Query psy701
Match_columns 158
No_of_seqs 83 out of 104
Neff 2.9
Searched_HMMs 46136
Date Sat Aug 17 00:30:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy701.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/701hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02792 Mago_nashi: Mago nash 100.0 2E-101 5E-106 607.3 12.5 143 16-158 1-143 (143)
2 KOG3392|consensus 100.0 2.6E-97 6E-102 581.0 11.5 146 13-158 2-147 (147)
3 KOG1446|consensus 57.3 5.4 0.00012 35.9 1.2 26 81-114 182-207 (311)
4 PF14250 AbrB-like: AbrB-like 49.5 15 0.00033 26.9 2.3 14 98-111 57-70 (71)
5 PHA01548 hypothetical protein 41.5 35 0.00075 28.3 3.4 31 63-105 119-150 (167)
6 PRK14947 DNA polymerase III su 37.0 1.5E+02 0.0033 26.2 7.0 36 61-115 196-231 (384)
7 COG3884 FatA Acyl-ACP thioeste 31.2 33 0.00073 30.2 1.9 35 2-53 141-176 (250)
8 PF01985 CRS1_YhbY: CRS1 / Yhb 30.9 33 0.00072 24.3 1.6 22 63-84 26-47 (84)
9 PF05261 Tra_M: TraM protein, 27.9 40 0.00086 27.1 1.7 22 57-78 1-22 (127)
10 PF02767 DNA_pol3_beta_2: DNA 27.5 2.1E+02 0.0045 20.5 5.3 41 59-116 63-103 (116)
11 PF11888 DUF3408: Protein of u 24.6 68 0.0015 24.6 2.4 24 55-78 76-99 (136)
12 PF11211 DUF2997: Protein of u 24.1 52 0.0011 21.8 1.5 13 34-46 1-13 (48)
13 PF14258 DUF4350: Domain of un 23.9 54 0.0012 21.6 1.6 17 125-141 1-17 (70)
14 PF11743 DUF3301: Protein of u 23.4 45 0.00098 24.5 1.2 23 34-56 66-88 (97)
15 PF10584 Proteasome_A_N: Prote 21.8 41 0.0009 19.7 0.6 7 38-44 8-14 (23)
16 PRK10343 RNA-binding protein Y 21.8 68 0.0015 24.1 1.9 36 62-100 27-62 (97)
17 PF02210 Laminin_G_2: Laminin 20.9 1.3E+02 0.0028 20.3 3.0 20 31-51 19-38 (128)
18 PF04900 Fcf1: Fcf1; InterPro 20.4 93 0.002 22.2 2.3 18 61-78 9-26 (101)
No 1
>PF02792 Mago_nashi: Mago nashi protein; InterPro: IPR004023 This family was originally identified in drosophila and called mago nashi, it is a strict maternal effect, grandchildless-like, gene []. The human homologue has been shown to interact with an RNA binding protein, ribonucleoprotein rbm8 (Q9Y5S9 from SWISSPROT) []. An RNAi knockout of the Caenorhabditis elegans homologue causes masculinization of the germ line (Mog phenotype) hermaphrodites, suggesting it is involved in hermaphrodite germ-line sex determination [] but the protein is also found in hermaphrodites and other organisms without a sexual differentiation.; GO: 0005634 nucleus; PDB: 2XB2_Y 2J0S_C 3EX7_A 2J0Q_F 1P27_C 2HYI_A 2X1G_B 1HL6_B 1RK8_B 1OO0_A ....
