Query 041559
Match_columns 94
No_of_seqs 117 out of 742
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 08:24:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041559hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00169 CETS family protein; 100.0 3E-29 6.6E-34 176.8 9.3 90 1-90 1-98 (175)
2 KOG3346 Phosphatidylethanolami 100.0 3.1E-29 6.6E-34 178.0 9.0 89 4-92 3-101 (185)
3 cd00866 PEBP_euk PhosphatidylE 99.7 4E-16 8.7E-21 106.3 7.7 64 27-90 2-75 (154)
4 PF01161 PBP: Phosphatidyletha 99.3 4.1E-12 8.9E-17 85.7 5.9 54 26-86 2-65 (146)
5 cd00457 PEBP PhosphatidylEthan 99.0 4.7E-10 1E-14 77.7 6.1 54 36-89 6-68 (159)
6 PRK10257 putative kinase inhib 98.5 4.3E-07 9.4E-12 63.3 6.1 38 51-88 31-72 (158)
7 cd00865 PEBP_bact_arch Phospha 98.4 4.6E-07 9.9E-12 62.0 5.2 39 50-88 26-68 (150)
8 PRK09818 putative kinase inhib 98.4 9.3E-07 2E-11 63.0 6.3 59 28-88 22-93 (183)
9 COG1881 Phospholipid-binding p 98.3 1.8E-06 4E-11 61.1 5.6 64 24-87 16-88 (174)
10 TIGR00481 Raf kinase inhibitor 98.1 6.3E-06 1.4E-10 56.3 5.5 39 50-88 14-56 (141)
11 KOG3586 TBX1 and related T-box 58.1 16 0.00035 29.4 3.8 47 38-84 95-153 (437)
12 COG3565 Predicted dioxygenase 53.5 17 0.00037 24.7 2.8 23 49-72 97-119 (138)
13 PF07703 A2M_N_2: Alpha-2-macr 52.0 57 0.0012 20.8 5.2 17 54-71 114-130 (136)
14 PRK04243 50S ribosomal protein 30.8 41 0.00089 24.4 2.0 21 63-83 128-153 (196)
15 PTZ00026 60S ribosomal protein 28.8 42 0.00092 24.5 1.8 21 63-83 128-153 (204)
16 PF12058 DUF3539: Protein of u 23.0 1.9E+02 0.0042 18.4 3.8 27 62-88 12-45 (88)
17 PRK06393 rpoE DNA-directed RNA 22.6 13 0.00027 22.4 -1.6 23 66-88 35-57 (64)
18 PF11963 DUF3477: Protein of u 22.5 1.1E+02 0.0024 24.0 3.1 21 63-83 148-173 (355)
19 PF01781 Ribosomal_L38e: Ribos 22.0 28 0.00061 21.2 -0.1 19 54-72 32-50 (69)
20 KOG1678 60s ribosomal protein 21.2 63 0.0014 23.2 1.5 20 63-82 128-152 (204)
21 PTZ00181 60S ribosomal protein 20.1 66 0.0014 20.2 1.3 12 61-72 39-50 (82)
No 1
>PLN00169 CETS family protein; Provisional
Probab=99.96 E-value=3e-29 Score=176.79 Aligned_cols=90 Identities=68% Similarity=1.074 Sum_probs=84.7
Q ss_pred CCCcCCCCceeCCeecccCCCCCCCeeEEEEeCCcccCCCceeCCccCCCCCeEEEecCCCCceEEEEEECC--------
Q 041559 1 MSSRERDPLIVGRVVGDVLDNFTRTIPMRITYSNKDVNNGRELKPSEVLNQPRVEIGGDDLRTFYTLVFYTV-------- 72 (94)
Q Consensus 1 ~~~~~~~~l~~~~IiPdvl~~f~P~~~L~V~y~~~~V~~G~~l~p~~~~~~P~V~~~~~~~~~lyTLvMvDP-------- 72 (94)
|+..++++|++|+||||||+.|.|+..|.|.|++..|.+|+.|++++++.+|+|+|.+.+.+++|||+|+||
T Consensus 1 ~~~~~~~~l~~~~iipdvid~f~P~~~L~V~y~s~~V~~G~~l~p~~t~~~P~i~~~~~~~~~~ytlim~DpDaP~~~~~ 80 (175)
T PLN00169 1 MSPRDRDPLVVGRVVGDVLDPFTRSISLRVTYGSREVNNGCELKPSQVVNQPRVDIGGEDLRTFYTLVMVDPDAPSPSNP 80 (175)
T ss_pred CCcccccchhhCCcCCcccCCcCCceEEEEEECCcCcCCcCCCCHHHhccCCEEEEccCCCCceeEEEEECCCCCCCCCC
Confidence 788999999999999999999999999999999999999999999999999999999766679999999999
Q ss_pred CCCeEEEEEEeCcCCCCC
Q 041559 73 SICCHCFRLVTDIPATTG 90 (94)
Q Consensus 73 ~~~e~~HWlv~NIp~~~~ 90 (94)
++++||||+++|||++..
