Query psy6916
Match_columns 105
No_of_seqs 102 out of 1053
Neff 7.7
Searched_HMMs 46136
Date Fri Aug 16 21:42:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6916.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6916hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3346|consensus 100.0 1.6E-36 3.5E-41 209.8 10.7 102 2-104 19-123 (185)
2 PLN00169 CETS family protein; 100.0 5.5E-30 1.2E-34 176.7 10.5 99 2-104 20-120 (175)
3 cd00866 PEBP_euk PhosphatidylE 100.0 1.6E-28 3.5E-33 165.5 10.8 97 8-105 1-104 (154)
4 PF01161 PBP: Phosphatidyletha 99.9 7.1E-24 1.5E-28 141.7 6.6 90 8-104 2-104 (146)
5 cd00457 PEBP PhosphatidylEthan 99.8 1.4E-20 3.1E-25 128.1 7.7 81 20-105 6-116 (159)
6 PRK09818 putative kinase inhib 99.8 2.9E-18 6.2E-23 119.1 8.1 83 18-105 26-140 (183)
7 COG1881 Phospholipid-binding p 99.8 2.2E-18 4.8E-23 118.8 6.8 82 18-105 27-131 (174)
8 PRK10257 putative kinase inhib 99.7 1.2E-17 2.5E-22 113.8 8.1 82 18-105 5-117 (158)
9 cd00865 PEBP_bact_arch Phospha 99.7 4.5E-17 9.9E-22 109.8 7.4 80 20-105 6-111 (150)
10 TIGR00481 Raf kinase inhibitor 99.6 8.4E-16 1.8E-20 102.9 6.5 65 34-105 14-101 (141)
11 PRK04243 50S ribosomal protein 55.3 16 0.00036 25.8 3.1 39 34-75 109-154 (196)
12 PTZ00026 60S ribosomal protein 50.2 21 0.00045 25.4 3.0 39 34-75 109-154 (204)
13 KOG3586|consensus 49.7 23 0.00049 27.9 3.3 51 22-75 95-153 (437)
14 COG1632 RPL15A Ribosomal prote 42.4 39 0.00084 23.9 3.3 41 34-77 108-155 (195)
15 PF06832 BiPBP_C: Penicillin-B 36.8 82 0.0018 18.6 3.9 15 44-58 69-83 (89)
16 COG3565 Predicted dioxygenase 32.5 68 0.0015 21.2 3.0 28 34-61 98-125 (138)
17 PRK14751 tetracycline resistan 30.1 36 0.00078 16.2 1.1 9 64-72 13-21 (28)
18 COG1779 C4-type Zn-finger prot 25.6 59 0.0013 23.2 2.0 15 46-60 153-167 (201)
19 PF00827 Ribosomal_L15e: Ribos 25.5 37 0.0008 24.0 1.0 39 35-76 109-154 (192)
20 KOG1678|consensus 25.4 44 0.00096 23.2 1.4 25 46-74 128-153 (204)
21 PF02757 YLP: YLP motif; Inte 24.8 38 0.00083 12.1 0.5 7 88-94 2-8 (9)
22 PF10349 WWbp: WW-domain ligan 22.3 33 0.00072 22.0 0.3 27 3-30 4-30 (116)
23 PF07703 A2M_N_2: Alpha-2-macr 22.2 1.5E+02 0.0032 18.5 3.4 12 3-14 61-72 (136)
24 PLN03213 repressor of silencin 20.6 48 0.001 27.2 0.9 13 92-104 131-143 (759)
No 1
>KOG3346|consensus
Probab=100.00 E-value=1.6e-36 Score=209.78 Aligned_cols=102 Identities=53% Similarity=0.965 Sum_probs=96.6
Q ss_pred CCCccceeEEEEEcCCCeeecCCCccCchhhccCCeEEEEc--CCCCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCC
Q psy6916 2 VGLVANGSMLITYNSGKLKVDQGNTLTPSDLKQAPEVTWNA--DSSSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGS 79 (105)
Q Consensus 2 ~~f~P~~~L~v~y~~~~~~v~~G~~l~~~~t~~~P~i~~~~--~~~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~ 79 (105)
..+.|++.|+|+| .++..|.+|+.|+++++++.|+|+|.+ ..+++|||||+|||||+++++++++|||||++||+++
T Consensus 19 ~~~~p~~~l~V~y-~~~~~v~~G~~l~pt~~~~~P~v~~~~~a~~~~~yTLvm~DPDaPsr~~p~~rE~lHWlV~nIPg~ 97 (185)
T KOG3346|consen 19 DDFEPSVKLNVTY-NSDIVVENGNELTPTQVKNRPIVSWDGFADPGSLYTLVMTDPDAPSRSDPKFREWLHWLVTNIPGT 97 (185)
