Query 037611
Match_columns 82
No_of_seqs 113 out of 199
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 02:41:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037611.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037611hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01158 Ribosomal_L36e: Ribos 100.0 6.1E-43 1.3E-47 235.9 5.8 74 2-75 25-98 (98)
2 PTZ00196 60S ribosomal protein 100.0 1.3E-42 2.7E-47 234.7 7.1 73 2-74 25-97 (98)
3 KOG3452 60S ribosomal protein 100.0 9.1E-41 2E-45 226.9 7.2 77 1-77 26-102 (102)
4 COG5051 RPL36A Ribosomal prote 99.9 2.4E-28 5.2E-33 164.5 6.0 71 1-71 26-96 (97)
5 PRK14132 riboflavin kinase; Pr 46.8 11 0.00024 26.5 1.2 17 14-30 22-38 (126)
6 KOG2659 LisH motif-containing 39.8 32 0.0007 26.5 2.8 64 8-71 80-150 (228)
7 PF08068 DKCLD: DKCLD (NUC011) 38.7 12 0.00025 23.6 0.2 19 21-39 25-43 (59)
8 PRK14165 winged helix-turn-hel 35.4 21 0.00045 26.9 1.2 16 15-30 111-126 (217)
9 PF10607 CLTH: CTLH/CRA C-term 35.1 74 0.0016 20.8 3.7 43 25-69 40-82 (145)
10 PF13058 DUF3920: Protein of u 33.9 35 0.00076 24.3 2.1 28 23-57 97-124 (126)
11 PF01982 CTP-dep_RFKase: Domai 33.4 26 0.00056 24.5 1.3 16 15-30 17-32 (121)
12 PF12169 DNA_pol3_gamma3: DNA 32.0 1.5E+02 0.0032 19.3 5.0 53 17-69 4-58 (143)
13 PF04328 DUF466: Protein of un 26.8 50 0.0011 20.5 1.7 22 11-32 8-29 (65)
14 COG1339 Transcriptional regula 26.5 38 0.00081 26.1 1.3 15 16-30 110-124 (214)
15 PF02939 UcrQ: UcrQ family; I 26.1 19 0.00042 23.3 -0.3 13 23-35 16-28 (80)
16 KOG1054 Glutamate-gated AMPA-t 25.2 21 0.00047 32.0 -0.3 15 21-35 566-580 (897)
17 PF04836 IFRD_C: Interferon-re 22.5 47 0.001 20.3 0.9 12 17-28 2-13 (54)
18 PRK11020 hypothetical protein; 21.3 29 0.00062 24.6 -0.2 16 13-28 100-116 (118)
19 PF01978 TrmB: Sugar-specific 20.3 40 0.00087 19.7 0.3 17 21-37 2-18 (68)
No 1
>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=6.1e-43 Score=235.88 Aligned_cols=74 Identities=59% Similarity=0.798 Sum_probs=70.9
Q ss_pred ccccCcCcchhHHHHHHHHHhhccchhhhhhhhhccccchhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhc
Q 037611 2 ATAQGKTSKRVHFERNVIREVSGFAPYEKRIDVLPKVGKDKRALKLAKRKLCTYERAKMKHGEMSNVLCRMRAA 75 (82)
Q Consensus 2 ~~~kg~~tkr~kfvr~~IrEv~GfaPYEkr~~ELlk~~kdKrALKf~KKrlGth~RAKrK~eel~~vl~~~Rk~ 75 (82)
|+++|.+|+|++||||||+|||||||||+++||||++|+||+||||+|+|||||+|||+|+|||+|||++||++
T Consensus 25 s~~kg~~tk~~kfvr~vIrEv~GfaPYEkr~mELlkv~kdKrAlKf~KKRlGth~RAKrKrEel~~vl~~~rk~ 98 (98)
T PF01158_consen 25 SRRKGRLTKRTKFVRDVIREVCGFAPYEKRAMELLKVSKDKRALKFAKKRLGTHIRAKRKREELSNVLAAMRKA 98 (98)
T ss_dssp TTS-SHHCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHH-
T ss_pred ccccCccchhHHHHHHHHHHhcCCChHHHHHHHHHhcchhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcC
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999985
No 2
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=100.00 E-value=1.3e-42 Score=234.69 Aligned_cols=73 Identities=51% Similarity=0.715 Sum_probs=71.9