T Consensus 81 ~~~~~~HW~v~nip~~~~ 98 (175)
T PLN00169 81 NLREYLHWLVTDIPATTG 98 (175)
T ss_pred CcccEEEEEEeCCccccc
Confidence 578999999999998754
No 2
>KOG3346 consensus Phosphatidylethanolamine binding protein [General function prediction only]
Probab=99.96 E-value=3.1e-29 Score=178.04 Aligned_cols=89 Identities=42% Similarity=0.601 Sum_probs=83.1
Q ss_pred cCCCCceeCCeecccCCCCCCCeeEEEEeCC-cccCCCceeCCccCCCCCeEEEecC-CCCceEEEEEECC--------C
Q 041559 4 RERDPLIVGRVVGDVLDNFTRTIPMRITYSN-KDVNNGRELKPSEVLNQPRVEIGGD-DLRTFYTLVFYTV--------S 73 (94)
Q Consensus 4 ~~~~~l~~~~IiPdvl~~f~P~~~L~V~y~~-~~V~~G~~l~p~~~~~~P~V~~~~~-~~~~lyTLvMvDP--------~ 73 (94)
..++.+.+++|+||||+.+.|++.|+|.|++ ..|.+|++|+|++++.+|+|+|.+. +++++|||||+|| +
T Consensus 3 ~~~~~~~~~~iv~Dvl~~~~p~~~l~V~y~~~~~v~~G~~l~pt~~~~~P~v~~~~~a~~~~~yTLvm~DPDaPsr~~p~ 82 (185)
T KOG3346|consen 3 DIRDPLNKHRIVPDVLDDFEPSVKLNVTYNSDIVVENGNELTPTQVKNRPIVSWDGFADPGSLYTLVMTDPDAPSRSDPK 82 (185)
T ss_pred chhhhhhccCcchhhhccCCCceEEEEEeCCCeeecCCCEeCchhhccCCeEEEcCcCCCCCeEEEEEeCCCCCCCCCCc
Confidence 6789999999999999998999999999965 8899999999999999999999974 7899999999999 8
Q ss_pred CCeEEEEEEeCcCCCCCCC
Q 041559 74 ICCHCFRLVTDIPATTGAS 92 (94)
Q Consensus 74 ~~e~~HWlv~NIp~~~~~~ 92 (94)
++|||||||+|||+++..+
T Consensus 83 ~rE~lHWlV~nIPg~~~~~ 101 (185)
T KOG3346|consen 83 FREWLHWLVTNIPGTDGIS 101 (185)
T ss_pred ceeEEEEEEEeecCCcccc
Confidence 9999999999999998543
No 3
>cd00866 PEBP_euk PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in eukaryotes. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). The members in this subgroup are present in eukaryotes. Members here include those in plants such as Arabidopsis thaliana FLOWERING LOCUS (FT) and TERMINAL FLOWER1 (FT1) which function as a promoter and a repressor of the floral transitions, respectively as well as the mammalian Raf kinase inhibitory protein (RKIP) which inhibits MAP kinase (Raf-MEK-ERK), G protein-coupled receptor (GPCR) kinase and NFkappaB signaling cascades. Although their overall structures are similar, the members of the PEBP family have very different substrates and oligomerization states (monomer/dimer/tetramer).