T ss_pred ccCCCceEEEEEe-CCCeeecCCCEeCchhhccCCeEEEcCcCCCCCeEEEEEeCCCCCCCCCCcceeEEEEEEEeecCC
Confidence 4567999999999 556899999999999999999999994 6789999999999999999999999999999999999
Q ss_pred C-CCCCcccccccCCCCCCCCCCCcC
Q psy6916 80 Q-ISRGQTITPYAGPTPPKGTGTYIQ 104 (105)
Q Consensus 80 ~-~~~g~~~~~Y~~P~Pp~gtg~HRy 104 (105)
+ ++.|++++.|++|.||+|+|.|||
T Consensus 98 ~~~~~G~~i~~Y~~P~Pp~~tG~HRy 123 (185)
T KOG3346|consen 98 DGISKGQEISEYLGPGPPKGTGLHRY 123 (185)
T ss_pred ccccCCeEeeeeeCCCCCCCCCceEE
Confidence 7 999999999999999999999998
No 2
>PLN00169 CETS family protein; Provisional
Probab=99.97 E-value=5.5e-30 Score=176.71 Aligned_cols=99 Identities=38% Similarity=0.682 Sum_probs=90.4
Q ss_pred CCCccceeEEEEEcCCCeeecCCCccCchhhccCCeEEEEcC-CCCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCCC
Q psy6916 2 VGLVANGSMLITYNSGKLKVDQGNTLTPSDLKQAPEVTWNAD-SSSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGSQ 80 (105)
Q Consensus 2 ~~f~P~~~L~v~y~~~~~~v~~G~~l~~~~t~~~P~i~~~~~-~~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~~ 80 (105)
+.|.|+..|+|+| ++..|.+|+.|++++|+.+|+|+|.+. .+++|||+|+|||+|++.++++++||||++.||+++.
T Consensus 20 d~f~P~~~L~V~y--~s~~V~~G~~l~p~~t~~~P~i~~~~~~~~~~ytlim~DpDaP~~~~~~~~~~~HW~v~nip~~~ 97 (175)
T PLN00169 20 DPFTRSISLRVTY--GSREVNNGCELKPSQVVNQPRVDIGGEDLRTFYTLVMVDPDAPSPSNPNLREYLHWLVTDIPATT 97 (175)
T ss_pred CCcCCceEEEEEE--CCcCcCCcCCCCHHHhccCCEEEEccCCCCceeEEEEECCCCCCCCCCCcccEEEEEEeCCcccc
Confidence 4699999999999 667899999999999999999999864 4699999999999999999999999999999999884
Q ss_pred -CCCCcccccccCCCCCCCCCCCcC
Q psy6916 81 -ISRGQTITPYAGPTPPKGTGTYIQ 104 (105)
Q Consensus 81 -~~~g~~~~~Y~~P~Pp~gtg~HRy 104 (105)
...|+++++|+||.|+. |+|||
T Consensus 98 ~~~~g~~~~~Y~~P~Pp~--G~HRY 120 (175)
T PLN00169 98 GATFGQEVVCYESPRPTA--GIHRF 120 (175)
T ss_pred ccccCccceeecCCCCCC--CceeE
Confidence 45788999999999985 68999
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=99.96 E-value=1.6e-28 Score=165.54 Aligned_cols=97 Identities=51% Similarity=0.948 Sum_probs=87.6
Q ss_pred eeEEEEEcCCCeeecCCCccCchhhccCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCCC-----
Q psy6916 8 GSMLITYNSGKLKVDQGNTLTPSDLKQAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGSQ----- 80 (105)
Q Consensus 8 ~~L~v~y~~~~~~v~~G~~l~~~~t~~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~~----- 80 (105)
..|.|+| +++..|.+|+.|++++++.+|+|+|.... +++|+|+|+|||+|.+.++.++++||||++||+++.
T Consensus 1 ~~l~v~y-~~~~~v~~G~~l~~~~~~~~P~i~~~~~~~~~~~y~lvm~DpD~p~~~~~~~~~~lHwl~~ni~~~~~~~~~ 79 (154)
T cd00866 1 VDLTVSY-GSSGVVTPGNLLTPSETQKAPTVSFSSEDPPDKLYTLVMVDPDAPSRDDPKFREWLHWLVTNIPGSDTTTGL 79 (154)
T ss_pred CeEEEEE-CCCcCcCCCCCCCHHHhCcCCeEEEecCCCCCCeEEEEEECCCCCCCCCCCCCCEEEEEEeCcCCccccccc
Confidence 3689999 33478999999999999999999998865 699999999999999998899999999999999885
Q ss_pred CCCCcccccccCCCCCCCCCCCcCC
Q psy6916 81 ISRGQTITPYAGPTPPKGTGTYIQE 105 (105)
Q Consensus 81 ~~~g~~~~~Y~~P~Pp~gtg~HRy~ 105 (105)
...+..+++|++|+|++|+|+|||.
