399887643 344457899999 77777665444333
No 12
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=38.80 E-value=55 Score=26.90 Aligned_cols=36 Identities=28% Similarity=0.141 Sum_probs=29.2
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhcCC
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLRGR 69 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~G~ 69 (192)
|+|+|. .++-++-=..++++.|.+|...|+.+|-+.
T Consensus 96 waArVk---pG~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 96 WAARVK---PGRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEec---CCcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 999998 344577777888999999999999988543
No 13
>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=37.97 E-value=35 Score=26.10 Aligned_cols=21 Identities=33% Similarity=0.430 Sum_probs=18.2
Q ss_pred eccccCHHHHHHHHHHHHHHh
Q 042608 46 LGTFDKAEEAAMAYDIAARLL 66 (192)
Q Consensus 46 LGtFdt~EEAA~AYd~Aa~~~ 66 (192)
-|.|+|+|+|..=||..+..|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 399999999999999977654
No 14
>PLN00062 TATA-box-binding protein; Provisional
Probab=35.68 E-value=1.5e+02 Score=24.79 Aligned_cols=49 Identities=18% Similarity=0.137 Sum_probs=34.6
Q ss_pred CCCceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 16 SKSRFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 16 n~S~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
+..+|.|+..|- .-+=.+-|.. .|| +.+=...++|+|..|.++.++.+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~--SGK-iviTGaks~e~a~~a~~~~~~~L~ 81 (179)
T PLN00062 32 NPKRFAAVIMRIREPKTTALIFA--SGK-MVCTGAKSEHDSKLAARKYARIIQ 81 (179)
T ss_pred CCccCcEEEEEeCCCcEEEEEEC--CCe-EEEEecCCHHHHHHHHHHHHHHHH
Confidence 345788986554 4566777774 443 555456899999999999888774
No 15
>PRK10927 essential cell division protein FtsN; Provisional
Probab=35.66 E-value=52 Score=30.27 Aligned_cols=34 Identities=15% Similarity=0.160 Sum_probs=26.7
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHH
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAAR 64 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~ 64 (192)
|.|+|...+.-.||.||-|.+.++|.++.++...
T Consensus 273 ~~A~I~~~g~~~RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 273 FDSKITTNNGWNRVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred CeeEEccCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 5677765445578999999999999999877654
No 16
>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=34.87 E-value=1.2e+02 Score=25.11 Aligned_cols=46 Identities=30% Similarity=0.237 Sum_probs=34.3
Q ss_pred ceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 19 RFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 19 ~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
+|.||..|- .-+=.+-|+. .|| +.+=...++|+|++|.++.++.+.
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~--sGK-iviTGaks~~~~~~a~~~~~~~l~ 81 (174)
T cd04517 35 RYPKVTMRLREPRATASVWS--SGK-ITITGATSEEEAKQAARRAARLLQ 81 (174)
T ss_pred CCCEEEEEecCCcEEEEEEC--CCe-EEEEccCCHHHHHHHHHHHHHHHH
Confidence 899986554 4566777875 443 555567899999999999888773
No 17
>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=32.81 E-value=92 Score=22.85 Aligned_cols=39 Identities=23% Similarity=0.181 Sum_probs=23.7
Q ss_pred CCCceeEEEECCCCcEEEEEEeCCCCcEEeeccccCHHHHHH
Q 042608 16 SKSRFLGVRQRPSGRWVAEIKESSQKLRLWLGTFDKAEEAAM 57 (192)
Q Consensus 16 n~S~yrGV~~r~~GkW~A~I~~~~~kkri~LGtFdt~EEAA~ 57 (192)
.--+||-|+.-+ |||+|.+..... -..--.|..+|.|-+
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 346788886554 999999985322 233456877777654
No 18
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=31.55 E-value=36 Score=19.05 Aligned_cols=8 Identities=50% Similarity=1.568 Sum_probs=6.6
Q ss_pred EEeecccc
Q 042608 43 RLWLGTFD 50 (192)
Q Consensus 43 ri~LGtFd 50 (192)
++|+||+.
