Query 047241
Match_columns 142
No_of_seqs 221 out of 1154
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 09:07:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047241.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047241hhsearch_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 5.4E-22 1.2E-26 130.3 7.1 61 9-70 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.9 3E-21 6.5E-26 128.2 8.1 62 10-72 1-62 (64)
3 PHA00280 putative NHN endonucl 99.5 1.4E-14 3.1E-19 108.1 7.4 59 3-65 61-120 (121)
4 PF00847 AP2: AP2 domain; Int 99.3 6.1E-12 1.3E-16 80.5 6.4 53 9-61 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 86.1 3.2 6.9E-05 25.4 5.2 39 21-59 1-42 (46)
6 PHA02601 int integrase; Provis 77.4 4.2 9.2E-05 33.2 4.5 45 13-58 2-46 (333)
7 PF08471 Ribonuc_red_2_N: Clas 60.8 9.8 0.00021 27.5 2.8 20 39-58 71-90 (93)
8 PF05036 SPOR: Sporulation rel 60.6 6.4 0.00014 24.9 1.7 23 33-55 43-65 (76)
9 PF08846 DUF1816: Domain of un 58.4 24 0.00051 24.0 4.2 37 21-58 9-45 (68)
10 cd00801 INT_P4 Bacteriophage P 58.1 24 0.00052 28.4 5.0 39 19-58 9-49 (357)
11 PF14112 DUF4284: Domain of un 44.1 14 0.0003 27.2 1.4 17 34-50 2-18 (122)
12 PRK09692 integrase; Provisiona 43.6 80 0.0017 26.9 6.2 39 15-53 34-77 (413)
13 PF09954 DUF2188: Uncharacteri 42.2 77 0.0017 20.1 4.6 39 14-57 3-41 (62)
14 PF13356 DUF4102: Domain of un 34.0 1.5E+02 0.0032 20.0 5.5 38 20-58 35-74 (89)
15 COG0197 RplP Ribosomal protein 33.1 78 0.0017 24.5 4.1 36 22-61 96-131 (146)
16 COG2185 Sbm Methylmalonyl-CoA 27.3 48 0.001 25.6 2.0 18 34-51 42-59 (143)
17 PF13773 DUF4170: Domain of un 25.8 73 0.0016 21.8 2.5 25 34-58 25-49 (69)
18 PF06200 tify: tify domain; I 22.5 1E+02 0.0023 18.3 2.4 21 114-134 13-33 (36)
19 TIGR01164 rplP_bact ribosomal 21.2 1.9E+02 0.0041 21.5 4.2 32 22-58 92-124 (126)
20 PRK09203 rplP 50S ribosomal pr 20.5 1.8E+02 0.0038 22.0 3.9 34 22-60 93-127 (138)
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=5.4e-22 Score=130.26 Aligned_cols=61 Identities=70% Similarity=1.250 Sum_probs=56.9
Q ss_pred cceeEeEECCCCcEEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCC
Q 047241 9 VKYRGVRRRPWGKFAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYSMRGHLAILNFPHE 70 (142)
Q Consensus 9 S~yrGV~~r~~Gkw~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~~~G~~a~~NFp~~ 70 (142)
|+|+||+++++|||+|+|+++. .|+++|||+|+|+||||.|||.+++.++|.++.+|||++
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~-~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPS-GGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCC-CCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 7899999888999999999854 479999999999999999999999999999999999964
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.85 E-value=3e-21 Score=128.24 Aligned_cols=62 Identities=71% Similarity=1.231 Sum_probs=57.6
Q ss_pred ceeEeEECCCCcEEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHhhcCCCCCCCCCCCCc
Q 047241 10 KYRGVRRRPWGKFAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYSMRGHLAILNFPHEYP 72 (142)
Q Consensus 10 ~yrGV~~r~~Gkw~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~~~G~~a~~NFp~~~~ 72 (142)
+|+||+++++|+|+|+|+++. +|+.+|||+|+|+||||.|||.++++++|.++.+|||...+
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~-~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y 62 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPS-KGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLY 62 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecC-CCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccC
Confidence 599999989999999999854 57999999999999999999999999999999999998755
No 3
>PHA00280 putative NHN endonuclease
Probab=99.55 E-value=1.4e-14 Score=108.14 Aligned_cols=59 Identities=12% Similarity=0.210 Sum_probs=51.7
Q ss_pred CCCCCCcceeEeEE-CCCCcEEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHhhcCCCCCC
Q 047241 3 EEPRGEVKYRGVRR-RPWGKFAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYSMRGHLAIL 65 (142)
Q Consensus 3 ~~~~~~S~yrGV~~-r~~Gkw~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~~~G~~a~~ 65 (142)
+.+.|+|+|+||++ ...|||+|+|.+ +||+++||.|+++|+|+.||+ ++.++||+||..