Probab=99.66 E-value=4e-16 Score=106.33 Aligned_cols=64 Identities=30% Similarity=0.458 Sum_probs=57.8
Q ss_pred eEEEEeCC-cccCCCceeCCccCCCCCeEEEecCC-CCceEEEEEECC--------CCCeEEEEEEeCcCCCCC
Q 041559 27 PMRITYSN-KDVNNGRELKPSEVLNQPRVEIGGDD-LRTFYTLVFYTV--------SICCHCFRLVTDIPATTG 90 (94)
Q Consensus 27 ~L~V~y~~-~~V~~G~~l~p~~~~~~P~V~~~~~~-~~~lyTLvMvDP--------~~~e~~HWlv~NIp~~~~ 90 (94)
.|.|.|++ ..+.+|+.++++++..+|+|+|.... .++.|||+|+|| .+++|||||++|||++..
T Consensus 2 ~l~v~y~~~~~v~~G~~l~~~~~~~~P~i~~~~~~~~~~~y~lvm~DpD~p~~~~~~~~~~lHwl~~ni~~~~~ 75 (154)
T cd00866 2 DLTVSYGSSGVVTPGNLLTPSETQKAPTVSFSSEDPPDKLYTLVMVDPDAPSRDDPKFREWLHWLVTNIPGSDT 75 (154)
T ss_pred eEEEEECCCcCcCCCCCCCHHHhCcCCeEEEecCCCCCCeEEEEEECCCCCCCCCCCCCCEEEEEEeCcCCccc
Confidence 68999987 88999999999999999999999874 589999999999 458999999999998763
No 4
>PF01161 PBP: Phosphatidylethanolamine-binding protein; InterPro: IPR008914 The PEBP (PhosphatidylEthanolamine-Binding Protein) family is a highly conserved group of proteins that have been identified in numerous tissues in a wide variety of organisms, including bacteria, yeast, nematodes, plants, drosophila and mammals. The various functions described for members of this family include lipid binding, neuronal development [], serine protease inhibition [], the control of the morphological switch between shoot growth and flower structures [], and the regulation of several signalling pathways such as the MAP kinase pathway [], and the NF-kappaB pathway []. The control of the latter two pathways involves the PEBP protein RKIP, which interacts with MEK and Raf-1 to inhibit the MAP kinase pathway, and with TAK1, NIK, IKKalpha and IKKbeta to inhibit the NF-kappaB pathway. Other PEBP-like proteins that show strong structural homology to PEBP include Escherichia coli YBHB and YBCL, the Rattus norvegicus (Rat) neuropeptide HCNP, and Antirrhinum majus (Garden snapdragon) protein centroradialis (CEN). Structures have been determined for several members of the PEBP-like family, all of which show extensive fold conservation. The structure consists of a large central beta-sheet flanked by a smaller beta-sheet on one side, and an alpha helix on the other. Sequence alignments show two conserved central regions, CR1 and CR2, that form a consensus signature for the PEBP family. These two regions form part of the ligand-binding site, which can accommodate various anionic groups. The N- and C-terminal regions are the least conserved, and may be involved in interactions with different protein partners. The N-terminal residues 2-12 form the natural cleavage peptide HCNP involved in neuronal development. The C-terminal region is deleted in plant and bacterial PEBP homologues, and may help control accessibility to the active site. ; PDB: 1BD9_A 1BEH_A 2QYQ_A 2L7W_A 3AXY_A 2IQX_C 2IQY_A 1KN3_A 1FUX_A 1B7A_A ....