T Consensus 80 ~~~~~~~~~Y~~P~Pp~g~g~HRY~ 104 (154)
T cd00866 80 VSKGEVLVPYLGPGPPKGTGPHRYV 104 (154)
T ss_pred cCCCCCcceeeCCCCCCCCCCccEE
Confidence 4467899999999999999999993
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=99.90 E-value=7.1e-24 Score=141.67 Aligned_cols=90 Identities=48% Similarity=0.896 Sum_probs=73.6
Q ss_pred eeEEEEEcCCCeeecCCCccCchh-hccCCeEEEEcCCCCeeEEEEeCCCCCCCCCCCCceeeEEEEEccC---------
Q psy6916 8 GSMLITYNSGKLKVDQGNTLTPSD-LKQAPEVTWNADSSSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIP--------- 77 (105)
Q Consensus 8 ~~L~v~y~~~~~~v~~G~~l~~~~-t~~~P~i~~~~~~~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~--------- 77 (105)
..|.|.| .++..+..|+.++++. ++..|+ ..++|+|+|+|+|+|.+.+++.+++||||++||+
T Consensus 2 ~~L~v~f-~~~~~~~~G~~~sp~~~~~~~P~------~~~~y~lim~D~D~P~~~~~~~~~~~Hwl~~ni~~~~~~~~~~ 74 (146)
T PF01161_consen 2 GKLPVKF-TGNKSVCPGNNVSPPLSWQNAPT------GTKSYTLIMVDPDAPSRENPSFGPFLHWLVTNIPSTELPEGSD 74 (146)
T ss_dssp CEEEEEE-CTTEECSTTEEEEGGGECSS-TC------TTSEEEEEEEETTSSBTTSCTTTSEEEEEEEEEETSEE-TTSS
T ss_pred cCcCcee-EcccccCCCCCCCcCcccccCCC------CCcEEEEEEECCCCCccccCCCCcEEEEEEcCCCCccCCCCCC
Confidence 4689999 4568899999999999 888888 6789999999999999888888999999999999
Q ss_pred C--CCC-CCCcccccccCCCCCCCCCCCcC
Q psy6916 78 G--SQI-SRGQTITPYAGPTPPKGTGTYIQ 104 (105)
Q Consensus 78 ~--~~~-~~g~~~~~Y~~P~Pp~gtg~HRy 104 (105)
. ... +.|+.+++|+||+|++|+|.|||
T Consensus 75 ~~~~~~~~~g~~~~~Y~~P~Pp~g~g~HrY 104 (146)
T PF01161_consen 75 GARQGINSSGQVIAPYLGPCPPKGSGPHRY 104 (146)
T ss_dssp TCETSBGGTSEEEES--SB-SSTTSSCEEE
T ss_pred ccEecccccCccccEEcCCcCcCcCCCceE
Confidence 1 011 12556899999999999999999
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=99.83 E-value=1.4e-20 Score=128.09 Aligned_cols=81 Identities=38% Similarity=0.653 Sum_probs=64.7
Q ss_pred eecC-CCccCc----hhhccCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCCC--CCC-------
Q psy6916 20 KVDQ-GNTLTP----SDLKQAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGSQ--ISR------- 83 (105)
Q Consensus 20 ~v~~-G~~l~~----~~t~~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~~--~~~------- 83 (105)
.|.. |+.|+. .....+|.|+|+..+ .++|+|+|+|||+|. .++|+||+++||+.+. +..
T Consensus 6 ~~~~~g~~lp~~~~~~g~~~sP~l~w~~~p~~t~s~ali~~DpDap~-----~~~~~HWvv~nIp~~~~~~~~~~~~~~~ 80 (159)
T cd00457 6 EVGPSGSVLPPEYSFEGVGRFPSLSWDGPPPDVKEYVLVMEDPDAPL-----GRPIVHGLVYGIPANKTSLSNDDFVVTD 80 (159)
T ss_pred CcCCCCCccChhhccCCCCcCCceEecCCCCCCeEEEEEEECCCCCC-----CCCceEEEEeccCcccccccccccccCC
Confidence 5666 999999 555569999999865 589999999999993 2689999999999873 111
Q ss_pred ----Cc----------ccccccCCCCCCCCCCCcCC
Q psy6916 84 ----GQ----------TITPYAGPTPPKGTGTYIQE 105 (105)
Q Consensus 84 ----g~----------~~~~Y~~P~Pp~gtg~HRy~ 105 (105)
+. ..+.|.||+||+|+|.|||.
T Consensus 81 ~~~~~~~~~n~~g~~~~~~~Y~GP~PP~G~g~HrY~ 116 (159)
T cd00457 81 NGKGGLQGGFKYGKNRGGTVYIGPRPPLGHGPHRYF 116 (159)
T ss_pred CCccceeccccccccCCCcCCcCCCCCCCCCCeeEE
Confidence 11 23499999999999999993
No 6
>PRK09818 putative kinase inhibitor; Provisional
Probab=99.76 E-value=2.9e-18 Score=119.13 Aligned_cols=83 Identities=30% Similarity=0.675 Sum_probs=66.1
Q ss_pred CeeecCCCccCchhhc---------cCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCC--CCCC-
Q psy6916 18 KLKVDQGNTLTPSDLK---------QAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGS--QISR- 83 (105)
Q Consensus 18 ~~~v~~G~~l~~~~t~---------~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~--~~~~- 83 (105)
+..+..|..|+.+++. .+|.|+|...+ .++|+|+|.|||+|.. ..|+||+++||+++ .+..