T Consensus 61 ~~~~N~SG~kGV~~~k~~~kw~A~I~~---~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~~ 120 (121)
T PHA00280 61 TPKSNTSGLKGLSWSKEREMWRGTVTA---EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFARF 120 (121)
T ss_pred CCCCCCCCCCeeEEecCCCeEEEEEEE---CCEEEEcCCCCCHHHHHHHHH-HHHHHhhccccC
Confidence 35688999999985 457999999976 699999999999999999997 778899999853
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=99.31 E-value=6.1e-12 Score=80.51 Aligned_cols=53 Identities=34% Similarity=0.518 Sum_probs=45.6
Q ss_pred cceeEeEE-CCCCcEEEEEecCCCCC--eEEeecCCCCHHHHHHHHHHHHHhhcCC
Q 047241 9 VKYRGVRR-RPWGKFAAEIRDSNRHG--QRVWLGTFNTAEEAARAYDRAAYSMRGH 61 (142)
Q Consensus 9 S~yrGV~~-r~~Gkw~A~I~~~~~~g--k~i~LGtF~t~EEAA~AYD~aa~~~~G~ 61 (142)
|+|+||++ +..++|+|+|++...+| ++++||.|++++||+.|++.++..++|+
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 78999985 45799999999854343 9999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=86.09 E-value=3.2 Score=25.35 Aligned_cols=39 Identities=15% Similarity=0.206 Sum_probs=29.2
Q ss_pred cEEEEEe--cC-CCCCeEEeecCCCCHHHHHHHHHHHHHhhc
Q 047241 21 KFAAEIR--DS-NRHGQRVWLGTFNTAEEAARAYDRAAYSMR 59 (142)
Q Consensus 21 kw~A~I~--~~-~~~gk~i~LGtF~t~EEAA~AYD~aa~~~~ 59 (142)
+|...|. ++ +.+.++++-+-|.|..||..+...+...+.
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 32 333477888999999999999988776653
No 6
>PHA02601 int integrase; Provisional
Probab=77.40 E-value=4.2 Score=33.21 Aligned_cols=45 Identities=29% Similarity=0.347 Sum_probs=30.9
Q ss_pred EeEECCCCcEEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHhh
Q 047241 13 GVRRRPWGKFAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYSM 58 (142)
Q Consensus 13 GV~~r~~Gkw~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~~ 58 (142)
+|++.+.|+|++++......|+++.. +|.|..||....+.....+
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~~-~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIRK-RFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhhh-hhcCHHHHHHHHHHHHHhc
Confidence 46667789999999753334676653 6999998876655544433
No 7
>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=60.80 E-value=9.8 Score=27.47 Aligned_cols=20 Identities=40% Similarity=0.687 Sum_probs=18.1
Q ss_pred cCCCCHHHHHHHHHHHHHhh
Q 047241 39 GTFNTAEEAARAYDRAAYSM 58 (142)
Q Consensus 39 GtF~t~EEAA~AYD~aa~~~ 58 (142)
|+|+|+|+|..-||..+..+
T Consensus 71 GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 71 GYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCcCCHHHHHHHHHHHHHHH
Confidence 99999999999999987665
No 8
>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=60.55 E-value=6.4 Score=24.93 Aligned_cols=23 Identities=35% Similarity=0.440 Sum_probs=19.2
Q ss_pred CeEEeecCCCCHHHHHHHHHHHH
Q 047241 33 GQRVWLGTFNTAEEAARAYDRAA 55 (142)
Q Consensus 33 gk~i~LGtF~t~EEAA~AYD~aa 55 (142)
--+|.+|.|+|.++|..+.....