Probab=99.31 E-value=4.1e-12 Score=85.72 Aligned_cols=54 Identities=30% Similarity=0.388 Sum_probs=47.9
Q ss_pred eeEEEEe-CCcccCCCceeCCcc-CCCCCeEEEecCCCCceEEEEEECC--------CCCeEEEEEEeCcC
Q 041559 26 IPMRITY-SNKDVNNGRELKPSE-VLNQPRVEIGGDDLRTFYTLVFYTV--------SICCHCFRLVTDIP 86 (94)
Q Consensus 26 ~~L~V~y-~~~~V~~G~~l~p~~-~~~~P~V~~~~~~~~~lyTLvMvDP--------~~~e~~HWlv~NIp 86 (94)
..|.|.| ++..+.+|+.++|+. +...|+ ..+.|||+|+|| ..++|||||++|||
T Consensus 2 ~~L~v~f~~~~~~~~G~~~sp~~~~~~~P~-------~~~~y~lim~D~D~P~~~~~~~~~~~Hwl~~ni~ 65 (146)
T PF01161_consen 2 GKLPVKFTGNKSVCPGNNVSPPLSWQNAPT-------GTKSYTLIMVDPDAPSRENPSFGPFLHWLVTNIP 65 (146)
T ss_dssp CEEEEEECTTEECSTTEEEEGGGECSS-TC-------TTSEEEEEEEETTSSBTTSCTTTSEEEEEEEEEE
T ss_pred cCcCceeEcccccCCCCCCCcCcccccCCC-------CCcEEEEEEECCCCCccccCCCCcEEEEEEcCCC
Confidence 4789999 788899999999999 888887 477999999999 37999999999999
No 5
>cd00457 PEBP PhosphatidylEthanolamine-Binding Protein (PEBP) domain. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). A number of biological roles for members of the PEBP family include serine protease inhibition, membrane biogenesis, regulation of flowering plant stem architecture, and Raf-1 kinase inhibition. Although their overall structures are similar, the members of the PEBP family bind very different substrates including phospholipids, opioids, and hydrophobic odorant molecules as well as having different oligomerization states (monomer/dimer/tetramer).
Probab=99.05 E-value=4.7e-10 Score=77.67 Aligned_cols=54 Identities=28% Similarity=0.234 Sum_probs=44.8
Q ss_pred ccCC-CceeCC----ccCCCCCeEEEecCC-CCceEEEEEECC---CCCeEEEEEEeCcCCCC
Q 041559 36 DVNN-GRELKP----SEVLNQPRVEIGGDD-LRTFYTLVFYTV---SICCHCFRLVTDIPATT 89 (94)
Q Consensus 36 ~V~~-G~~l~p----~~~~~~P~V~~~~~~-~~~lyTLvMvDP---~~~e~~HWlv~NIp~~~ 89 (94)
.+.. |+.|++ ......|.++|++.. ..+.|+|+|+|| ..++|+||++.|||.+.
T Consensus 6 ~~~~~g~~lp~~~~~~g~~~sP~l~w~~~p~~t~s~ali~~DpDap~~~~~~HWvv~nIp~~~ 68 (159)
T cd00457 6 EVGPSGSVLPPEYSFEGVGRFPSLSWDGPPPDVKEYVLVMEDPDAPLGRPIVHGLVYGIPANK 68 (159)
T ss_pred CcCCCCCccChhhccCCCCcCCceEecCCCCCCeEEEEEEECCCCCCCCCceEEEEeccCccc
Confidence 5556 888877 667778999999864 467999999999 57899999999999875
No 6
>PRK10257 putative kinase inhibitor protein; Provisional
Probab=98.48 E-value=4.3e-07 Score=63.28 Aligned_cols=38 Identities=13% Similarity=0.219 Sum_probs=32.1
Q ss_pred CCeEEEecCCC-CceEEEEEECC---CCCeEEEEEEeCcCCC
Q 041559 51 QPRVEIGGDDL-RTFYTLVFYTV---SICCHCFRLVTDIPAT 88 (94)
Q Consensus 51 ~P~V~~~~~~~-~~lyTLvMvDP---~~~e~~HWlv~NIp~~ 88 (94)
.|.++|++..+ .+.|+|+|.|| ..+.|+||++.|||++
T Consensus 31 SP~L~w~~~P~~t~s~ali~~DpDap~~~~~~HWvv~nIP~~ 72 (158)
T PRK10257 31 SPHLAWDDVPAGTKSFVVTCYDPDAPTGSGWWHWVVVNLPAD 72 (158)
T ss_pred CceEEEcCCCCCceEEEEEEECCCCCCCCcEEEEEEEcCCCC
Confidence 68899998643 47999999999 5557999999999986
No 7
>cd00865 PEBP_bact_arch PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). The members in this subgroup are present in bacterial and archaea. Members here include Escherichia coli YBHB and YBCL which are thought to regulate protein phosphorylation as well as Sulfolobus solfataricus SsCEI which inhibits serine proteases alpha-chymotrypsin and elastase. Although their overall structures are similar, the members of the PEBP family have very different substrates and oligomerization states (monomer/dimer/tetramer). In a few of the bacterial members present here the dimerization interface is proposed to form the ligand binding site, unlike in other PEBP members.