T Consensus 26 S~~f~~G~~ip~~~~~~~~~~~G~n~SP~L~W~~~P~gtks~aLi~~DpDaP~g-----~~~~HWvv~nIP~~~~~l~eg 100 (183)
T PRK09818 26 SNEIKTGEQLTTSHVFSGFGCEGGNTSPSLTWSGAPEGTKSFAVTVYDPDAPTG-----SGWWHWTVANIPATVTYLPAD 100 (183)
T ss_pred CcCccCcCCCCHHHcccccCCCCCCcceeEEEccCCCCcEEEEEEEECCCCCCC-----CcEEEEEEEcCCCCccccCCC
Confidence 4567899999987543 48999999865 4899999999999864 47999999999976 2211
Q ss_pred -----------Cc-------ccccccCCCCCCCCCCCcCC
Q psy6916 84 -----------GQ-------TITPYAGPTPPKGTGTYIQE 105 (105)
Q Consensus 84 -----------g~-------~~~~Y~~P~Pp~gtg~HRy~ 105 (105)
|. ....|.||+||.|+|.|||.
T Consensus 101 ~~~~~~~~~~~g~~~g~N~~g~~gY~GP~PP~G~g~HrY~ 140 (183)
T PRK09818 101 AGRRDGTKLPTGAVQGRNDFGYAGFGGACPPKGDKPHHYQ 140 (183)
T ss_pred CcccccccCCCCCEEeecCCCCCceECCCCccCCCCEEEE
Confidence 11 24689999999999999994
No 7
>COG1881 Phospholipid-binding protein [General function prediction only]
Probab=99.75 E-value=2.2e-18 Score=118.79 Aligned_cols=82 Identities=30% Similarity=0.658 Sum_probs=66.8
Q ss_pred CeeecCCCccCchhhc----cCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCC--CCCCC-----
Q psy6916 18 KLKVDQGNTLTPSDLK----QAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGS--QISRG----- 84 (105)
Q Consensus 18 ~~~v~~G~~l~~~~t~----~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~--~~~~g----- 84 (105)
+..+..|+.++.+.|. .+|.|+|++.+ .++|+|+|.|||||.. ..|+||++.||++. .+..+
T Consensus 27 s~~f~~g~~ip~~~t~~g~~~sPpl~ws~~P~~tkS~AL~v~DpDAP~g-----~~~~HWvv~nIp~~~~~~~~~~~~~~ 101 (174)
T COG1881 27 SNAFADGAPIPDEYTCGGPNISPPLSWSGVPEGTKSFALTVDDPDAPTG-----GGWVHWVVANIPADVTELPEGSGPKS 101 (174)
T ss_pred chhhhCCCccchhhhcCCCCcCCceeecCCCCCCeeEEEEEECCCCCCC-----CcEEEEEEEccCCccccccccccccc
Confidence 5678999999999875 49999999864 4899999999999973 69999999999973 22111
Q ss_pred ----------cccccccCCCCCCCCCCCcCC
Q psy6916 85 ----------QTITPYAGPTPPKGTGTYIQE 105 (105)
Q Consensus 85 ----------~~~~~Y~~P~Pp~gtg~HRy~ 105 (105)
-.-..|.||+||+|+| |||+
T Consensus 102 ~~~~~qg~Nd~g~~~Y~Gp~PP~g~~-HrY~ 131 (174)
T COG1881 102 KIGIVQGINDFGSRGYGGPCPPKGHG-HRYY 131 (174)
T ss_pred ccceEEeeccccccCcccCCCCCCCC-eEEE
Confidence 1345699999999999 9995
No 8
>PRK10257 putative kinase inhibitor protein; Provisional
Probab=99.74 E-value=1.2e-17 Score=113.77 Aligned_cols=82 Identities=29% Similarity=0.647 Sum_probs=65.4
Q ss_pred CeeecCCCccCchhhc---------cCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCC--CCCC-
Q psy6916 18 KLKVDQGNTLTPSDLK---------QAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGS--QISR- 83 (105)
Q Consensus 18 ~~~v~~G~~l~~~~t~---------~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~--~~~~- 83 (105)
+..+..|..|+.+.+. .+|.|+|.+.+ .++|+|+|+|||+|.. ..|+||+++||+++ .+..
T Consensus 5 S~~f~~g~~ip~~~~~~~~~~~G~n~SP~L~w~~~P~~t~s~ali~~DpDap~~-----~~~~HWvv~nIP~~~~~l~eg 79 (158)
T PRK10257 5 SNDLRDGDKLPHRHVFNGMGYDGDNISPHLAWDDVPAGTKSFVVTCYDPDAPTG-----SGWWHWVVVNLPADTRVLPQG 79 (158)
T ss_pred ccCccCcCCCCHHHcccccCCCCCCCCceEEEcCCCCCceEEEEEEECCCCCCC-----CcEEEEEEEcCCCCcccccCC
Confidence 4467889999987765 38999999876 3899999999999864 47999999999976 2221
Q ss_pred ----------Cc-------ccccccCCCCCCCCCCCcCC
Q psy6916 84 ----------GQ-------TITPYAGPTPPKGTGTYIQE 105 (105)
Q Consensus 84 ----------g~-------~~~~Y~~P~Pp~gtg~HRy~ 105 (105)
|. ....|.||+||.|. .|||.