Q ss_pred ccccCcCcchhHHHHHHHHHhhccchhhhhhhhhccccchhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHh
Q 037611 2 ATAQGKTSKRVHFERNVIREVSGFAPYEKRIDVLPKVGKDKRALKLAKRKLCTYERAKMKHGEMSNVLCRMRA 74 (82)
Q Consensus 2 ~~~kg~~tkr~kfvr~~IrEv~GfaPYEkr~~ELlk~~kdKrALKf~KKrlGth~RAKrK~eel~~vl~~~Rk 74 (82)
|+++|.+|+|++||||||+|||||||||+|+||||++|+||+||||+|+|||||+|||+|+|||++||++||+
T Consensus 25 s~rkg~~tkr~~fVr~vIrEV~GfaPYErr~mELLkv~kdKrAlKfaKkRlGth~RaK~Kreel~~vl~~~rk 97 (98)
T PTZ00196 25 SKRKGLLSKRKRLVKDVIREVCGFSPYERRMIELLKVGKDKRALKYAKKRLGTHKRAKAKRDEIQEALRAQRK 97 (98)
T ss_pred ccccCCCCchhHHHHHHHHHHhcccHHHHHHHHHHHhcchHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhc
Confidence 7899999999999999999999999999999999999999999999999999999999999999999999997
No 3
>KOG3452 consensus 60S ribosomal protein L36 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.1e-41 Score=226.85 Aligned_cols=77 Identities=57% Similarity=0.773 Sum_probs=74.5
Q ss_pred CccccCcCcchhHHHHHHHHHhhccchhhhhhhhhccccchhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhccc
Q 037611 1 IATAQGKTSKRVHFERNVIREVSGFAPYEKRIDVLPKVGKDKRALKLAKRKLCTYERAKMKHGEMSNVLCRMRAAGG 77 (82)
Q Consensus 1 ~~~~kg~~tkr~kfvr~~IrEv~GfaPYEkr~~ELlk~~kdKrALKf~KKrlGth~RAKrK~eel~~vl~~~Rk~~a 77 (82)
.|+++|.+|+||+||+|||+|||||||||+++||||++|+||+|+||+|+|||||+|||+|+|||+|||++||++++
T Consensus 26 ~s~~kg~~sk~tkfvr~lirEv~G~aPyErr~meLlkvskdkrA~K~lKkRlGth~RAk~KrEELsnvl~~~rk~~~ 102 (102)
T KOG3452|consen 26 QSRRKGETSKRTKFVRDLIREVAGFAPYERRAMELLKVSKDKRALKLLKKRLGTHKRAKRKREELSNVLAAMRKAHA 102 (102)
T ss_pred cCccccchhhhHHHHHHHHHHHhCCChHHHHHHHHHHHcccHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhccC
Confidence 37889999999999999999999999999999999999999999999999999999999999999999999999764
No 4
>COG5051 RPL36A Ribosomal protein L36E [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=2.4e-28 Score=164.51 Aligned_cols=71 Identities=41% Similarity=0.665 Sum_probs=68.7
Q ss_pred CccccCcCcchhHHHHHHHHHhhccchhhhhhhhhccccchhHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Q 037611 1 IATAQGKTSKRVHFERNVIREVSGFAPYEKRIDVLPKVGKDKRALKLAKRKLCTYERAKMKHGEMSNVLCR 71 (82)
Q Consensus 1 ~~~~kg~~tkr~kfvr~~IrEv~GfaPYEkr~~ELlk~~kdKrALKf~KKrlGth~RAKrK~eel~~vl~~ 71 (82)
+|+++|.+|+|+.||+++++|++||+|||+++||||++|.|++|.|++|||||||+||+.|.|||.++|++
T Consensus 26 ps~kkgq~s~Rt~fvrsivrEiaGlsPyErr~i~Lirns~~krArKlakKRLGs~kRAkaKvEel~~~i~~ 96 (97)
T COG5051 26 PSRKKGQLSKRTEFVRSIVREIAGLSPYERRVIELIRNSQDKRARKLAKKRLGSLKRAKAKVEELTSVIQS 96 (97)
T ss_pred cchhhhccccHHHHHHHHHHHHccCCHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHHHHHHHhc
Confidence 47789999999999999999999999999999999999999999999999999999999999999999974
No 5
>PRK14132 riboflavin kinase; Provisional
Probab=46.81 E-value=11 Score=26.53 Aligned_cols=17 Identities=35% Similarity=0.608 Sum_probs=14.2
Q ss_pred HHHHHHHHhhccchhhh
Q 037611 14 FERNVIREVSGFAPYEK 30 (82)