T Consensus 43 ~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 43 WYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp CEEEEECCECTCCHHHHHHHHHH
T ss_pred eEEEEECCCCCHHHHHHHHHHHh
Confidence 35788999999999988877666
No 9
>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=58.42 E-value=24 Score=24.01 Aligned_cols=37 Identities=24% Similarity=0.339 Sum_probs=25.7
Q ss_pred cEEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHhh
Q 047241 21 KFAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYSM 58 (142)
Q Consensus 21 kw~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~~ 58 (142)
.|=++|.-.. -.-..|.|-|+|.+||..+-.-....+
T Consensus 9 aWWveI~T~~-P~ctYyFGPF~s~~eA~~~~~gyieDL 45 (68)
T PF08846_consen 9 AWWVEIETQN-PNCTYYFGPFDSREEAEAALPGYIEDL 45 (68)
T ss_pred cEEEEEEcCC-CCEEEEeCCcCCHHHHHHHhccHHHHH
Confidence 3667775422 237899999999999998855444443
No 10
>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=58.13 E-value=24 Score=28.36 Aligned_cols=39 Identities=21% Similarity=0.238 Sum_probs=27.4
Q ss_pred CCcEEEEEecCCCCCeEEeecCCC--CHHHHHHHHHHHHHhh
Q 047241 19 WGKFAAEIRDSNRHGQRVWLGTFN--TAEEAARAYDRAAYSM 58 (142)
Q Consensus 19 ~Gkw~A~I~~~~~~gk~i~LGtF~--t~EEAA~AYD~aa~~~ 58 (142)
.+.|..+++... +.+++.||+|+ +.++|.....+....+
T Consensus 9 ~~~~~~~~~~~g-~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAG-KRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCC-ceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 456999987743 33668899995 6777777766655555
No 11
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=44.14 E-value=14 Score=27.25 Aligned_cols=17 Identities=24% Similarity=0.747 Sum_probs=13.2
Q ss_pred eEEeecCCCCHHHHHHH
Q 047241 34 QRVWLGTFNTAEEAARA 50 (142)
Q Consensus 34 k~i~LGtF~t~EEAA~A 50 (142)
..+|||+|.|.++-..=
T Consensus 2 VsiWiG~f~s~~el~~Y 18 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEY 18 (122)
T ss_pred eEEEEecCCCHHHHHHH
Confidence 46999999998776543
No 12
>PRK09692 integrase; Provisional
Probab=43.60 E-value=80 Score=26.87 Aligned_cols=39 Identities=10% Similarity=0.116 Sum_probs=23.5
Q ss_pred EECCCC--cEEEEEecC-CCCCeEEeecCCC--CHHHHHHHHHH
Q 047241 15 RRRPWG--KFAAEIRDS-NRHGQRVWLGTFN--TAEEAARAYDR 53 (142)
Q Consensus 15 ~~r~~G--kw~A~I~~~-~~~gk~i~LGtF~--t~EEAA~AYD~ 53 (142)
+-++.| .|..+.+.+ ..+.+++-||.|+ |..+|..+..+
T Consensus 34 ~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~ 77 (413)
T PRK09692 34 LIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAE 77 (413)
T ss_pred EEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHH
Confidence 444544 499888653 2222347899999 66666554433
No 13
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=42.18 E-value=77 Score=20.12 Aligned_cols=39 Identities=31% Similarity=0.263 Sum_probs=26.2
Q ss_pred eEECCCCcEEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHh
Q 047241 14 VRRRPWGKFAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYS 57 (142)
Q Consensus 14 V~~r~~Gkw~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~ 57 (142)
|..+..+.|....- |...-..+|+|.+||..+=...+..
T Consensus 3 V~p~~~~~W~v~~e-----g~~ra~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKE-----GAKRASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeC-----CCcccccccCcHHHHHHHHHHHHHh
Confidence 33345578998873 3333478999999998765555544
No 14
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=33.97 E-value=1.5e+02 Score=19.96 Aligned_cols=38 Identities=18% Similarity=0.185 Sum_probs=24.8
Q ss_pred CcEEEEEecCCCCCeEEeecCCCC--HHHHHHHHHHHHHhh
Q 047241 20 GKFAAEIRDSNRHGQRVWLGTFNT--AEEAARAYDRAAYSM 58 (142)
Q Consensus 20 Gkw~A~I~~~~~~gk~i~LGtF~t--~EEAA~AYD~aa~~~ 58 (142)
..|..+.+... +.+++-||.|+. ..+|..........+
T Consensus 35 kt~~~r~~~~g-k~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 35 KTFYFRYRING-KRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EEEEEEEEETT-EEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred eEEEEEEEecc-eEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 45888886642 346799999975 666666555544444
No 15
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=33.11 E-value=78 Score=24.54 Aligned_cols=36 Identities=25% Similarity=0.216 Sum_probs=30.0
Q ss_pred EEEEEecCCCCCeEEeecCCCCHHHHHHHHHHHHHhhcCC
Q 047241 22 FAAEIRDSNRHGQRVWLGTFNTAEEAARAYDRAAYSMRGH 61 (142)
Q Consensus 22 w~A~I~~~~~~gk~i~LGtF~t~EEAA~AYD~aa~~~~G~ 61 (142)
|.|.|.. |+.++-=..++++.|..|..+|+.+|-+.