T Consensus 80 ~~~~~~~~p~g~~~g~n~~g~~gY~GP~PP~g~-~HrY~ 117 (158)
T PRK10257 80 FGSGLVALPDGVLQTRTDFGKAGYGGAAPPKGE-THRYI 117 (158)
T ss_pred CCcccccCCCCceeccccCCCccCcCCCCccCC-CceEE
Confidence 21 25689999999997 69994
No 9
>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=99.70 E-value=4.5e-17 Score=109.79 Aligned_cols=80 Identities=28% Similarity=0.577 Sum_probs=64.3
Q ss_pred eecCCCccCchh--hc----cCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCC--CCCCC-----
Q psy6916 20 KVDQGNTLTPSD--LK----QAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGS--QISRG----- 84 (105)
Q Consensus 20 ~v~~G~~l~~~~--t~----~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~--~~~~g----- 84 (105)
.+..|..++.+. +. .+|.|+|.+.+ .++|+|+|+|+|+|. ..+|+||+++||+.+ .+..|
T Consensus 6 ~~~~g~~~p~~~~~~~~g~~~SP~l~w~~~p~~t~s~al~m~D~Dap~-----~~~~~HW~~~nIp~~~~~i~~g~~~~~ 80 (150)
T cd00865 6 AFFDGGPIPKKYAFTCDGENVSPPLSWSGVPAGTKSLALIVEDPDAPT-----GGGFVHWVVWNIPADTTELPEGASRGA 80 (150)
T ss_pred cccCcCCCChhhcccCCCCCcCCCeEEcCCCCCCeEEEEEEEcCCCCC-----CCCEEEEEEeccCcccccccCCccccc
Confidence 445588888887 55 49999999875 589999999999993 269999999999986 33322
Q ss_pred -----------cccccccCCCCCCCCCCCcCC
Q psy6916 85 -----------QTITPYAGPTPPKGTGTYIQE 105 (105)
Q Consensus 85 -----------~~~~~Y~~P~Pp~gtg~HRy~ 105 (105)
.....|.||+||. ++.|||.
T Consensus 81 ~~~~~~~g~n~~~~~~Y~gP~Pp~-~~~HrY~ 111 (150)
T cd00865 81 LPAGAVQGRNDFGEAGYGGPCPPD-GGPHRYV 111 (150)
T ss_pred CCCCCeEeecCCCCCeecCCCCcC-CCceEEE
Confidence 1468999999999 7899994
No 10
>TIGR00481 Raf kinase inhibitor-like protein, YbhB/YbcL family.
Probab=99.63 E-value=8.4e-16 Score=102.92 Aligned_cols=65 Identities=37% Similarity=0.758 Sum_probs=52.0
Q ss_pred cCCeEEEEcCC--CCeeEEEEeCCCCCCCCCCCCceeeEEEEEccCCC--CCCC-----------C--------cccccc
Q psy6916 34 QAPEVTWNADS--SSYYTLVMTDPDAPSRQNPKAREWRHWLVVNIPGS--QISR-----------G--------QTITPY 90 (105)
Q Consensus 34 ~~P~i~~~~~~--~~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~~~--~~~~-----------g--------~~~~~Y 90 (105)
.+|.|+|...+ .++|+|+|+|+|+|... .|+||+++||+++ .+.. | -....|
T Consensus 14 ~SP~l~w~~~P~~t~s~al~~~D~Dap~~~-----~~~HWv~~nIp~~~~~l~e~~~~~~~~~~~g~~~~g~n~~g~~~Y 88 (141)
T TIGR00481 14 ISPPLSWDGVPEGAKSLALTCIDPDAPTGC-----GWWHWVVVNIPADTTVLPENASSDDKRLPQGVPLQGRNDFGKSGY 88 (141)
T ss_pred CCcEEEEcCCCCCceEEEEEEECCCCCCCC-----CeEEEEEecCCCCcccccCCccccccccCCcceeEeeccCCCccE
Confidence 49999999864 48999999999998753 4999999999984 2211 1 025799
Q ss_pred cCCCCCCCCCCCcCC
Q psy6916 91 AGPTPPKGTGTYIQE 105 (105)
Q Consensus 91 ~~P~Pp~gtg~HRy~ 105 (105)
.||+||.|+ |||+
T Consensus 89 ~GP~PP~g~--HrY~ 101 (141)
T TIGR00481 89 IGPCPPKGD--HRYL 101 (141)
T ss_pred eCCCCcCCC--EEEE
Confidence 999999997 9995
No 11
>PRK04243 50S ribosomal protein L15e; Validated
Probab=55.33 E-value=16 Score=25.81 Aligned_cols=39 Identities=18% Similarity=0.498 Sum_probs=27.3
Q ss_pred cCCeEEEEc-----CCC--CeeEEEEeCCCCCCCCCCCCceeeEEEEEc
Q psy6916 34 QAPEVTWNA-----DSS--SYYTLVMTDPDAPSRQNPKAREWRHWLVVN 75 (105)
Q Consensus 34 ~~P~i~~~~-----~~~--~~ytlimvDpD~p~~~~~~~~~~lHwl~~n 75 (105)
..|.+.+-+ +.+ +.|-||||||.-|.-.+ ..-+.|+...