Q Consensus 14 fvr~~IrEv~GfaPYEk 30 (82)
..++-++|.+||.||.=
T Consensus 22 ~Y~~qf~~~LGf~PyPG 38 (126)
T PRK14132 22 PYKEKFKEKLGFTPYEG 38 (126)
T ss_pred HHHHHHHHHhCCcCCCC
Confidence 35778899999999974
No 6
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=39.81 E-value=32 Score=26.47 Aligned_cols=64 Identities=19% Similarity=0.224 Sum_probs=44.4
Q ss_pred CcchhHHHHHHHHHhhccch------hhhhhhhhccccchhHHHHHHHHhhhhhH-HHHHHHHHHHHHHHH
Q 037611 8 TSKRVHFERNVIREVSGFAP------YEKRIDVLPKVGKDKRALKLAKRKLCTYE-RAKMKHGEMSNVLCR 71 (82)
Q Consensus 8 ~tkr~kfvr~~IrEv~GfaP------YEkr~~ELlk~~kdKrALKf~KKrlGth~-RAKrK~eel~~vl~~ 71 (82)
...-..++.++-.|+..-.+ -..+.+||++.++-..|++|++-+|-..- ..-.+.+++..++..
T Consensus 80 Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~~~~~elE~~l~l 150 (228)
T KOG2659|consen 80 IEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENPKKMEELERTLAL 150 (228)
T ss_pred HHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccHHHHHHHHHHHHH
Confidence 33334456666666666554 35689999999999999999999884322 222677888777653
No 7
>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=38.67 E-value=12 Score=23.56 Aligned_cols=19 Identities=26% Similarity=0.426 Sum_probs=13.3
Q ss_pred Hhhccchhhhhhhhhcccc
Q 037611 21 EVSGFAPYEKRIDVLPKVG 39 (82)
Q Consensus 21 Ev~GfaPYEkr~~ELlk~~ 39 (82)
.-+|..|++|-+-|+|+.|
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 3589999999999999854
No 8
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=35.43 E-value=21 Score=26.85 Aligned_cols=16 Identities=31% Similarity=0.490 Sum_probs=13.7
Q ss_pred HHHHHHHhhccchhhh
Q 037611 15 ERNVIREVSGFAPYEK 30 (82)
Q Consensus 15 vr~~IrEv~GfaPYEk 30 (82)
.++-++|.+||.||.-
T Consensus 111 Y~~~f~~~lGf~PypG 126 (217)
T PRK14165 111 YKIQFEEKLGFIPYPG 126 (217)
T ss_pred HHHHHHHHhCCcCCCC
Confidence 5678899999999974
No 9
>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=35.08 E-value=74 Score=20.82 Aligned_cols=43 Identities=16% Similarity=0.165 Sum_probs=29.0
Q ss_pred cchhhhhhhhhccccchhHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 037611 25 FAPYEKRIDVLPKVGKDKRALKLAKRKLCTYERAKMKHGEMSNVL 69 (82)
Q Consensus 25 faPYEkr~~ELlk~~kdKrALKf~KKrlGth~RAKrK~eel~~vl 69 (82)
|.=+-...+||++.++-..|+.|+++.+ ++-. ....+++..++
T Consensus 40 f~L~~q~fiell~~~~~~~Ai~y~r~~l-~~~~-~~~~~~l~~~~ 82 (145)
T PF10607_consen 40 FELRCQQFIELLREGDIMEAIEYARKHL-SPFN-DEFLEELKKLM 82 (145)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHh-hhhH-HHHHHHHHHHH
Confidence 3345567889999999999999999988 3222 23444444443
No 10
>PF13058 DUF3920: Protein of unknown function (DUF3920)
Probab=33.91 E-value=35 Score=24.32 Aligned_cols=28 Identities=46% Similarity=0.596 Sum_probs=22.8
Q ss_pred hccchhhhhhhhhccccchhHHHHHHHHhhhhhHH
Q 037611 23 SGFAPYEKRIDVLPKVGKDKRALKLAKRKLCTYER 57 (82)
Q Consensus 23 ~GfaPYEkr~~ELlk~~kdKrALKf~KKrlGth~R 57 (82)
.|-.|||.|.||- | |..|+-..|-..+|
