Query 041684
Match_columns 100
No_of_seqs 109 out of 222
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 09:36:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041684.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041684hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00196 60S ribosomal protein 100.0 4.1E-54 8.9E-59 299.2 8.8 93 7-99 1-93 (98)
2 PF01158 Ribosomal_L36e: Ribos 100.0 3E-54 6.6E-59 299.7 5.5 93 7-99 1-93 (98)
3 KOG3452 60S ribosomal protein 100.0 3.3E-50 7.1E-55 280.6 8.0 92 8-99 4-95 (102)
4 COG5051 RPL36A Ribosomal prote 100.0 9.4E-37 2E-41 210.6 7.3 91 9-99 5-95 (97)
5 KOG2659 LisH motif-containing 55.8 18 0.00039 28.8 3.7 62 38-99 81-149 (228)
6 PRK14132 riboflavin kinase; Pr 41.0 13 0.00029 27.0 0.9 17 43-59 22-38 (126)
7 PF10607 CLTH: CTLH/CRA C-term 40.7 57 0.0012 22.2 4.0 28 54-81 40-67 (145)
8 PF08068 DKCLD: DKCLD (NUC011) 39.1 16 0.00036 23.6 1.0 19 50-68 25-43 (59)
9 PF13058 DUF3920: Protein of u 33.2 35 0.00075 25.1 2.0 28 52-86 97-124 (126)
10 PRK14165 winged helix-turn-hel 29.1 27 0.00058 27.2 0.9 17 43-59 110-126 (217)
11 PF01982 CTP-dep_RFKase: Domai 29.0 36 0.00079 24.5 1.5 17 43-59 16-32 (121)
12 COG1094 Predicted RNA-binding 27.7 1E+02 0.0022 24.1 3.9 52 44-97 67-133 (194)
13 PF12169 DNA_pol3_gamma3: DNA 24.6 1.2E+02 0.0026 20.5 3.4 35 46-80 4-40 (143)
14 COG1339 Transcriptional regula 23.1 44 0.00096 26.5 1.1 15 45-59 110-124 (214)
15 KOG0396 Uncharacterized conser 22.0 83 0.0018 27.1 2.6 26 59-84 196-221 (389)
16 PF04328 DUF466: Protein of un 21.4 70 0.0015 20.5 1.6 21 41-61 9-29 (65)
17 PRK05807 hypothetical protein; 20.3 79 0.0017 22.5 1.9 22 52-73 96-117 (136)
No 1
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=100.00 E-value=4.1e-54 Score=299.21 Aligned_cols=93 Identities=54% Similarity=0.838 Sum_probs=91.1
Q ss_pred CCCcceeeecCCceecccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhhchhhh
Q 041684 7 PNTDLFVGLNKGHVVTKKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKLSTHEG 86 (100)
Q Consensus 7 ~~~g~avGlnkGh~vtk~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRlGth~R 86 (100)
+++||||||||||+||+++++++||+++|.+|+|++||||||+|||||||||+|+||||++|+|||||||+|+|||||+|
T Consensus 1 ~~~g~avGlnKGh~vtk~~~~~r~s~rkg~~tkr~~fVr~vIrEV~GfaPYErr~mELLkv~kdKrAlKfaKkRlGth~R 80 (98)
T PTZ00196 1 PRTGIAVGLNKGHIVTKRARKPSPSKRKGLLSKRKRLVKDVIREVCGFSPYERRMIELLKVGKDKRALKYAKKRLGTHKR 80 (98)
T ss_pred CCCceeeecCCCcccCcCCCCCCcccccCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHhcchHHHHHHHHHHhhhHHH
Confidence 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhHHHHHhhhhh
Q 041684 87 TKTKCEEMSNASA 99 (100)
Q Consensus 87 AKrK~eel~~vl~ 99 (100)
||+|+|||++||+
T Consensus 81 aK~Kreel~~vl~ 93 (98)
T PTZ00196 81 AKAKRDEIQEALR 93 (98)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999986
No 2
>PF01158 Ribosomal_L36e: Ribosomal protein L36e; InterPro: IPR000509 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. The L36E ribosomal family consists of mammalian, Caenorhabditis elegans and Drosophila L36, Candida albicans L39, and yeast YL39 ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1B_Q 4A1D_Q 4A19_Q 4A18_Q 3IZS_k 3IZR_k.