T Consensus 109 k~~nlrVLNSYwV~qDg~yK~fEVIlVDp~H~aIr~---Dp~~nWI~~~ 154 (196)
T PRK04243 109 KYPNLEVLNSYWVGEDGKYKWYEVILVDPHHPAIKN---DPDLNWICDK 154 (196)
T ss_pred cCCCcEeeeeeEeccCCCcccEEEEEecCCCcchhc---Ccccceeccc
Confidence 377776643 222 78999999999987543 3568888743
No 12
>PTZ00026 60S ribosomal protein L15; Provisional
Probab=50.21 E-value=21 Score=25.43 Aligned_cols=39 Identities=15% Similarity=0.357 Sum_probs=27.4
Q ss_pred cCCeEEEEc-----CCC--CeeEEEEeCCCCCCCCCCCCceeeEEEEEc
Q psy6916 34 QAPEVTWNA-----DSS--SYYTLVMTDPDAPSRQNPKAREWRHWLVVN 75 (105)
Q Consensus 34 ~~P~i~~~~-----~~~--~~ytlimvDpD~p~~~~~~~~~~lHwl~~n 75 (105)
..|.+.+-+ +.+ +.|-||||||.-|.-.+ ..-+.|+...
T Consensus 109 k~~nLrVLNSYWV~qDg~yK~yEVILvDp~H~aIr~---Dp~~nWI~~~ 154 (204)
T PTZ00026 109 RCGNLRVLNSYWVGQDSTYKFYEVILVDPFHNAIRN---DPRINWICNP 154 (204)
T ss_pred cCCCcEEecceeEcCCCCcccEEEEEecCCCcccee---Ccccceeccc
Confidence 477776543 222 79999999999887543 3557888753
No 13
>KOG3586|consensus
Probab=49.67 E-value=23 Score=27.87 Aligned_cols=51 Identities=25% Similarity=0.398 Sum_probs=32.5
Q ss_pred cCCCccCchhhcc--CCeEEEE--c-CCCCeeEEEEeCCCCCCCCCCCCceeeE---EEEEc
Q psy6916 22 DQGNTLTPSDLKQ--APEVTWN--A-DSSSYYTLVMTDPDAPSRQNPKAREWRH---WLVVN 75 (105)
Q Consensus 22 ~~G~~l~~~~t~~--~P~i~~~--~-~~~~~ytlimvDpD~p~~~~~~~~~~lH---wl~~n 75 (105)
..|.++-.+.+.. .|+|++. + ++.+.|.|+| | .--..+..|+...| ||+.+
T Consensus 95 ~lGTEMIITKsGRRMFPTvrV~~~GldP~a~Y~vlm-D--vVPvD~KRYRYayH~S~WlvAG 153 (437)
T KOG3586|consen 95 DLGTEMIITKSGRRMFPTVRVKFSGLDPMADYYVLM-D--VVPVDSKRYRYAYHSSSWLVAG 153 (437)
T ss_pred hcCceEEEecccccccceEEEEEecCCcccceEEEE-e--EEecccceeeeeecccceeeec
Confidence 4666666665554 8987664 4 5678886665 3 23334456777777 88875
No 14
>COG1632 RPL15A Ribosomal protein L15E [Translation, ribosomal structure and biogenesis]
Probab=42.37 E-value=39 Score=23.88 Aligned_cols=41 Identities=17% Similarity=0.499 Sum_probs=27.9
Q ss_pred cCCeEEEEc-----CCC--CeeEEEEeCCCCCCCCCCCCceeeEEEEEccC
Q psy6916 34 QAPEVTWNA-----DSS--SYYTLVMTDPDAPSRQNPKAREWRHWLVVNIP 77 (105)
Q Consensus 34 ~~P~i~~~~-----~~~--~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni~ 77 (105)
..|.+.... +.+ +.|-+|||||+-|.-.+ ..-+.|+-..+.
T Consensus 108 K~pNL~vLnSYwVgeDg~yK~fEvIlvDp~H~aIk~---Dp~l~wI~~~~~ 155 (195)
T COG1632 108 KYPNLEVLNSYWVGEDGYYKYFEVILVDPRHPAIKN---DPNLNWICRPVH 155 (195)
T ss_pred cCCCcEeeeeEEeccccceeeEEEEEecCCChhhcC---CCceeeeccccc
Confidence 477776543 233 79999999999986543 355788876443
No 15
>PF06832 BiPBP_C: Penicillin-Binding Protein C-terminus Family; InterPro: IPR009647 This conserved region of approximately 90 residues is found in a sub-group of bacterial Penicillin-Binding Proteins (PBPs). A variable length loop region separates this region from the transpeptidase unit (IPR001460 from INTERPRO). It is predicted to be a beta fold.