Probab=100.00 E-value=2.4e-101 Score=607.25 Aligned_cols=143 Identities=83% Similarity=1.390 Sum_probs=132.9
Q ss_pred ceEEEEecccCCcccceeEEEEEcCCCceeeecCCCCCCCceEEEEEEeeHHHHHHHHHHhhhcccccccCCCCCCCCCC
Q psy701 16 DFYIRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTMIRKEAYVHKCVMDELKRIINESEVMHEDDSLWPQPDRI 95 (158)
Q Consensus 16 ~FYlRYY~GH~GkfGHEFLEfEfr~dG~lRYaNNSnYKnd~~IrKE~~vs~~v~~E~kRII~~SeI~kEdD~~WP~pd~~ 95 (158)
+||||||+||+||||||||||||||||+||||||||||||+||||||+||++||+|+||||.+||||+|||++||+||++
T Consensus 1 ~fYlRYy~gH~GkfGhEfLEfEfr~dG~lRYaNnSnYknd~~IrKe~~vs~~vl~E~krII~~SeI~kEdD~~WP~pd~~ 80 (143)
T PF02792_consen 1 DFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDSMIRKEVYVSPAVLEELKRIIEDSEIMKEDDSKWPEPDRV 80 (143)
T ss_dssp -EEEEEEEEEEETTEEEEEEEEEETTSEEEEEEEESCCCSEEEEEEEEE-HHHHHHHHHHHHHHTGGG--STTS--SBTT
T ss_pred CeeEEEEeccCccccceEEEEEeccCCeEEEcccCCCCCcceeeeeeEecHHHHHHHHHHHHHhhccccccccCCCCCCc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeEEEEECCeEEEEEeccccceeeccCCCCCcchhhhHHHHHHHHHHHHHHhhhceeeccC
Q psy701 96 GRQELEIVIGDEHISFTTSKTGSLVDVNHSKDPDGLRCFYYLVQDLKCLVFSLIGLHYKIKPI 158 (158)
Q Consensus 96 GrQELEI~~g~~HisF~tsKiGSl~dvq~S~DPeGLr~FyYLvqDLKclvfsLi~lHFkikpi 158 (158)
|||||||+|||+||||+|||||||+|||+|+||||||+||||||||||||||||+||||||||
T Consensus 81 GrQELEI~lg~~HisF~tsKigsl~dv~~S~DPeGLr~FyYLvqDLKclvfsLi~lHFkikpi 143 (143)
T PF02792_consen 81 GRQELEIVLGNEHISFTTSKIGSLSDVQNSKDPEGLRVFYYLVQDLKCLVFSLISLHFKIKPI 143 (143)
T ss_dssp BEEEEEEEETTEEEEEEEC---SHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHTSSS-
T ss_pred cceeEEEEECCEEEEEEecccccceeeccCCCccHHHHHHHHHHHHHHHHHHHHHheeeeccC
Confidence 999999999999999999999999999999999999999999999999999999999999998
No 2
>KOG3392|consensus
Probab=100.00 E-value=2.6e-97 Score=581.04 Aligned_cols=146 Identities=84% Similarity=1.408 Sum_probs=144.4
Q ss_pred CCCceEEEEecccCCcccceeEEEEEcCCCceeeecCCCCCCCceEEEEEEeeHHHHHHHHHHhhhcccccccCCCCCCC
Q psy701 13 AGQDFYIRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTMIRKEAYVHKCVMDELKRIINESEVMHEDDSLWPQP 92 (158)
Q Consensus 13 ~~~~FYlRYY~GH~GkfGHEFLEfEfr~dG~lRYaNNSnYKnd~~IrKE~~vs~~v~~E~kRII~~SeI~kEdD~~WP~p 92 (158)
...+|||||||||+||||||||||||||||+||||||||||||+|||||++||++|++|+||||.|||||+|||++||+|
T Consensus 2 ~asdfy~ryyvghkgkfgheflefefr~dg~lryannsnykndt~irke~fv~e~vl~e~kriv~dsei~kedd~nwp~p 81 (147)
T KOG3392|consen 2 EASDFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTMIRKEAFVHESVLEELKRIIDDSEIMKEDDANWPPP 81 (147)
T ss_pred cccceEEEEEeccCccccceeeEEEecCCCcEEeccCCCcccchhhhhhhhhhHHHHHHHHHHhhhhhhhhccccCCcCC
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceeEEEEECCeEEEEEeccccceeeccCCCCCcchhhhHHHHHHHHHHHHHHhhhceeeccC
Q psy701 93 DRIGRQELEIVIGDEHISFTTSKTGSLVDVNHSKDPDGLRCFYYLVQDLKCLVFSLIGLHYKIKPI 158 (158)
Q Consensus 93 d~~GrQELEI~~g~~HisF~tsKiGSl~dvq~S~DPeGLr~FyYLvqDLKclvfsLi~lHFkikpi 158 (158)
|++|||||||+|||+||||+|||||||.|||+|+||||||+||||||||||||||||+||||||||
T Consensus 82 d~~gkqelei~~~~ehisf~t~kigsladv~ns~dpeglr~fyylvqdlkclvfsli~lhfkikpi 147 (147)
T KOG3392|consen 82 DRVGRQELEIVIGDEHISFTTSKIGSLADVNNSKDPEGLRVFYYLVQDLKCLVFSLIGLHFKIKPI 147 (147)
T ss_pred CcccceeEEEEECCeEEEEEeccccceeecccCCCccceeeehhhHhhhHhHhhhheeeeEEeecC
Confidence 999999999999999999999999999999999999999999999999999999999999999997
No 3
>KOG1446|consensus
Probab=57.34 E-value=5.4 Score=35.89 Aligned_cols=26 Identities=23% Similarity=0.532 Sum_probs=18.4
Q ss_pred cccccCCCCCCCCCCCceeEEEEECCeEEEEEec
Q psy701 81 VMHEDDSLWPQPDRIGRQELEIVIGDEHISFTTS 114 (158)
Q Consensus 81 I~kEdD~~WP~pd~~GrQELEI~~g~~HisF~ts 114 (158)
|..+|-..| .+||..=+|+-|=.+|.