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 7999999999974 5 88999888766554
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=33.36 E-value=26 Score=24.47 Aligned_cols=16 Identities=44% Similarity=0.702 Sum_probs=10.7
Q ss_pred HHHHHHHhhccchhhh
Q 037611 15 ERNVIREVSGFAPYEK 30 (82)
Q Consensus 15 vr~~IrEv~GfaPYEk 30 (82)
.++-++|..||.||.=
T Consensus 17 Y~~qf~~~LGf~PyPG 32 (121)
T PF01982_consen 17 YRRQFREKLGFEPYPG 32 (121)
T ss_dssp HHHHHHHHCSS---SS
T ss_pred HHHHHHHHhCCCCCCC
Confidence 5778899999999964
No 12
>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=32.03 E-value=1.5e+02 Score=19.33 Aligned_cols=53 Identities=21% Similarity=0.181 Sum_probs=35.0
Q ss_pred HHHHHhhccchhhh--hhhhhccccchhHHHHHHHHhhhhhHHHHHHHHHHHHHH
Q 037611 17 NVIREVSGFAPYEK--RIDVLPKVGKDKRALKLAKRKLCTYERAKMKHGEMSNVL 69 (82)
Q Consensus 17 ~~IrEv~GfaPYEk--r~~ELlk~~kdKrALKf~KKrlGth~RAKrK~eel~~vl 69 (82)
+-|+++.|..|.|. .+++.|-.++-..|+.++..=+-.-+-...=.++|.+.+
T Consensus 4 e~V~~~lG~v~~~~i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~ 58 (143)
T PF12169_consen 4 EDVREILGLVDEEQIFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYL 58 (143)
T ss_dssp HHHHHHHTHTSTHHHHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHH
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 56899999999997 566666678888899888875544344444444444444
No 13
>PF04328 DUF466: Protein of unknown function (DUF466); InterPro: IPR007423 This is a small bacterial protein of unknown function.
Probab=26.84 E-value=50 Score=20.51 Aligned_cols=22 Identities=23% Similarity=0.182 Sum_probs=18.0
Q ss_pred hhHHHHHHHHHhhccchhhhhh
Q 037611 11 RVHFERNVIREVSGFAPYEKRI 32 (82)
Q Consensus 11 r~kfvr~~IrEv~GfaPYEkr~ 32 (82)
-.+.++..+++++|.+-||+=+
T Consensus 8 ~~~~~~~~~r~l~G~~~Ye~Yv 29 (65)
T PF04328_consen 8 AWRRVRWYARLLVGEPDYERYV 29 (65)
T ss_pred HHHHHHHHHHHhcCcHHHHHHH
Confidence 3456889999999999999743
No 14
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=26.50 E-value=38 Score=26.14 Aligned_cols=15 Identities=47% Similarity=0.802 Sum_probs=13.1
Q ss_pred HHHHHHhhccchhhh
Q 037611 16 RNVIREVSGFAPYEK 30 (82)
Q Consensus 16 r~~IrEv~GfaPYEk 30 (82)
+..++|..||.||.-
T Consensus 110 ~~qf~ekLGf~PyPG 124 (214)
T COG1339 110 RRQFREKLGFDPYPG 124 (214)
T ss_pred HHHHHHHhCCCCCCC
Confidence 678999999999964
No 15
>PF02939 UcrQ: UcrQ family; InterPro: IPR004205 The ubiquinol-cytochrome C reductase complex (cytochrome bc1 complex) is a respiratory multi-enzyme complex [], which recognises a mitochondrial targeting presequence. The bc1 complex contains 11 subunits: 3 respiratory subunits (cytochrome b, cytochrome c1 and Rieske protein), 2 core proteins and 6 low molecular weight proteins. This family represents the 9.5 kDa subunit of the complex. This subunit together with cytochrome B binds to ubiquinone.; GO: 0008121 ubiquinol-cytochrome-c reductase activity; PDB: 1L0N_G 1SQQ_G 1PP9_G 1PPJ_T 2FYU_G 2BCC_G 1BCC_G 2A06_G 1NTZ_G 2YBB_g ....
