Query 029999
Match_columns 184
No_of_seqs 148 out of 1271
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 06:56:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029999.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029999hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10257 putative kinase inhib 100.0 4.2E-52 9.1E-57 327.3 18.5 154 24-184 1-157 (158)
2 PRK09818 putative kinase inhib 100.0 3.2E-50 6.9E-55 323.1 18.3 163 16-184 14-180 (183)
3 COG1881 Phospholipid-binding p 100.0 5E-47 1.1E-51 302.2 12.6 150 21-184 20-171 (174)
4 cd00865 PEBP_bact_arch Phospha 100.0 4.3E-45 9.3E-50 285.2 17.4 147 25-184 1-150 (150)
5 TIGR00481 Raf kinase inhibitor 100.0 2.9E-44 6.3E-49 278.3 16.9 128 50-184 12-141 (141)
6 cd00457 PEBP PhosphatidylEthan 100.0 5.1E-42 1.1E-46 270.4 17.1 148 25-184 1-159 (159)
7 PF01161 PBP: Phosphatidyletha 100.0 1.6E-34 3.4E-39 223.4 7.0 138 34-184 1-144 (146)
8 cd00866 PEBP_euk PhosphatidylE 99.9 1.1E-21 2.3E-26 152.9 12.0 105 29-159 11-118 (154)
9 PLN00169 CETS family protein; 99.9 1.2E-20 2.6E-25 150.9 14.9 113 27-170 33-151 (175)
10 KOG3346 Phosphatidylethanolami 99.8 1.8E-20 4E-25 150.4 9.8 97 31-157 37-136 (185)
11 cd00470 PTPS 6-pyruvoyl tetrah 40.4 31 0.00067 26.2 2.9 44 130-173 27-73 (135)
12 TIGR03112 6_pyr_pter_rel 6-pyr 33.4 86 0.0019 23.1 4.2 39 130-171 13-51 (113)
13 TIGR00039 6PTHBS 6-pyruvoyl te 28.8 1.2E+02 0.0026 22.4 4.5 42 130-171 17-59 (124)
14 TIGR03367 queuosine_QueD queuo 25.6 1.7E+02 0.0036 20.5 4.5 41 130-170 15-56 (92)
15 PF09336 Vps4_C: Vps4 C termin 24.1 25 0.00055 23.2 -0.0 37 135-172 4-41 (62)
16 PLN03070 photosystem I reactio 22.2 16 0.00034 27.9 -1.5 28 156-183 94-122 (128)
17 cd02859 AMPKbeta_GBD_like AMP- 20.6 73 0.0016 21.6 1.7 13 135-148 42-54 (79)
No 1
>PRK10257 putative kinase inhibitor protein; Provisional
Probab=100.00 E-value=4.2e-52 Score=327.32 Aligned_cols=154 Identities=34% Similarity=0.610 Sum_probs=140.6
Q ss_pred cEEEcCCCCCCCCCCcccccCCCCC-CCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCCcceEEEEEEccCCCCCCC
Q 029999 24 FRLVSPEINHQGRLPRKYTNEGQGA-KKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVNIPPTLKGL 102 (184)
Q Consensus 24 ~~l~S~~f~~g~~lp~~~t~~g~g~-~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~~~~~HW~v~nIp~~~~~l 102 (184)
|+|+|++|++|+.||.+|+|.+.+| |+|+||+|+|+++|++||||+|+|+|||||.+. .|+||++||||+++++|
T Consensus 1 ~~ltS~~f~~g~~ip~~~~~~~~~~~G~n~SP~L~w~~~P~~t~s~ali~~DpDap~~~----~~~HWvv~nIP~~~~~l 76 (158)
T PRK10257 1 MKLISNDLRDGDKLPHRHVFNGMGYDGDNISPHLAWDDVPAGTKSFVVTCYDPDAPTGS----GWWHWVVVNLPADTRVL 76 (158)
T ss_pred CEEeccCccCcCCCCHHHcccccCCCCCCCCceEEEcCCCCCceEEEEEEECCCCCCCC----cEEEEEEEcCCCCcccc
Confidence 7899999999999999999977665 689999999999999999999999999998753 59999999999999999
Q ss_pred CCCCCCCcccccCcccCeeeecCCCCCCCccCCCCCCC-CceEEEEEEeeC-CcCCCCCcccHHHHHHHHhcCeeEEEEE
Q 029999 103 PEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNH-GHRFQFKLYALD-DEMHLGNKVTKERLLEAIEGHVLGEAVL 180 (184)
Q Consensus 103 ~~g~~~~~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~g-~HrY~f~vyAl~-~~l~l~~~~~~~~l~~a~~~hvl~~~~l 180 (184)
+||+..... ..+.+++||.|+++..+|.|||||.| .|||+|+||||| ++|+|+++++++++.++|+||||++|+|
T Consensus 77 ~eg~~~~~~---~~p~g~~~g~n~~g~~gY~GP~PP~g~~HrY~f~vyALd~~~L~l~~~~~~~~l~~a~~ghvla~a~l 153 (158)
T PRK10257 77 PQGFGSGLV---ALPDGVLQTRTDFGKAGYGGAAPPKGETHRYIFTVHALDVERIDVDEGASGAMVGFNVHFHSLASASI 153 (158)
T ss_pred cCCCCcccc---cCCCCceeccccCCCccCcCCCCccCCCceEEEEEEEecCcccCCCCCCCHHHHHHHHhhceEEEEEE
Confidence 999865321 23457899999999999999999988 799999999999 6899999999999999999999999999