Probab=100.00 E-value=3e-54 Score=299.69 Aligned_cols=93 Identities=59% Similarity=0.849 Sum_probs=80.2
Q ss_pred CCCcceeeecCCceecccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhhchhhh
Q 041684 7 PNTDLFVGLNKGHVVTKKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKLSTHEG 86 (100)
Q Consensus 7 ~~~g~avGlnkGh~vtk~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRlGth~R 86 (100)
|++||||||||||+||+++++++||+++|.+|+|++||||||+|||||||||+|+||||++|+||+||||+|||||||+|
T Consensus 1 ~~~~iavGlnkGh~vtk~~~~~r~s~~kg~~tk~~kfvr~vIrEv~GfaPYEkr~mELlkv~kdKrAlKf~KKRlGth~R 80 (98)
T PF01158_consen 1 PRYGIAVGLNKGHKVTKNVSKPRPSRRKGRLTKRTKFVRDVIREVCGFAPYEKRAMELLKVSKDKRALKFAKKRLGTHIR 80 (98)
T ss_dssp --TTSTTSSS-S-----TTS---STTS-SHHCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHHH
T ss_pred CCCceeeeCCCCcccCCCCCCCCcccccCccchhHHHHHHHHHHhcCCChHHHHHHHHHhcchhHHHHHHHHHHhhhhHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhHHHHHhhhhh
Q 041684 87 TKTKCEEMSNASA 99 (100)
Q Consensus 87 AKrK~eel~~vl~ 99 (100)
||+|+|||+|||+
T Consensus 81 AKrKrEel~~vl~ 93 (98)
T PF01158_consen 81 AKRKREELSNVLA 93 (98)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999986
No 3
>KOG3452 consensus 60S ribosomal protein L36 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-50 Score=280.57 Aligned_cols=92 Identities=59% Similarity=0.821 Sum_probs=90.5
Q ss_pred CCcceeeecCCceecccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhhchhhhh
Q 041684 8 NTDLFVGLNKGHVVTKKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKLSTHEGT 87 (100)
Q Consensus 8 ~~g~avGlnkGh~vtk~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRlGth~RA 87 (100)
.+|++|||||||++|+++++||+|+++|.+|+|++||||||+|||||||||+++||||++|+||||+||+|+|||||+||
T Consensus 4 ~~~~~vglnkgh~~tk~~~~pr~s~~kg~~sk~tkfvr~lirEv~G~aPyErr~meLlkvskdkrA~K~lKkRlGth~RA 83 (102)
T KOG3452|consen 4 CYGLAVGLNKGHKVTKRVSKPRQSRRKGETSKRTKFVRDLIREVAGFAPYERRAMELLKVSKDKRALKLLKKRLGTHKRA 83 (102)
T ss_pred ccceeecccccchhhcccCCCCcCccccchhhhHHHHHHHHHHHhCCChHHHHHHHHHHHcccHHHHHHHHHHhhHHHHH
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhHHHHHhhhhh
Q 041684 88 KTKCEEMSNASA 99 (100)
Q Consensus 88 KrK~eel~~vl~ 99 (100)
|+|+|||+|||+
T Consensus 84 k~KrEELsnvl~ 95 (102)
T KOG3452|consen 84 KRKREELSNVLA 95 (102)
T ss_pred HHHHHHHHHHHH
Confidence 999999999986
No 4
>COG5051 RPL36A Ribosomal protein L36E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.4e-37 Score=210.62 Aligned_cols=91 Identities=44% Similarity=0.740 Sum_probs=89.4
Q ss_pred CcceeeecCCceecccCCCCCCCcccCCCCcchhHHHHHHhhhhccchhHHHHHHHhhcchhhHHHHHHHHhhchhhhhH
Q 041684 9 TDLFVGLNKGHVVTKKELLPRPANRKGKTSKRVHFERNVIREVAGFTPYEKTITELLKVDEDKRALKAAKRKLSTHEGTK 88 (100)
Q Consensus 9 ~g~avGlnkGh~vtk~~~k~r~s~~kg~~tkr~kfvr~vIrEv~GfaPYErr~mELlk~skdKrAlKf~KKRlGth~RAK 88 (100)