T Consensus 17 ~lWigT~~ 24 (24)
T PF07494_consen 17 NLWIGTYN 24 (24)
T ss_dssp CEEEEETS
T ss_pred CEEEEeCC
Confidence 69999974
No 19
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=30.25 E-value=36 Score=26.52 Aligned_cols=16 Identities=25% Similarity=0.734 Sum_probs=12.7
Q ss_pred EEeeccccCHHHHHHH
Q 042608 43 RLWLGTFDKAEEAAMA 58 (192)
Q Consensus 43 ri~LGtFdt~EEAA~A 58 (192)
.+|||.|.+++|-..=
T Consensus 3 siWiG~f~s~~el~~Y 18 (122)
T PF14112_consen 3 SIWIGNFKSEDELEEY 18 (122)
T ss_pred EEEEecCCCHHHHHHH
Confidence 5899999998776543
No 20
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=30.16 E-value=1.1e+02 Score=24.06 Aligned_cols=33 Identities=33% Similarity=0.416 Sum_probs=25.4
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHh
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLL 66 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~ 66 (192)
|+|+|.. +..-+-++. .+++.|..|...|+.+|
T Consensus 92 ~varV~~--G~ilfEi~~-~~~~~a~~al~~a~~KL 124 (126)
T TIGR01164 92 WVAVVKP--GKILFEIAG-VPEEVAREAFRLAASKL 124 (126)
T ss_pred EEEEECC--CCEEEEEeC-CCHHHHHHHHHHHHhcC
Confidence 9999994 333345555 89999999999998876
No 21
>cd01433 Ribosomal_L16_L10e Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.
Probab=29.73 E-value=99 Score=23.49 Aligned_cols=43 Identities=28% Similarity=0.336 Sum_probs=28.6
Q ss_pred EEEECC-CC---cEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHh
Q 042608 22 GVRQRP-SG---RWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLL 66 (192)
Q Consensus 22 GV~~r~-~G---kW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~ 66 (192)
+++..+ .| .|+|+|.. +..-+-++.....+.|..|...++.++
T Consensus 59 ~~rMGkGKG~~~~~~a~v~~--G~iifEi~~~~~~~~~~~alk~a~~Kl 105 (112)
T cd01433 59 ETRMGKGKGKPEGWVARVKP--GQILFEVRGVPEEEVAKEALRRAAKKL 105 (112)
T ss_pred ccccCCCCCCccEEEEEECC--CCEEEEEeCcCcHHHHHHHHHHhhccC
Confidence 455544 33 39999994 333344555544899999999888876
No 22
>COG3087 FtsN Cell division protein [Cell division and chromosome partitioning]
Probab=28.82 E-value=75 Score=28.53 Aligned_cols=33 Identities=18% Similarity=0.240 Sum_probs=25.1
Q ss_pred EEEEEE--eCCCCcEEeeccccCHHHHHHHHHHHH
Q 042608 31 WVAEIK--ESSQKLRLWLGTFDKAEEAAMAYDIAA 63 (192)
Q Consensus 31 W~A~I~--~~~~kkri~LGtFdt~EEAA~AYd~Aa 63 (192)
..++|. .++..-||-||.|++.++|.+|-+++-
T Consensus 216 ~sskI~~~~~~~wyRV~vGP~n~~~~a~~aq~rLk 250 (264)
T COG3087 216 ISSKITGVTNGGWYRVRVGPFNSKADAVKAQKRLK 250 (264)
T ss_pred ccceeEeecCCceEEEEecCCCcHHHHHHHHHHHH
Confidence 456666 444556899999999999999876643
No 23
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=28.77 E-value=1.1e+02 Score=24.62 Aligned_cols=35 Identities=29% Similarity=0.283 Sum_probs=26.7
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhcC
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLRG 68 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~G 68 (192)
|+|+|.. +..-+-++. .+++.|..|...|+.+|-+
T Consensus 93 ~varVk~--G~iifEi~~-~~~~~a~~al~~a~~KLP~ 127 (138)
T PRK09203 93 WVAVVKP--GRILFEIAG-VSEELAREALRLAAAKLPI 127 (138)
T ss_pred EEEEECC--CCEEEEEeC-CCHHHHHHHHHHHhccCCC
Confidence 9999994 333345555 8999999999999988744
No 24
>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=28.58 E-value=1.1e+02 Score=21.91 Aligned_cols=46 Identities=26% Similarity=0.198 Sum_probs=31.4
Q ss_pred CceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHh
Q 042608 18 SRFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLL 66 (192)
Q Consensus 18 S~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~ 66 (192)
.+|.||..|- .-+-...|. ..||-+..| -.++|||..|.++....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF--~sGki~itG-aks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIF--SSGKIVITG-AKSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEE--TTSEEEEEE-ESSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEE--cCCEEEEEe-cCCHHHHHHHHHHHHHHH
Confidence 4788886544 345566666 455444444 589999999999887765
No 25
>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=28.36 E-value=2.3e+02 Score=23.45 Aligned_cols=48 Identities=21% Similarity=0.225 Sum_probs=33.5
Q ss_pred CCceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 17 KSRFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 17 ~S~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
..+|.|+..|- .-+-.+-|+. .||-+--|. .++|+|..|.++.++.+.