Probab=98.43 E-value=4.6e-07 Score=62.00 Aligned_cols=39 Identities=18% Similarity=0.117 Sum_probs=33.6
Q ss_pred CCCeEEEecCC-CCceEEEEEECC---CCCeEEEEEEeCcCCC
Q 041559 50 NQPRVEIGGDD-LRTFYTLVFYTV---SICCHCFRLVTDIPAT 88 (94)
Q Consensus 50 ~~P~V~~~~~~-~~~lyTLvMvDP---~~~e~~HWlv~NIp~~ 88 (94)
..|.++|++.. ..+.|+|+|+|| ..++|+||++.|||.+
T Consensus 26 ~SP~l~w~~~p~~t~s~al~m~D~Dap~~~~~~HW~~~nIp~~ 68 (150)
T cd00865 26 VSPPLSWSGVPAGTKSLALIVEDPDAPTGGGFVHWVVWNIPAD 68 (150)
T ss_pred cCCCeEEcCCCCCCeEEEEEEEcCCCCCCCCEEEEEEeccCcc
Confidence 46889999863 467999999999 4789999999999986
No 8
>PRK09818 putative kinase inhibitor; Provisional
Probab=98.40 E-value=9.3e-07 Score=62.97 Aligned_cols=59 Identities=22% Similarity=0.415 Sum_probs=43.7
Q ss_pred EEEEeCCcccCCCceeCCccCC---------CCCeEEEecCCC-CceEEEEEECC---CCCeEEEEEEeCcCCC
Q 041559 28 MRITYSNKDVNNGRELKPSEVL---------NQPRVEIGGDDL-RTFYTLVFYTV---SICCHCFRLVTDIPAT 88 (94)
Q Consensus 28 L~V~y~~~~V~~G~~l~p~~~~---------~~P~V~~~~~~~-~~lyTLvMvDP---~~~e~~HWlv~NIp~~ 88 (94)
|+|+ +..+..|..|+...+. ..|.++|++... .+.|.|+|.|| ..+.|+||++.|||.+
T Consensus 22 ~~lt--S~~f~~G~~ip~~~~~~~~~~~G~n~SP~L~W~~~P~gtks~aLi~~DpDaP~g~~~~HWvv~nIP~~ 93 (183)
T PRK09818 22 FQVT--SNEIKTGEQLTTSHVFSGFGCEGGNTSPSLTWSGAPEGTKSFAVTVYDPDAPTGSGWWHWTVANIPAT 93 (183)
T ss_pred EEEE--CcCccCcCCCCHHHcccccCCCCCCcceeEEEccCCCCcEEEEEEEECCCCCCCCcEEEEEEEcCCCC
Confidence 5554 4456678777654322 469999998643 47899999999 4457999999999975
No 9
>COG1881 Phospholipid-binding protein [General function prediction only]
Probab=98.28 E-value=1.8e-06 Score=61.06 Aligned_cols=64 Identities=13% Similarity=0.086 Sum_probs=46.7
Q ss_pred CCeeEEEEe-CCcccCCCceeCCccC----CCCCeEEEecCC-CCceEEEEEECC---CCCeEEEEEEeCcCC
Q 041559 24 RTIPMRITY-SNKDVNNGRELKPSEV----LNQPRVEIGGDD-LRTFYTLVFYTV---SICCHCFRLVTDIPA 87 (94)
Q Consensus 24 P~~~L~V~y-~~~~V~~G~~l~p~~~----~~~P~V~~~~~~-~~~lyTLvMvDP---~~~e~~HWlv~NIp~ 87 (94)
+...+.+.. -+..+..|..+....+ ..-|.++|++.. ..+.|.|+|.|| +...|+||+|.|||.