.|+++|||+|-+||++.+.+|||+++|.+|+|+.||+++++|++||+|||+++||||++|.||+|.|++|||||||+||+
T Consensus 5 ~g~~~glNkgKkvt~r~p~~rps~kkgq~s~Rt~fvrsivrEiaGlsPyErr~i~Lirns~~krArKlakKRLGs~kRAk 84 (97)
T COG5051 5 PGLVVGLNKGKKVTKRQPPERPSRKKGQLSKRTEFVRSIVREIAGLSPYERRVIELIRNSQDKRARKLAKKRLGSLKRAK 84 (97)
T ss_pred cchhhhhcccceeeeccCCCCcchhhhccccHHHHHHHHHHHHccCCHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHH
Confidence 37999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHhhhhh
Q 041684 89 TKCEEMSNASA 99 (100)
Q Consensus 89 rK~eel~~vl~ 99 (100)
.|.|||.++|+
T Consensus 85 aKvEel~~~i~ 95 (97)
T COG5051 85 AKVEELTSVIQ 95 (97)
T ss_pred HHHHHHHHHHh
Confidence 99999999986
No 5
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=55.83 E-value=18 Score=28.79 Aligned_cols=62 Identities=19% Similarity=0.245 Sum_probs=43.3
Q ss_pred CcchhHHHHHHhhhhccch------hHHHHHHHhhcchhhHHHHHHHHhhchhhh-hHhHHHHHhhhhh
Q 041684 38 SKRVHFERNVIREVAGFTP------YEKTITELLKVDEDKRALKAAKRKLSTHEG-TKTKCEEMSNASA 99 (100)
Q Consensus 38 tkr~kfvr~vIrEv~GfaP------YErr~mELlk~skdKrAlKf~KKRlGth~R-AKrK~eel~~vl~ 99 (100)
..-..++.++-.|+..-.+ -..+.+|||+.++-..|++|++-+|--.-- .-.+.++|..+++
T Consensus 81 e~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~~~~~elE~~l~ 149 (228)
T KOG2659|consen 81 EEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENPKKMEELERTLA 149 (228)
T ss_pred HHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccHHHHHHHHHHHH
Confidence 3334456666666666554 356999999999999999999998843322 2267777776653
No 6
>PRK14132 riboflavin kinase; Provisional
Probab=41.03 E-value=13 Score=26.96 Aligned_cols=17 Identities=41% Similarity=0.663 Sum_probs=14.3
Q ss_pred HHHHHHhhhhccchhHH
Q 041684 43 FERNVIREVAGFTPYEK 59 (100)
Q Consensus 43 fvr~vIrEv~GfaPYEr 59 (100)
..++-++|.+||.||.=
T Consensus 22 ~Y~~qf~~~LGf~PyPG 38 (126)
T PRK14132 22 PYKEKFKEKLGFTPYEG 38 (126)
T ss_pred HHHHHHHHHhCCcCCCC
Confidence 35788999999999964
No 7
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=40.69 E-value=57 Score=22.19 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=23.8
Q ss_pred cchhHHHHHHHhhcchhhHHHHHHHHhh
Q 041684 54 FTPYEKTITELLKVDEDKRALKAAKRKL 81 (100)
Q Consensus 54 faPYErr~mELlk~skdKrAlKf~KKRl 81 (100)
|.=+-...+|||+.++--.|+.|+++.+
T Consensus 40 f~L~~q~fiell~~~~~~~Ai~y~r~~l 67 (145)
T PF10607_consen 40 FELRCQQFIELLREGDIMEAIEYARKHL 67 (145)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 4445667899999999999999999988
No 8
>PF08068 DKCLD: DKCLD (NUC011) domain; InterPro: IPR012960 This is an N-terminal domain of dyskerin-like proteins, which is often associated with the TruB N-terminal(IPR002501 from INTERPRO) and PUA(IPR002478 from INTERPRO) domains [].; PDB: 3ZV0_D 3UAI_A 3U28_A 2AUS_C 2RFK_A 3LWV_A 3HJY_A 3HAX_A 3LWO_A 3HAY_A ....