T Consensus 33 Pe~fpgli~Rl~~Pk~t~lIF~--SGKiviTGa-ks~e~a~~a~~~i~~~L~ 81 (174)
T cd04516 33 PKRFAAVIMRIREPKTTALIFS--SGKMVCTGA-KSEDDSKLAARKYARIIQ 81 (174)
T ss_pred CccCcEEEEEeCCCcEEEEEEC--CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 45788986554 4566677774 454444454 688999999999888774
No 26
>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=27.15 E-value=2e+02 Score=23.66 Aligned_cols=49 Identities=29% Similarity=0.255 Sum_probs=33.2
Q ss_pred CCCceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 16 SKSRFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 16 n~S~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
+..+|.|+..|- .-+=.+-|. ..|| +.+=.-.++|+|..|.++.+..+.
T Consensus 32 ePe~fpgli~R~~~P~~t~lIf--~sGK-ivitGaks~~~~~~a~~~~~~~L~ 81 (174)
T cd00652 32 NPKRFPGVIMRLREPKTTALIF--SSGK-MVITGAKSEEDAKLAARKYARILQ 81 (174)
T ss_pred CCCccceEEEEcCCCcEEEEEE--CCCE-EEEEecCCHHHHHHHHHHHHHHHH
Confidence 346889987655 345566666 4554 444334688999999999888773
No 27
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=26.24 E-value=1.7e+02 Score=19.60 Aligned_cols=39 Identities=33% Similarity=0.356 Sum_probs=25.6
Q ss_pred EEECCCCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHH
Q 042608 23 VRQRPSGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARL 65 (192)
Q Consensus 23 V~~r~~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~ 65 (192)
|..+..|.|..+.-. .. + -..+|+|.+||..+=...+..
T Consensus 3 V~p~~~~~W~v~~eg--~~-r-a~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKEG--AK-R-ASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeCC--Cc-c-cccccCcHHHHHHHHHHHHHh
Confidence 344456779887763 22 1 268999999998775555544
No 28
>PF07384 DUF1497: Protein of unknown function (DUF1497); InterPro: IPR009972 This entry is represented by Bacteriophage r1t, Orf17. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins of around 59 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this organism. The function of this family is unknown.
Probab=25.75 E-value=38 Score=23.36 Aligned_cols=34 Identities=21% Similarity=0.377 Sum_probs=25.1
Q ss_pred eccccCHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q 042608 46 LGTFDKAEEAAMAYDIAARLLRGRNAKTNFIHHG 79 (192)
Q Consensus 46 LGtFdt~EEAA~AYd~Aa~~~~G~~a~~NFp~~~ 79 (192)
.|+||+..||.+.-..|...+.....+..|....
T Consensus 1 mgyyd~~nearrisklas~~isseq~~kefe~~~ 34 (59)
T PF07384_consen 1 MGYYDKRNEARRISKLASQNISSEQNRKEFEINS 34 (59)
T ss_pred CCcccchhHHHHHHHHHhcccchhhhhhhhhhcc
Confidence 4899999999999888877776655555555433
No 29
>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=25.06 E-value=2.5e+02 Score=23.27 Aligned_cols=49 Identities=16% Similarity=0.093 Sum_probs=34.1
Q ss_pred CCCceeEEEECC-CCcEEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhc
Q 042608 16 SKSRFLGVRQRP-SGRWVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 16 n~S~yrGV~~r~-~GkW~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
+..+|.|+..|- .-+=.+-|+ ..|| +.+=...++|+|..|-++.+..+.
T Consensus 32 ~P~~fpgli~Rl~~Pk~t~lIF--~SGK-iv~tGaks~~~a~~a~~~~~~~L~ 81 (174)
T cd04518 32 NPDQFPGLVYRLEDPKIAALIF--RSGK-MVCTGAKSVEDLHRAVKEIIKKLK 81 (174)
T ss_pred CCCcCcEEEEEccCCcEEEEEE--CCCe-EEEEccCCHHHHHHHHHHHHHHHH
Confidence 346889987554 345556666 4554 444446899999999999888774
No 30
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=24.18 E-value=1.4e+02 Score=20.00 Aligned_cols=34 Identities=29% Similarity=0.485 Sum_probs=28.4
Q ss_pred EEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHh
Q 042608 33 AEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLL 66 (192)
Q Consensus 33 A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~ 66 (192)
+.|-+.+..-.+|+|.-.+..|-..|.+.|....
T Consensus 20 ~yIld~~~~i~vW~G~~~~~~e~~~a~~~a~~~~ 53 (76)
T PF00626_consen 20 CYILDCGYEIFVWVGKKSSPEEKAFAAQLAQELL 53 (76)
T ss_dssp EEEEEESSEEEEEEHTTSHHHHHHHHHHHHHHHH
T ss_pred EEEEEeCCCcEEEEeccCCHHHHHHHHHHHHHhh
Confidence 6666666677899999999999999998888766
No 31
>PRK12757 cell division protein FtsN; Provisional
Probab=24.01 E-value=1.2e+02 Score=26.95 Aligned_cols=34 Identities=15% Similarity=0.126 Sum_probs=25.4
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHH
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAAR 64 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~ 64 (192)
+.++|...+.--||+||-|.+.++|..+-++...