Probab=36.76 E-value=82 Score=18.61 Aligned_cols=15 Identities=20% Similarity=0.209 Sum_probs=10.4
Q ss_pred CCCeeEEEEeCCCCC
Q psy6916 44 SSSYYTLVMTDPDAP 58 (105)
Q Consensus 44 ~~~~ytlimvDpD~p 58 (105)
..+.|+|.++|-+..
T Consensus 69 ~~G~h~l~vvD~~G~ 83 (89)
T PF06832_consen 69 RPGEHTLTVVDAQGR 83 (89)
T ss_pred CCeeEEEEEEcCCCC
Confidence 347888888886543
No 16
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=32.48 E-value=68 Score=21.16 Aligned_cols=28 Identities=21% Similarity=0.426 Sum_probs=23.9
Q ss_pred cCCeEEEEcCCCCeeEEEEeCCCCCCCC
Q psy6916 34 QAPEVTWNADSSSYYTLVMTDPDAPSRQ 61 (105)
Q Consensus 34 ~~P~i~~~~~~~~~ytlimvDpD~p~~~ 61 (105)
.+|.+.|.++++.--|+.+.||-.+..+
T Consensus 98 i~P~vRF~Ge~gEq~TlFl~DP~gN~lE 125 (138)
T COG3565 98 IPPKVRFKGEPGEQRTLFLFDPSGNALE 125 (138)
T ss_pred cCceEEecCCccceEEEEEECCCCCeee
Confidence 4899999999999999999999776543
No 17
>PRK14751 tetracycline resistance determinant leader peptide; Provisional
Probab=30.09 E-value=36 Score=16.21 Aligned_cols=9 Identities=22% Similarity=0.567 Sum_probs=6.5
Q ss_pred CCceeeEEE
Q psy6916 64 KAREWRHWL 72 (105)
Q Consensus 64 ~~~~~lHwl 72 (105)
+-..++||=
T Consensus 13 sdksi~hwd 21 (28)
T PRK14751 13 SDKSIYHWD 21 (28)
T ss_pred CcCceeeee
Confidence 346899994
No 18
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=25.61 E-value=59 Score=23.17 Aligned_cols=15 Identities=33% Similarity=0.541 Sum_probs=12.9
Q ss_pred CeeEEEEeCCCCCCC
Q psy6916 46 SYYTLVMTDPDAPSR 60 (105)
Q Consensus 46 ~~ytlimvDpD~p~~ 60 (105)
..||||+.||.+.+.
T Consensus 153 ~~fTlIieDp~G~S~ 167 (201)
T COG1779 153 RKFTLIIEDPLGNSA 167 (201)
T ss_pred ccEEEEEECCCCCce
Confidence 599999999988754
No 19
>PF00827 Ribosomal_L15e: Ribosomal L15; InterPro: IPR000439 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 and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities []. One of these families consists of: Mammalian L15. Insect L15. Plant L15. Yeast YL10 (L13) (Rp15r). Archaebacterial L15e. These proteins have about 200 amino acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZR_P 4A1E_L 4A17_L 4A1A_L 4A1C_L 2ZKR_m 3IZS_P 1S1I_L 3O58_O 3O5H_O ....
Probab=25.53 E-value=37 Score=24.00 Aligned_cols=39 Identities=15% Similarity=0.493 Sum_probs=23.4
Q ss_pred CCeEEEEc-----CCC--CeeEEEEeCCCCCCCCCCCCceeeEEEEEcc
Q psy6916 35 APEVTWNA-----DSS--SYYTLVMTDPDAPSRQNPKAREWRHWLVVNI 76 (105)
Q Consensus 35 ~P~i~~~~-----~~~--~~ytlimvDpD~p~~~~~~~~~~lHwl~~ni 76 (105)
.|.+.+-+ +.+ +.|-||||||.-|.-.+ ..-+.|+....
T Consensus 109 ~~nLrVLnSYwV~eDg~yK~fEVIlVDp~h~~Ir~---D~~~nWI~~~~ 154 (192)
T PF00827_consen 109 YPNLRVLNSYWVGEDGTYKWFEVILVDPNHPAIRN---DPDINWICNPV 154 (192)
T ss_dssp STTSEEEEEEEEEEESSEEEEEEEEE-TTSHHHHT---TTTTGGGGSGG
T ss_pred cCCceEEeeEEeCCCCcceeEEEEEecCCcHHHhc---CCccceecccc
Confidence 66666533 222 78999999999886432 13356665543
No 20
>KOG1678|consensus
Probab=25.44 E-value=44 Score=23.24 Aligned_cols=25 Identities=20% Similarity=0.647 Sum_probs=17.2
Q ss_pred CeeEEEEeCCCCCC-CCCCCCceeeEEEEE
Q psy6916 46 SYYTLVMTDPDAPS-RQNPKAREWRHWLVV 74 (105)
Q Consensus 46 ~~ytlimvDpD~p~-~~~~~~~~~lHwl~~ 74 (105)
+.|-||||||+-.- +.| +-..|+..