Probab=39.12 E-value=16 Score=23.57 Aligned_cols=19 Identities=26% Similarity=0.473 Sum_probs=13.5
Q ss_pred hhhccchhHHHHHHHhhcc
Q 041684 50 EVAGFTPYEKTITELLKVD 68 (100)
Q Consensus 50 Ev~GfaPYErr~mELlk~s 68 (100)
.-+|..|++|-+-|+|+.|
T Consensus 25 ~~~G~~P~~R~i~~~i~~G 43 (59)
T PF08068_consen 25 PPYGCSPLKRPIEEYIKYG 43 (59)
T ss_dssp TTSS--GGGS-HHHHHHTE
T ss_pred cccCcCcccCCHHHHHhCC
Confidence 4589999999999999843
No 9
>PF13058 DUF3920: Protein of unknown function (DUF3920)
Probab=33.15 E-value=35 Score=25.07 Aligned_cols=28 Identities=39% Similarity=0.459 Sum_probs=22.4
Q ss_pred hccchhHHHHHHHhhcchhhHHHHHHHHhhchhhh
Q 041684 52 AGFTPYEKTITELLKVDEDKRALKAAKRKLSTHEG 86 (100)
Q Consensus 52 ~GfaPYErr~mELlk~skdKrAlKf~KKRlGth~R 86 (100)
.|-.|||.|.||- | |..|+-..|-..+|
T Consensus 97 vg~e~yEeR~ie~-----D--Ar~FAe~kl~ey~~ 124 (126)
T PF13058_consen 97 VGKEPYEERWIEK-----D--ARAFAERKLDEYKR 124 (126)
T ss_pred eccchHHHHHHHH-----H--HHHHHHHHHHHHhc
Confidence 7999999999984 5 88999887765543
No 10
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=29.09 E-value=27 Score=27.18 Aligned_cols=17 Identities=29% Similarity=0.382 Sum_probs=14.3
Q ss_pred HHHHHHhhhhccchhHH
Q 041684 43 FERNVIREVAGFTPYEK 59 (100)
Q Consensus 43 fvr~vIrEv~GfaPYEr 59 (100)
..++-++|.+||.||.=
T Consensus 110 ~Y~~~f~~~lGf~PypG 126 (217)
T PRK14165 110 GYKIQFEEKLGFIPYPG 126 (217)
T ss_pred HHHHHHHHHhCCcCCCC
Confidence 35788999999999974
No 11
>PF01982 CTP-dep_RFKase: Domain of unknown function DUF120; InterPro: IPR023602 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents a CTP-dependent riboflavin kinase domain, found primarily in archaea, that catalyses the phosphorylation of riboflavin to form flavin mononucleotide in riboflavin biosynthesis. Its structure resembles a RIFT barrel, structurally similar to but topologically distinct from bacterial and eukaryotic examples []. The N-terminal is a winged helix-turn-helix DNA-binding domain, and the C-terminal half is most similar in sequence to a group of cradle-loop barrels.; GO: 0016773 phosphotransferase activity, alcohol group as acceptor; PDB: 2VBV_A 2VBU_A 2VBS_A 2VBT_A 2P3M_A 2OYN_A 3CTA_A.
Probab=28.97 E-value=36 Score=24.52 Aligned_cols=17 Identities=41% Similarity=0.575 Sum_probs=11.0
Q ss_pred HHHHHHhhhhccchhHH
Q 041684 43 FERNVIREVAGFTPYEK 59 (100)
Q Consensus 43 fvr~vIrEv~GfaPYEr 59 (100)
..++-++|..||.||.=
T Consensus 16 ~Y~~qf~~~LGf~PyPG 32 (121)
T PF01982_consen 16 GYRRQFREKLGFEPYPG 32 (121)
T ss_dssp HHHHHHHHHCSS---SS
T ss_pred HHHHHHHHHhCCCCCCC
Confidence 35778899999999963
No 12
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=27.69 E-value=1e+02 Score=24.06 Aligned_cols=52 Identities=25% Similarity=0.468 Sum_probs=40.7
Q ss_pred HHHHHhhh-hccchhHHHHHHHhh-------------cchhhHHHHHHHHhh-chhhhhHhHHHHHhhh
Q 041684 44 ERNVIREV-AGFTPYEKTITELLK-------------VDEDKRALKAAKRKL-STHEGTKTKCEEMSNA 97 (100)
Q Consensus 44 vr~vIrEv-~GfaPYErr~mELlk-------------~skdKrAlKf~KKRl-Gth~RAKrK~eel~~v 97 (100)