T Consensus 182 i~~~~~~ew--------~~l~FS~dGK~iLlsT~ 207 (311)
T KOG1446|consen 182 ITDNDEAEW--------TDLEFSPDGKSILLSTN 207 (311)
T ss_pred cCCCCccce--------eeeEEcCCCCEEEEEeC
Confidence 334666677 57888888888777775
No 4
>PF14250 AbrB-like: AbrB-like transcriptional regulator
Probab=49.49 E-value=15 Score=26.86 Aligned_cols=14 Identities=43% Similarity=0.821 Sum_probs=12.8
Q ss_pred eeEEEEECCeEEEE
Q psy701 98 QELEIVIGDEHISF 111 (158)
Q Consensus 98 QELEI~~g~~HisF 111 (158)
||.||.+|-+||-+
T Consensus 57 dEFeI~LgrKhI~L 70 (71)
T PF14250_consen 57 DEFEIKLGRKHIHL 70 (71)
T ss_pred CEEEEEeCcceEEe
Confidence 89999999999964
No 5
>PHA01548 hypothetical protein
Probab=41.49 E-value=35 Score=28.32 Aligned_cols=31 Identities=32% Similarity=0.618 Sum_probs=22.6
Q ss_pred EeeHHHHHHHHHHhhhcccccccCCCC-CCCCCCCceeEEEEEC
Q psy701 63 YVHKCVMDELKRIINESEVMHEDDSLW-PQPDRIGRQELEIVIG 105 (158)
Q Consensus 63 ~vs~~v~~E~kRII~~SeI~kEdD~~W-P~pd~~GrQELEI~~g 105 (158)
.+|+.|+..|+|||.= + -++.| |+| |||+.+
T Consensus 119 a~SQgVVssIQkiisI---v--Gpapwt~EP-------l~iVp~ 150 (167)
T PHA01548 119 AVSQGVVSSIQKIISI---V--GPAPWTDEP-------LAIVPG 150 (167)
T ss_pred eehHHHHHHHHHHHHH---h--CCCCCCCCC-------eeEEEE
Confidence 3799999999999963 2 35555 877 666654
No 6
>PRK14947 DNA polymerase III subunit beta; Provisional
Probab=36.97 E-value=1.5e+02 Score=26.16 Aligned_cols=36 Identities=25% Similarity=0.441 Sum_probs=29.3
Q ss_pred EEEeeHHHHHHHHHHhhhcccccccCCCCCCCCCCCceeEEEEECCeEEEEEecc
Q psy701 61 EAYVHKCVMDELKRIINESEVMHEDDSLWPQPDRIGRQELEIVIGDEHISFTTSK 115 (158)
Q Consensus 61 E~~vs~~v~~E~kRII~~SeI~kEdD~~WP~pd~~GrQELEI~~g~~HisF~tsK 115 (158)
.+-|..-.+.||+|++.+ .+++|.+++.|+.|.+..