T Consensus 16 ~~~~~~~~~~~s~~f~~g~~ip~~~t~~g~~~sPpl~ws~~P~~tkS~AL~v~DpDAP~g~~~~HWvv~nIp~ 88 (174)
T COG1881 16 IFAELAVMGLISNAFADGAPIPDEYTCGGPNISPPLSWSGVPEGTKSFALTVDDPDAPTGGGWVHWVVANIPA 88 (174)
T ss_pred cccccccccccchhhhCCCccchhhhcCCCCcCCceeecCCCCCCeeEEEEEECCCCCCCCcEEEEEEEccCC
Confidence 344444433 3556778877755543 345779998763 457899999999 689999999999997
No 10
>TIGR00481 Raf kinase inhibitor-like protein, YbhB/YbcL family.
Probab=98.13 E-value=6.3e-06 Score=56.28 Aligned_cols=39 Identities=21% Similarity=0.233 Sum_probs=31.6
Q ss_pred CCCeEEEecCCC-CceEEEEEECC---CCCeEEEEEEeCcCCC
Q 041559 50 NQPRVEIGGDDL-RTFYTLVFYTV---SICCHCFRLVTDIPAT 88 (94)
Q Consensus 50 ~~P~V~~~~~~~-~~lyTLvMvDP---~~~e~~HWlv~NIp~~ 88 (94)
..|.++|+...+ .+.|.|+|.|| ....|+||++.|||.+
T Consensus 14 ~SP~l~w~~~P~~t~s~al~~~D~Dap~~~~~~HWv~~nIp~~ 56 (141)
T TIGR00481 14 ISPPLSWDGVPEGAKSLALTCIDPDAPTGCGWWHWVVVNIPAD 56 (141)
T ss_pred CCcEEEEcCCCCCceEEEEEEECCCCCCCCCeEEEEEecCCCC
Confidence 378899997633 46999999999 3345999999999985
No 11
>KOG3586 consensus TBX1 and related T-box transcription factors [Transcription]
Probab=58.13 E-value=16 Score=29.37 Aligned_cols=47 Identities=19% Similarity=0.166 Sum_probs=30.5
Q ss_pred CCCceeCCccCC--CCCeE--EEecCCCCceEEEEE----ECC-CCCeEEE---EEEeC
Q 041559 38 NNGRELKPSEVL--NQPRV--EIGGDDLRTFYTLVF----YTV-SICCHCF---RLVTD 84 (94)
Q Consensus 38 ~~G~~l~p~~~~--~~P~V--~~~~~~~~~lyTLvM----vDP-~~~e~~H---Wlv~N 84 (94)
+.|.++--+++- --|+| +|.|-|+.+.|-++| ||- .||+-.| |||+.