T Consensus 96 waArVkp----G~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 96 WAARVKP----GRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEecC----CcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 9999943 78888778889999999999999887544
No 16
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=27.35 E-value=48 Score=25.56 Aligned_cols=18 Identities=50% Similarity=0.623 Sum_probs=15.3
Q ss_pred eEEeecCCCCHHHHHHHH
Q 047241 34 QRVWLGTFNTAEEAARAY 51 (142)
Q Consensus 34 k~i~LGtF~t~EEAA~AY 51 (142)
.=+++|.|.|++||+++-
T Consensus 42 eVi~~g~~~tp~e~v~aA 59 (143)
T COG2185 42 EVINLGLFQTPEEAVRAA 59 (143)
T ss_pred eEEecCCcCCHHHHHHHH
Confidence 458999999999999763
No 17
>PF13773 DUF4170: Domain of unknown function (DUF4170)
Probab=25.79 E-value=73 Score=21.80 Aligned_cols=25 Identities=20% Similarity=0.129 Sum_probs=20.7
Q ss_pred eEEeecCCCCHHHHHHHHHHHHHhh
Q 047241 34 QRVWLGTFNTAEEAARAYDRAAYSM 58 (142)
Q Consensus 34 k~i~LGtF~t~EEAA~AYD~aa~~~ 58 (142)
+---+|-|++-++|..|+...|...
T Consensus 25 ~~diVG~fp~y~~A~~aWrakAq~T 49 (69)
T PF13773_consen 25 ALDIVGIFPDYASAYAAWRAKAQRT 49 (69)
T ss_pred cceEEecCCChHHHHHHHHHHHhCc
Confidence 3456799999999999999888654
No 18
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=22.50 E-value=1e+02 Score=18.29 Aligned_cols=21 Identities=19% Similarity=0.248 Sum_probs=17.4
Q ss_pred CCceEEEeeCChHHHHHHHhh
Q 047241 114 GKQVIELEYLDDNLLDELLEQ 134 (142)
Q Consensus 114 ~~~v~~~e~l~~~~le~ll~~ 134 (142)
.++|.+|+++..+=-+++|..
T Consensus 13 ~G~V~Vfd~v~~~Ka~~im~l 33 (36)
T PF06200_consen 13 GGQVCVFDDVPPDKAQEIMLL 33 (36)
T ss_pred CCEEEEeCCCCHHHHHHHHHH
Confidence 467999999999988888753
No 19
>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=21.16 E-value=1.9e+02 Score=21.48 Aligned_cols=32 Identities=22% Similarity=0.268 Sum_probs=25.0
Q ss_pred EEEEEecCCCCCeE-EeecCCCCHHHHHHHHHHHHHhh
Q 047241 22 FAAEIRDSNRHGQR-VWLGTFNTAEEAARAYDRAAYSM 58 (142)
Q Consensus 22 w~A~I~~~~~~gk~-i~LGtF~t~EEAA~AYD~aa~~~ 58 (142)
|+|.|.. |+- +.++. .+++.|..|...|+.++
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 9999954 454 44555 89999999999998775
No 20
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=20.46 E-value=1.8e+02 Score=21.99 Aligned_cols=34 Identities=21% Similarity=0.152 Sum_probs=26.3
Q ss_pred EEEEEecCCCCCeE-EeecCCCCHHHHHHHHHHHHHhhcC
Q 047241 22 FAAEIRDSNRHGQR-VWLGTFNTAEEAARAYDRAAYSMRG 60 (142)
Q Consensus 22 w~A~I~~~~~~gk~-i~LGtF~t~EEAA~AYD~aa~~~~G 60 (142)
|+|.|.. |+- +-++. .+++.|..|...|+.++-+
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 9999954 444 44555 8999999999999987744
Done!