T Consensus 128 k~fEVIlvDp~h~aIRrd----p~~nwI~k 153 (204)
T KOG1678|consen 128 KYFEVILVDPFHKAIRRD----PRINWICK 153 (204)
T ss_pred eeEEEEEECcHHHHHhcC----CCcccccc
Confidence 79999999998543 222 44677754
No 21
>PF02757 YLP: YLP motif; InterPro: IPR004019 The YLP motif is found in one or several copies in various Drosophila proteins. Its function is unknown, however the presence of completely conserved tyrosine residues and its presence in the human Erbb-2 and ErbB-4 receptor protein-tyrosine kinases (2.7.10.1 from EC) may suggest it could be a substrate for tyrosine kinases. ErbBs (1-4) are single-pass transmembrane proteins that activate a wide variety of signalling pathways, including those involved in proliferation, migration, differentiation, survival, and apoptosis; they are frequently misregulated in cancer []. ErbB-2 is an essential component of a neuregulin-receptor complex, although neuregulins do not interact with it alone. ErbB-4 specifically binds and is activated by neuregulins, NRG-2, NRG-3, heparin-binding EGF-like growth factor, betacellulin and NTAK [].
Probab=24.75 E-value=38 Score=12.12 Aligned_cols=7 Identities=29% Similarity=0.600 Sum_probs=4.3
Q ss_pred ccccCCC
Q psy6916 88 TPYAGPT 94 (105)
Q Consensus 88 ~~Y~~P~ 94 (105)
..|++|.
T Consensus 2 ~eYLpP~ 8 (9)
T PF02757_consen 2 NEYLPPV 8 (9)
T ss_pred ccccCCC
Confidence 3577764
No 22
>PF10349 WWbp: WW-domain ligand protein; InterPro: IPR018826 This entry represents a sequence domain found in WW domain-binding protein that is characterised by several short PY and PT-like motifs of the PPPPY form. These appear to bind directly to the WW domains of WWP1 and WWP2 and other such diverse proteins as dystrophin and YAP (Yes-associated protein). The presence of a phosphotyrosine residue in the pWBP-1 peptide abolishes WW domain binding which suggests a potential regulatory role for tyrosine phosphorylation in modulating WW domain-ligand interactions. Given the likelihood that WWP1 and WWP2 function as E3 ubiquitin-protein ligases, it is possible that initial substrate-specific recognition occurs via WW domain-substrate protein interaction followed by ubiquitin transfer and subsequent proteolysis []. This domain lies just downstream of IPR004182 from INTERPRO in many sequences.
Probab=22.32 E-value=33 Score=22.00 Aligned_cols=27 Identities=11% Similarity=0.249 Sum_probs=20.7
Q ss_pred CCccceeEEEEEcCCCeeecCCCccCch
Q psy6916 3 GLVANGSMLITYNSGKLKVDQGNTLTPS 30 (105)
Q Consensus 3 ~f~P~~~L~v~y~~~~~~v~~G~~l~~~ 30 (105)
++..++.|+++| .++-.|+.|+.|-.-
T Consensus 4 Gw~g~~~fKltF-k~GGAieFgq~~~~~ 30 (116)
T PF10349_consen 4 GWEGQAEFKLTF-KSGGAIEFGQAMLRL 30 (116)
T ss_pred CccCceEEEEEe-CCCChHHHHHHHHHH
Confidence 577889999999 445588888877643
No 23
>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=22.19 E-value=1.5e+02 Score=18.55 Aligned_cols=12 Identities=25% Similarity=0.299 Sum_probs=7.6
Q ss_pred CCccceeEEEEE
Q psy6916 3 GLVANGSMLITY 14 (105)
Q Consensus 3 ~f~P~~~L~v~y 14 (105)
.+.|.+.|.+.|
T Consensus 61 ~~~P~~~v~~~~ 72 (136)
T PF07703_consen 61 DMAPNFYVLAYY 72 (136)
T ss_dssp GGTSEEEEEEEE
T ss_pred hcCCcEEEEEEE
Confidence 355666666666
No 24
>PLN03213 repressor of silencing 3; Provisional
Probab=20.55 E-value=48 Score=27.18 Aligned_cols=13 Identities=31% Similarity=0.355 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCcC
Q psy6916 92 GPTPPKGTGTYIQ 104 (105)
Q Consensus 92 ~P~Pp~gtg~HRy 104 (105)
-+.|.+|||-|+|
T Consensus 131 KslPfsGTGKHkY 143 (759)
T PLN03213 131 KAMPLSGTGKHKY 143 (759)
T ss_pred cccccCCCcccee
Confidence 4789999999999
Done!