T Consensus 196 ~~iIP~k~l~el~kll~~-------------------~~v~i~~~~~~i~f~~~~ 231 (384)
T PRK14947 196 GILIQKKYLLELKKWLGA-------------------DEIELSISEKRLFFRTGD 231 (384)
T ss_pred cEEEechHHHHHHHhCCC-------------------CcEEEEEeCCEEEEEECC
Confidence 577888899999999741 178999999999998764
No 7
>COG3884 FatA Acyl-ACP thioesterase [Lipid metabolism]
Probab=31.15 E-value=33 Score=30.20 Aligned_cols=35 Identities=43% Similarity=0.667 Sum_probs=22.4
Q ss_pred CcccceeccCCC-CCceEEEEecccCCcccceeEEEEEcCCCceeeecCCCCC
Q psy701 2 LPNYLVSTMSGA-GQDFYIRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYK 53 (158)
Q Consensus 2 ~~~~~~~~~~~~-~~~FYlRYY~GH~GkfGHEFLEfEfr~dG~lRYaNNSnYK 53 (158)
.|+||-|.-... +-+|++||+-= .=||| .|||.|=
T Consensus 141 ~~~~l~~~~e~s~~~~f~vR~~DI--D~f~H---------------vNNskY~ 176 (250)
T COG3884 141 WPKYLSSRLEASEIHDFPVRYTDI--DMFGH---------------VNNSKYW 176 (250)
T ss_pred cccccCccccccccccceeEEEee--ccccc---------------cccceeh
Confidence 467776544444 34899999863 23333 6999874
No 8
>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain. The name chloroplast RNA splicing and ribosome maturation (CRM) has been suggested to reflect the functions established for the four characterised members of the family: Zea mays (Maize) CRS1 (Q9FYT6 from SWISSPROT), CAF1 (Q84N49 from SWISSPROT) and CAF2 (Q84N48 from SWISSPROT) proteins and the Escherichia coli protein YhbY (P0AGK4 from SWISSPROT). The CRM domain is found in eubacteria, archaea, and plants. The CRM domain is represented as a stand-alone protein in archaea and bacteria, and in single- and multi-domain proteins in plants. It has been suggested that prokaryotic CRM proteins existed as ribosome-associated proteins prior to the divergence of archaea and bacteria, and that they were co-opted in the plant lineage as RNA binding modules by incorporation into diverse protein contexts. Plant CRM domains are predicted to reside not only in the chloroplast, but also in the mitochondrion and the nucleo/cytoplasmic compartment. The diversity of the CRM domain family in plants suggests a diverse set of RNA targets [, ]. The CRM domain is a compact alpha/beta domain consisting of a four-stranded beta sheet and three alpha helices with an alpha-beta-alpha-beta-alpha-beta-beta topology. The beta sheet face is basic, consistent with a role in RNA binding. Proximal to the basic beta sheet face is another moiety that could contribute to nucleic acid recognition. Connecting strand beta1 and helix alpha2 is a loop with a six amino acid motif, GxxG flanked by large aliphatic residues, within which one 'x' is typically a basic residue []. Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants []. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing []. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes []. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome [].; GO: 0003723 RNA binding; PDB: 1RQ8_A 1JO0_B 1LN4_A.
Probab=30.87 E-value=33 Score=24.31 Aligned_cols=22 Identities=14% Similarity=0.317 Sum_probs=18.5
Q ss_pred EeeHHHHHHHHHHhhhcccccc
Q psy701 63 YVHKCVMDELKRIINESEVMHE 84 (158)
Q Consensus 63 ~vs~~v~~E~kRII~~SeI~kE 84 (158)
-++++|++|+.+-++.+|++|-
T Consensus 26 Glt~~vi~~i~~~l~~~eLvKV 47 (84)
T PF01985_consen 26 GLTDGVIEEIDDALEKHELVKV 47 (84)
T ss_dssp SS-HHHHHHHHHHHHHHSEEEE
T ss_pred CCCHHHHHHHHHHHHhCCeeEE
Confidence 4799999999999999998763
No 9
>PF05261 Tra_M: TraM protein, DNA-binding; InterPro: IPR007925 The TraM protein is an essential part of the DNA transfer machinery of the conjugative resistance plasmid R1 (IncFII). On the basis of mutational analyses, it was shown that the essential transfer protein TraM has at least two functions. First, a functional TraM protein was found to be required for normal levels of transfer gene expression. Second, experimental evidence was obtained that TraM stimulates efficient site-specific single-stranded DNA cleavage at the oriT, in vivo. Furthermore, a specific interaction of the cytoplasmic TraM protein with the membrane protein TraD was demonstrated, suggesting that the TraM protein creates a physical link between the relaxosomal nucleoprotein complex and the membrane-bound DNA transfer apparatus [].; GO: 0003677 DNA binding, 0000746 conjugation; PDB: 3ON0_A 3OMY_B 1DP3_A 2G9E_A 3D8A_B 2G7O_A.