Probab=26.08 E-value=19 Score=23.34 Aligned_cols=13 Identities=23% Similarity=0.327 Sum_probs=8.4
Q ss_pred hccchhhhhhhhh
Q 037611 23 SGFAPYEKRIDVL 35 (82)
Q Consensus 23 ~GfaPYEkr~~EL 35 (82)
.+++|||.+.+--
T Consensus 16 YslSP~eQr~~ag 28 (80)
T PF02939_consen 16 YSLSPFEQRPFAG 28 (80)
T ss_dssp EEE-TTGB-SSTT
T ss_pred EEeChhhhccccc
Confidence 5789999988753
No 16
>KOG1054 consensus Glutamate-gated AMPA-type ion channel receptor subunit GluR2 and related subunits [Inorganic ion transport and metabolism; Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=25.22 E-value=21 Score=32.00 Aligned_cols=15 Identities=40% Similarity=0.627 Sum_probs=12.0
Q ss_pred Hhhccchhhhhhhhh
Q 037611 21 EVSGFAPYEKRIDVL 35 (82)
Q Consensus 21 Ev~GfaPYEkr~~EL 35 (82)
=|.-|+|||||+-|-
T Consensus 566 LVSrFSPYEwh~Ee~ 580 (897)
T KOG1054|consen 566 LVSRFSPYEWHTEEF 580 (897)
T ss_pred EEeccCchheecccc
Confidence 356799999998775
No 17
>PF04836 IFRD_C: Interferon-related protein conserved region; InterPro: IPR006921 This domain, primarily C-terminal, is found in a family of proteins thought to be involved in regulating gene activity in the proliferative and/or differentiative pathways induced by NGF [].
Probab=22.48 E-value=47 Score=20.27 Aligned_cols=12 Identities=17% Similarity=0.517 Sum_probs=10.4
Q ss_pred HHHHHhhccchh
Q 037611 17 NVIREVSGFAPY 28 (82)
Q Consensus 17 ~~IrEv~GfaPY 28 (82)
+++|||+||.|=
T Consensus 2 e~lRdiF~Lgp~ 13 (54)
T PF04836_consen 2 EFLRDIFDLGPP 13 (54)
T ss_pred hHHHHHcCCCCc
Confidence 678999999995
No 18
>PRK11020 hypothetical protein; Provisional
Probab=21.25 E-value=29 Score=24.59 Aligned_cols=16 Identities=31% Similarity=0.690 Sum_probs=10.6
Q ss_pred HHHHHH-HHHhhccchh
Q 037611 13 HFERNV-IREVSGFAPY 28 (82)
Q Consensus 13 kfvr~~-IrEv~GfaPY 28 (82)
++=|+| +.||+||||-
T Consensus 100 aLGrEmgLk~mTGfApk 116 (118)
T PRK11020 100 ALGREMGLKEMTGFAKK 116 (118)
T ss_pred HHHHHcCcceecccCCC
Confidence 334444 5678999994
No 19
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=20.26 E-value=40 Score=19.72 Aligned_cols=17 Identities=24% Similarity=0.298 Sum_probs=14.1
Q ss_pred Hhhccchhhhhhhhhcc
Q 037611 21 EVSGFAPYEKRIDVLPK 37 (82)
Q Consensus 21 Ev~GfaPYEkr~~ELlk 37 (82)
++.||+++|.+++..|-
T Consensus 2 ~~~gLs~~E~~vy~~Ll 18 (68)
T PF01978_consen 2 EVLGLSENEAKVYLALL 18 (68)
T ss_dssp HHHCHHHHHHHHHHHHH
T ss_pred CcCCcCHHHHHHHHHHH
Confidence 37899999999987764
Done!