T Consensus 95 ~lGTEMIITKsGRRMFPTvrV~~~GldP~a~Y~vlmDvVPvD~KRYRYayH~S~WlvAG 153 (437)
T KOG3586|consen 95 DLGTEMIITKSGRRMFPTVRVKFSGLDPMADYYVLMDVVPVDSKRYRYAYHSSSWLVAG 153 (437)
T ss_pred hcCceEEEecccccccceEEEEEecCCcccceEEEEeEEecccceeeeeecccceeeec
Confidence 577776555543 34775 556667877776655 333 7777777 99975
No 12
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=53.46 E-value=17 Score=24.67 Aligned_cols=23 Identities=22% Similarity=0.328 Sum_probs=20.4
Q ss_pred CCCCeEEEecCCCCceEEEEEECC
Q 041559 49 LNQPRVEIGGDDLRTFYTLVFYTV 72 (94)
Q Consensus 49 ~~~P~V~~~~~~~~~lyTLvMvDP 72 (94)
..+|.|+|.+. ++.--||.+.||
T Consensus 97 ~i~P~vRF~Ge-~gEq~TlFl~DP 119 (138)
T COG3565 97 HIPPKVRFKGE-PGEQRTLFLFDP 119 (138)
T ss_pred ccCceEEecCC-ccceEEEEEECC
Confidence 36899999995 788999999999
No 13
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=51.96 E-value=57 Score=20.77 Aligned_cols=17 Identities=12% Similarity=0.077 Sum_probs=12.2
Q ss_pred EEEecCCCCceEEEEEEC
Q 041559 54 VEIGGDDLRTFYTLVFYT 71 (94)
Q Consensus 54 V~~~~~~~~~lyTLvMvD 71 (94)
+++++ .+++..+|.+||
T Consensus 114 ~~i~~-~~~s~v~l~~VD 130 (136)
T PF07703_consen 114 LRIKA-PPNSLVGLSAVD 130 (136)
T ss_dssp EEEEE-STTEEEEEEEEE
T ss_pred EEEEe-CCCCEEEEEEeE
Confidence 45555 467888888887
No 14
>PRK04243 50S ribosomal protein L15e; Validated
Probab=30.77 E-value=41 Score=24.44 Aligned_cols=21 Identities=5% Similarity=0.056 Sum_probs=16.7
Q ss_pred ceEEEEEECC-----CCCeEEEEEEe
Q 041559 63 TFYTLVFYTV-----SICCHCFRLVT 83 (94)
Q Consensus 63 ~lyTLvMvDP-----~~~e~~HWlv~ 83 (94)
.+|-+||||| ....-+.|+..
T Consensus 128 K~fEVIlVDp~H~aIr~Dp~~nWI~~ 153 (196)
T PRK04243 128 KWYEVILVDPHHPAIKNDPDLNWICD 153 (196)
T ss_pred ccEEEEEecCCCcchhcCcccceecc
Confidence 6899999999 55666788763
No 15
>PTZ00026 60S ribosomal protein L15; Provisional
Probab=28.79 E-value=42 Score=24.51 Aligned_cols=21 Identities=10% Similarity=0.123 Sum_probs=16.4
Q ss_pred ceEEEEEECC-----CCCeEEEEEEe
Q 041559 63 TFYTLVFYTV-----SICCHCFRLVT 83 (94)
Q Consensus 63 ~lyTLvMvDP-----~~~e~~HWlv~ 83 (94)
.+|-+||||| ....-+.|+..
T Consensus 128 K~yEVILvDp~H~aIr~Dp~~nWI~~ 153 (204)
T PTZ00026 128 KFYEVILVDPFHNAIRNDPRINWICN 153 (204)
T ss_pred ccEEEEEecCCCccceeCcccceecc
Confidence 6999999999 45566778764
No 16
>PF12058 DUF3539: Protein of unknown function (DUF3539); InterPro: IPR021926 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved NHP sequence motif. ; PDB: 3N5B_B 2XKO_C 2XG8_F.
Probab=23.02 E-value=1.9e+02 Score=18.39 Aligned_cols=27 Identities=22% Similarity=0.130 Sum_probs=21.8
Q ss_pred CceEEEEEECC-------CCCeEEEEEEeCcCCC
Q 041559 62 RTFYTLVFYTV-------SICCHCFRLVTDIPAT 88 (94)
Q Consensus 62 ~~lyTLvMvDP-------~~~e~~HWlv~NIp~~ 88 (94)
|-+|-+.++|. -|.+.+-+||+..|.+
T Consensus 12 GlLy~Vc~~~e~~~lfaTLYAQRlFFLVt~~~~g 45 (88)
T PF12058_consen 12 GLLYRVCPVDEGQELFATLYAQRLFFLVTLQPRG 45 (88)
T ss_dssp EEEEEEEEECTTEEEEEESSCC--EEEEECSSSS
T ss_pred chheeeeeCCCccHHHHHHHHHHhheEEEecCCC
Confidence 56899999998 7899999999999876
No 17
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=22.56 E-value=13 Score=22.40 Aligned_cols=23 Identities=13% Similarity=-0.029 Sum_probs=16.9
Q ss_pred EEEEECCCCCeEEEEEEeCcCCC
Q 041559 66 TLVFYTVSICCHCFRLVTDIPAT 88 (94)
Q Consensus 66 TLvMvDP~~~e~~HWlv~NIp~~ 88 (94)
-++++||..++.--|+-.++||.