Probab=27.91 E-value=40 Score=27.07 Aligned_cols=22 Identities=36% Similarity=0.637 Sum_probs=16.7
Q ss_pred eEEEEEEeeHHHHHHHHHHhhh
Q psy701 57 MIRKEAYVHKCVMDELKRIINE 78 (158)
Q Consensus 57 ~IrKE~~vs~~v~~E~kRII~~ 78 (158)
|=|.++||+..|.++|..|+.+
T Consensus 1 M~rvq~y~s~~v~~~I~~iVe~ 22 (127)
T PF05261_consen 1 MPRVQIYVSNKVLEEINDIVEE 22 (127)
T ss_dssp --EECCE--HCHHHHHHHHHHH
T ss_pred CCchhhhhhHHHHHHHHHHHHH
Confidence 4588999999999999999975
No 10
>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....
Probab=27.55 E-value=2.1e+02 Score=20.54 Aligned_cols=41 Identities=27% Similarity=0.463 Sum_probs=32.7
Q ss_pred EEEEEeeHHHHHHHHHHhhhcccccccCCCCCCCCCCCceeEEEEECCeEEEEEeccc
Q psy701 59 RKEAYVHKCVMDELKRIINESEVMHEDDSLWPQPDRIGRQELEIVIGDEHISFTTSKT 116 (158)
Q Consensus 59 rKE~~vs~~v~~E~kRII~~SeI~kEdD~~WP~pd~~GrQELEI~~g~~HisF~tsKi 116 (158)
..++-|....+.||+|++.++ + .+++|.+++.++.|.+..+
T Consensus 63 ~~~~iIp~k~l~~l~k~l~~~-----~------------~~v~i~~~~~~i~f~~~~~ 103 (116)
T PF02767_consen 63 EFSFIIPAKALKELKKLLSDE-----D------------EEVEISISDNQIIFKFDNI 103 (116)
T ss_dssp EEEEEEEHHHHHHHHHHSSTT-----S------------SEEEEEEESSEEEEEESSE
T ss_pred ceEEEEechHHHHHhhhcccC-----C------------ceEEEEEcCCEEEEEECCE
Confidence 467889999999999998761 1 3688888899999988743
No 11
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=24.63 E-value=68 Score=24.60 Aligned_cols=24 Identities=25% Similarity=0.437 Sum_probs=20.2
Q ss_pred CceEEEEEEeeHHHHHHHHHHhhh
Q psy701 55 DTMIRKEAYVHKCVMDELKRIINE 78 (158)
Q Consensus 55 d~~IrKE~~vs~~v~~E~kRII~~ 78 (158)
..--||-||||+.+-+-|.||+..
T Consensus 76 ~~~~R~~vyI~~e~h~~l~~Iv~~ 99 (136)
T PF11888_consen 76 KIKARKGVYISRETHERLSRIVRV 99 (136)
T ss_pred CCCCCeeeEECHHHHHHHHHHHHH
Confidence 455688899999999999999864
No 12
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=24.09 E-value=52 Score=21.80 Aligned_cols=13 Identities=38% Similarity=0.861 Sum_probs=10.3
Q ss_pred EEEEEcCCCceee
Q psy701 34 LEFEFRPDGKLRY 46 (158)
Q Consensus 34 LEfEfr~dG~lRY 46 (158)
+||.++|||+++-
T Consensus 1 I~~~I~~dG~V~~ 13 (48)
T PF11211_consen 1 IEFTIYPDGRVEE 13 (48)
T ss_pred CEEEECCCcEEEE
Confidence 5788899998763
No 13
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=23.95 E-value=54 Score=21.58 Aligned_cols=17 Identities=24% Similarity=0.598 Sum_probs=14.8
Q ss_pred CCCCcchhhhHHHHHHH
Q psy701 125 SKDPDGLRCFYYLVQDL 141 (158)
Q Consensus 125 S~DPeGLr~FyYLvqDL 141 (158)
|++|.|.+.||=+.++.
T Consensus 1 ~~~p~G~~a~~~~L~~~ 17 (70)
T PF14258_consen 1 NPAPNGTYALYQLLEEQ 17 (70)
T ss_pred CCCchHHHHHHHHHHHC
Confidence 57899999999988875
No 14
>PF11743 DUF3301: Protein of unknown function (DUF3301); InterPro: IPR021732 This family is conserved in Proteobacteria, but the function is not known.