T Consensus 210 ~~a~I~~~gg~yRVrVGPf~sr~~A~~~~~rLk~ 243 (256)
T PRK12757 210 IESRITTGGGWNRVVLGPYNSKAAADKMLQRLKG 243 (256)
T ss_pred CceEEeecCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 4466665444468999999999999998777664
No 32
>PF14032 PknH_C: PknH-like extracellular domain
Probab=23.30 E-value=1.9e+02 Score=22.95 Aligned_cols=23 Identities=22% Similarity=0.127 Sum_probs=19.9
Q ss_pred eeccccCHHHHHHHHHHHHHHhc
Q 042608 45 WLGTFDKAEEAAMAYDIAARLLR 67 (192)
Q Consensus 45 ~LGtFdt~EEAA~AYd~Aa~~~~ 67 (192)
-++.|.++++|..+|+..+..++
T Consensus 86 aV~~fp~~~~A~~~f~~~~~~w~ 108 (189)
T PF14032_consen 86 AVVVFPSAAAAQAFFARLADQWR 108 (189)
T ss_pred EEEEeCCHHHHHHHHHHHHHHHH
Confidence 46899999999999999887764
No 33
>PF11821 DUF3341: Protein of unknown function (DUF3341); InterPro: IPR021776 This family of proteins are functionally uncharacterised. This family is found in bacteria. Proteins in this family are about 170 amino acids in length.
Probab=21.88 E-value=74 Score=26.59 Aligned_cols=39 Identities=26% Similarity=0.177 Sum_probs=27.0
Q ss_pred cEEeeccccCHHHHHHHHHHHHHH-hcCCCCCCCCCCCCc
Q 042608 42 LRLWLGTFDKAEEAAMAYDIAARL-LRGRNAKTNFIHHGI 80 (192)
Q Consensus 42 kri~LGtFdt~EEAA~AYd~Aa~~-~~G~~a~~NFp~~~~ 80 (192)
++..||.|+++++..+|-.+...+ ++--++.+.||....
T Consensus 2 ~~gl~a~F~~~~~l~~A~~~~r~~G~~~~d~ytPfPvhgl 41 (173)
T PF11821_consen 2 KYGLLAEFDDPEALLHAARKLRDAGYRIWDVYTPFPVHGL 41 (173)
T ss_pred CceEEEEECCHHHHHHHHHHHHHcCCceeEEeCCCcCcCH
Confidence 457899999999888776555443 333456688886654
No 34
>CHL00044 rpl16 ribosomal protein L16
Probab=21.63 E-value=1.7e+02 Score=23.43 Aligned_cols=35 Identities=29% Similarity=0.289 Sum_probs=25.2
Q ss_pred EEEEEEeCCCCcEEeeccccCHHHHHHHHHHHHHHhcC
Q 042608 31 WVAEIKESSQKLRLWLGTFDKAEEAAMAYDIAARLLRG 68 (192)
Q Consensus 31 W~A~I~~~~~kkri~LGtFdt~EEAA~AYd~Aa~~~~G 68 (192)
|+|+|.. +..-+-++. .+++.|..|...|+.+|-.
T Consensus 93 ~va~V~~--G~ilfEi~g-~~~~~ak~al~~a~~KLP~ 127 (135)
T CHL00044 93 WVAVVKP--GRILYEMGG-VSETIARAAIKIAAYKMPI 127 (135)
T ss_pred EEEEECC--CcEEEEEeC-CCHHHHHHHHHHHhhcCCC
Confidence 9999994 332334554 6678999999999888743
No 35
>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=20.70 E-value=2e+02 Score=20.95 Aligned_cols=30 Identities=23% Similarity=0.335 Sum_probs=18.0
Q ss_pred CCcEEEEEEeCCCC-cEE---eeccccCHHHHHH
Q 042608 28 SGRWVAEIKESSQK-LRL---WLGTFDKAEEAAM 57 (192)
Q Consensus 28 ~GkW~A~I~~~~~k-kri---~LGtFdt~EEAA~ 57 (192)
.+.|.|+|..-... +.+ ---.|++++||..
T Consensus 15 ~~~W~aEItR~vTsrkTvVSK~~~GF~SEaeAq~ 48 (71)
T PF12286_consen 15 RNGWTAEITRRVTSRKTVVSKRQDGFASEAEAQA 48 (71)
T ss_pred CCceeeeeeeeecCceeEEEecccCcccHHHHHH
Confidence 46699999842222 121 1246999988753
Done!