T Consensus 35 ~v~i~dPe~S~vAk~~~i~~pG~ 57 (64)
T PRK06393 35 FLIITEPEGSAIAKRAGITEPGM 57 (64)
T ss_pred EEEEECCchhHHHHHhCCCCCCe
Confidence 47777997677777877777763
No 18
>PF11963 DUF3477: Protein of unknown function (DUF3477); InterPro: IPR022570 This entry represents the N-terminal region of the coronovirus polyprotein, which contains non-structural protein 1 (Nsp1); the function of Nsp1 is not known.
Probab=22.46 E-value=1.1e+02 Score=23.96 Aligned_cols=21 Identities=14% Similarity=0.028 Sum_probs=17.7
Q ss_pred ceEEEEEECC-----CCCeEEEEEEe
Q 041559 63 TFYTLVFYTV-----SICCHCFRLVT 83 (94)
Q Consensus 63 ~lyTLvMvDP-----~~~e~~HWlv~ 83 (94)
--|-|-|+|| ..+.|+-|+|-
T Consensus 148 Va~qL~~i~p~g~clG~g~fiGW~vP 173 (355)
T PF11963_consen 148 VAYQLFMIDPDGVCLGAGRFIGWFVP 173 (355)
T ss_pred eeEEEEEecCCceeecCCcEEEEEee
Confidence 4799999999 66789999873
No 19
>PF01781 Ribosomal_L38e: Ribosomal L38e protein family; InterPro: IPR002675 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 [, ]. Ribosomal protein L38e forms part of the 60S ribosomal subunit []. This family is found in eukaryotes.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZS_n 3IZR_n 4A1D_P 4A19_P 4A18_P 4A1B_P.
Probab=21.96 E-value=28 Score=21.18 Aligned_cols=19 Identities=26% Similarity=0.195 Sum_probs=11.1
Q ss_pred EEEecCCCCceEEEEEECC
Q 041559 54 VEIGGDDLRTFYTLVFYTV 72 (94)
Q Consensus 54 V~~~~~~~~~lyTLvMvDP 72 (94)
+.|...-..-+|||++.|.
T Consensus 32 tKFKvRcsryLYTLvv~d~ 50 (69)
T PF01781_consen 32 TKFKVRCSRYLYTLVVKDK 50 (69)
T ss_dssp EEEEEECSS-EEEESS-SH
T ss_pred eEEEEEecceEEEEEEcCH
Confidence 3443322467999999986
No 20
>KOG1678 consensus 60s ribosomal protein L15 [Translation, ribosomal structure and biogenesis]
Probab=21.23 E-value=63 Score=23.20 Aligned_cols=20 Identities=0% Similarity=0.051 Sum_probs=14.1
Q ss_pred ceEEEEEECC-----CCCeEEEEEE
Q 041559 63 TFYTLVFYTV-----SICCHCFRLV 82 (94)
Q Consensus 63 ~lyTLvMvDP-----~~~e~~HWlv 82 (94)
++|-+||||| .-..-..|+.
T Consensus 128 k~fEVIlvDp~h~aIRrdp~~nwI~ 152 (204)
T KOG1678|consen 128 KYFEVILVDPFHKAIRRDPRINWIC 152 (204)
T ss_pred eeEEEEEECcHHHHHhcCCCccccc
Confidence 6999999999 3344456654
No 21
>PTZ00181 60S ribosomal protein L38; Provisional
Probab=20.14 E-value=66 Score=20.24 Aligned_cols=12 Identities=42% Similarity=0.462 Sum_probs=10.5
Q ss_pred CCceEEEEEECC
Q 041559 61 LRTFYTLVFYTV 72 (94)
Q Consensus 61 ~~~lyTLvMvDP 72 (94)
..-+|||++-|.
T Consensus 39 srYLYTLvv~D~ 50 (82)
T PTZ00181 39 SRYLYTLVVADK 50 (82)
T ss_pred cceEEEEEeCCH
Confidence 467999999997
Done!