Probab=23.42 E-value=45 Score=24.51 Aligned_cols=23 Identities=30% Similarity=0.507 Sum_probs=16.2
Q ss_pred EEEEEcCCCceeeecCCCCCCCc
Q psy701 34 LEFEFRPDGKLRYANNSNYKNDT 56 (158)
Q Consensus 34 LEfEfr~dG~lRYaNNSnYKnd~ 56 (158)
-.|||.+||.-||.-.=-..+..
T Consensus 66 y~FEFS~~G~~ry~G~l~m~G~~ 88 (97)
T PF11743_consen 66 YQFEFSSDGEDRYQGELVMLGRR 88 (97)
T ss_pred EEEEEeCCChhcceEEEEEECCe
Confidence 37999999999987554444433
No 15
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=21.81 E-value=41 Score=19.69 Aligned_cols=7 Identities=71% Similarity=1.540 Sum_probs=5.6
Q ss_pred EcCCCce
Q psy701 38 FRPDGKL 44 (158)
Q Consensus 38 fr~dG~l 44 (158)
|.|||||
T Consensus 8 FSp~Grl 14 (23)
T PF10584_consen 8 FSPDGRL 14 (23)
T ss_dssp BBTTSSB
T ss_pred ECCCCeE
Confidence 6799986
No 16
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=21.79 E-value=68 Score=24.14 Aligned_cols=36 Identities=14% Similarity=0.260 Sum_probs=27.2
Q ss_pred EEeeHHHHHHHHHHhhhcccccccCCCCCCCCCCCceeE
Q psy701 62 AYVHKCVMDELKRIINESEVMHEDDSLWPQPDRIGRQEL 100 (158)
Q Consensus 62 ~~vs~~v~~E~kRII~~SeI~kEdD~~WP~pd~~GrQEL 100 (158)
-=+|++|++|+.+-++..|++|-. |...++.-|+|+
T Consensus 27 ~Glt~~vi~ei~~aL~~hELIKvk---v~~~~~~~~~e~ 62 (97)
T PRK10343 27 NGLTEGVLAEIEQALEHHELIKVK---IATEDRETKTLI 62 (97)
T ss_pred CCCCHHHHHHHHHHHHHCCcEEEE---ecCCChhHHHHH
Confidence 348999999999999999988853 555555545443
No 17
>PF02210 Laminin_G_2: Laminin G domain; InterPro: IPR012680 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, including a large number of extracellular proteins. The C terminus of the laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions have been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each have five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012679 from INTERPRO).; PDB: 3POY_A 3QCW_B 3R05_B 3ASI_A 3MW4_B 3MW3_A 1QU0_D 1DYK_A 1OKQ_A 3SH4_A ....
Probab=20.88 E-value=1.3e+02 Score=20.33 Aligned_cols=20 Identities=35% Similarity=0.552 Sum_probs=16.1
Q ss_pred ceeEEEEEcCCCceeeecCCC
Q psy701 31 HEFLEFEFRPDGKLRYANNSN 51 (158)
Q Consensus 31 HEFLEfEfr~dG~lRYaNNSn 51 (158)
..|+..++. ||+|++.=+..
T Consensus 19 ~~~l~l~l~-~g~l~~~~~~g 38 (128)
T PF02210_consen 19 GDFLSLELV-DGRLVVRYNLG 38 (128)
T ss_dssp SEEEEEEEE-TTEEEEEEESS
T ss_pred CEEEEEEEE-CCEEEEEEEcc
Confidence 789999997 99988765554
No 18
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=20.42 E-value=93 Score=22.18 Aligned_cols=18 Identities=33% Similarity=0.800 Sum_probs=15.5
Q ss_pred EEEeeHHHHHHHHHHhhh
Q psy701 61 EAYVHKCVMDELKRIINE 78 (158)
Q Consensus 61 E~~vs~~v~~E~kRII~~ 78 (158)
+.+|++.|++||+++-.+
T Consensus 9 ~~~vt~cVl~EL~~L~~~ 26 (101)
T PF04900_consen 9 KPYVTQCVLEELESLGKK 26 (101)
T ss_pred EEEecHHHHHHHHHhccc
Confidence 578999999999998743
Done!