++|+|+-+ -||.|=+ +|-||. ++....++.=+|-|+ |.--++++=.|+|+++
T Consensus 67 a~d~VkAIgrGF~pe~--A~~LL~d~~~levIdi~~~~~~~~~~l~R~kgRIIG~~GkTr~~IE~lt~~ 133 (194)
T COG1094 67 ARDVVKAIGRGFPPEK--ALKLLEDDYYLEVIDLKDVVTLSGDHLRRIKGRIIGREGKTRRAIEELTGV 133 (194)
T ss_pred HHHHHHHHhcCCCHHH--HHHHhcCCcEEEEEEHHHhccCchhhhhHhhceeeCCCchHHHHHHHHhCC
Confidence 57777777 7998854 566655 355677788888887 9999999999999865
No 13
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=24.56 E-value=1.2e+02 Score=20.53 Aligned_cols=35 Identities=17% Similarity=0.288 Sum_probs=26.1
Q ss_pred HHHhhhhccchhHH--HHHHHhhcchhhHHHHHHHHh
Q 041684 46 NVIREVAGFTPYEK--TITELLKVDEDKRALKAAKRK 80 (100)
Q Consensus 46 ~vIrEv~GfaPYEr--r~mELlk~skdKrAlKf~KKR 80 (100)
+-|+++.|..|.|. .+++.|-.++-..|+.++.+=
T Consensus 4 e~V~~~lG~v~~~~i~~l~~ai~~~d~~~~l~~~~~l 40 (143)
T PF12169_consen 4 EDVREILGLVDEEQIFELLDAILEGDAAEALELLNEL 40 (143)
T ss_dssp HHHHHHHTHTSTHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 56899999999997 556666667777888877663
No 14
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=23.07 E-value=44 Score=26.54 Aligned_cols=15 Identities=47% Similarity=0.829 Sum_probs=13.3
Q ss_pred HHHHhhhhccchhHH
Q 041684 45 RNVIREVAGFTPYEK 59 (100)
Q Consensus 45 r~vIrEv~GfaPYEr 59 (100)
+..++|..||.||.=
T Consensus 110 ~~qf~ekLGf~PyPG 124 (214)
T COG1339 110 RRQFREKLGFDPYPG 124 (214)
T ss_pred HHHHHHHhCCCCCCC
Confidence 778999999999964
No 15
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.03 E-value=83 Score=27.08 Aligned_cols=26 Identities=31% Similarity=0.496 Sum_probs=22.3
Q ss_pred HHHHHHhhcchhhHHHHHHHHhhchh
Q 041684 59 KTITELLKVDEDKRALKAAKRKLSTH 84 (100)
Q Consensus 59 rr~mELlk~skdKrAlKf~KKRlGth 84 (100)
...||||++++-..|.-|++|-+++-
T Consensus 196 QefIELi~~~~~~~Ai~~akk~f~~~ 221 (389)
T KOG0396|consen 196 QEFIELIKVDNYDKAIAFAKKHFAPW 221 (389)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHhhh
Confidence 35789999999999999999977654
No 16
>PF04328 DUF466: Protein of unknown function (DUF466); InterPro: IPR007423 This is a small bacterial protein of unknown function.
Probab=21.43 E-value=70 Score=20.50 Aligned_cols=21 Identities=24% Similarity=0.213 Sum_probs=17.6
Q ss_pred hhHHHHHHhhhhccchhHHHH
Q 041684 41 VHFERNVIREVAGFTPYEKTI 61 (100)
Q Consensus 41 ~kfvr~vIrEv~GfaPYErr~ 61 (100)
.+-++..+++++|..-||+=+
T Consensus 9 ~~~~~~~~r~l~G~~~Ye~Yv 29 (65)
T PF04328_consen 9 WRRVRWYARLLVGEPDYERYV 29 (65)
T ss_pred HHHHHHHHHHhcCcHHHHHHH
Confidence 456789999999999999854
No 17
>PRK05807 hypothetical protein; Provisional
Probab=20.28 E-value=79 Score=22.48 Aligned_cols=22 Identities=18% Similarity=0.333 Sum_probs=19.0
Q ss_pred hccchhHHHHHHHhhcchhhHH
Q 041684 52 AGFTPYEKTITELLKVDEDKRA 73 (100)
Q Consensus 52 ~GfaPYErr~mELlk~skdKrA 73 (100)
.||+|+|..+-+.|+.|.++-+
T Consensus 96 ~~~~~~~~~l~~~~~~s~~~~~ 117 (136)
T PRK05807 96 NNNGNFEDRLSKFLKDSEERFQ 117 (136)
T ss_pred CCCcCHHHHHHHHHHHHHHHHH
Confidence 5999999999999999877643
Done!