Q ss_pred EEEC
Q 029999 181 TAIF 184 (184)
Q Consensus 181 ~g~y 184 (184)
+|+|
T Consensus 154 ~g~y 157 (158)
T PRK10257 154 TAMF 157 (158)
T ss_pred EEEE
Confidence 9998
No 2
>PRK09818 putative kinase inhibitor; Provisional
Probab=100.00 E-value=3.2e-50 Score=323.12 Aligned_cols=163 Identities=31% Similarity=0.545 Sum_probs=142.2
Q ss_pred hhhccCCccEEEcCCCCCCCCCCcccccCCCCC-CCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCCcceEEEEEEc
Q 029999 16 SIAMASEEFRLVSPEINHQGRLPRKYTNEGQGA-KKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVN 94 (184)
Q Consensus 16 ~~~~~~~~~~l~S~~f~~g~~lp~~~t~~g~g~-~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~~~~~HW~v~n 94 (184)
-|+...++|+|+|++|.+|+.||.+|++.+.+| |+|+||+|+|+++|++||||||+|+|||||.+. +|+||++||
T Consensus 14 ~~~~~~~~~~ltS~~f~~G~~ip~~~~~~~~~~~G~n~SP~L~W~~~P~gtks~aLi~~DpDaP~g~----~~~HWvv~n 89 (183)
T PRK09818 14 TFSAQAAAFQVTSNEIKTGEQLTTSHVFSGFGCEGGNTSPSLTWSGAPEGTKSFAVTVYDPDAPTGS----GWWHWTVAN 89 (183)
T ss_pred hhhccCCcEEEECcCccCcCCCCHHHcccccCCCCCCcceeEEEccCCCCcEEEEEEEECCCCCCCC----cEEEEEEEc
Confidence 345556789999999999999999875543333 479999999999999999999999999998753 599999999
Q ss_pred cCCCCCCCCCCCCCCcccccCcccCeeeecCCCCCCCccCCCCCCC--CceEEEEEEeeC-CcCCCCCcccHHHHHHHHh
Q 029999 95 IPPTLKGLPEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNH--GHRFQFKLYALD-DEMHLGNKVTKERLLEAIE 171 (184)
Q Consensus 95 Ip~~~~~l~~g~~~~~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~g--~HrY~f~vyAl~-~~l~l~~~~~~~~l~~a~~ 171 (184)
||++.++|++|....... ..+.+.+||.|+++..+|.|||||.| .|||+|+||||| ++|+|+++++++++.++|+
T Consensus 90 IP~~~~~l~eg~~~~~~~--~~~~g~~~g~N~~g~~gY~GP~PP~G~g~HrY~F~vyALd~~~l~l~~~~~~~~l~~~~~ 167 (183)
T PRK09818 90 IPATVTYLPADAGRRDGT--KLPTGAVQGRNDFGYAGFGGACPPKGDKPHHYQFKVWALKTDKIPVDSNSSGALVGYMLN 167 (183)
T ss_pred CCCCccccCCCCcccccc--cCCCCCEEeecCCCCCceECCCCccCCCCEEEEEEEEEecCcccCCCCCCCHHHHHHHHh
Confidence 999999999998653210 12457899999999999999999987 699999999999 6799999999999999999
Q ss_pred cCeeEEEEEEEEC
Q 029999 172 GHVLGEAVLTAIF 184 (184)
Q Consensus 172 ~hvl~~~~l~g~y 184 (184)
||+|++|+|+|+|
T Consensus 168 ghvLa~a~l~g~y 180 (183)
T PRK09818 168 ANKIATAEITPVY 180 (183)
T ss_pred hceEEEEEEEEEE
Confidence 9999999999998
No 3
>COG1881 Phospholipid-binding protein [General function prediction only]
Probab=100.00 E-value=5e-47 Score=302.21 Aligned_cols=150 Identities=43% Similarity=0.735 Sum_probs=136.1
Q ss_pred CCccEEEcCCCCCCCCCCcccccCCCCCCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCCcceEEEEEEccCCCCC
Q 029999 21 SEEFRLVSPEINHQGRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVNIPPTLK 100 (184)
Q Consensus 21 ~~~~~l~S~~f~~g~~lp~~~t~~g~g~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~~~~~HW~v~nIp~~~~ 100 (184)
...|.++|.+|.+|+.||.+|+|+| .|+||+|+|+++|++||||||+|+|||||... .|+||+|+|||++.+
T Consensus 20 ~~~~~~~s~~f~~g~~ip~~~t~~g----~~~sPpl~ws~~P~~tkS~AL~v~DpDAP~g~----~~~HWvv~nIp~~~~ 91 (174)
T COG1881 20 LAVMGLISNAFADGAPIPDEYTCGG----PNISPPLSWSGVPEGTKSFALTVDDPDAPTGG----GWVHWVVANIPADVT 91 (174)
T ss_pred cccccccchhhhCCCccchhhhcCC----CCcCCceeecCCCCCCeeEEEEEECCCCCCCC----cEEEEEEEccCCccc
Confidence 3468999999999999999999977 59999999999999999999999999999743 699999999999888
Q ss_pred CCCCCCCCCcccccCcccCeeeecCCCCCCCccCCCCCCCC-ceEEEEEEeeCC-cCCCCCcccHHHHHHHHhcCeeEEE
Q 029999 101 GLPEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNHG-HRFQFKLYALDD-EMHLGNKVTKERLLEAIEGHVLGEA 178 (184)
Q Consensus 101 ~l~~g~~~~~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~g~-HrY~f~vyAl~~-~l~l~~~~~~~~l~~a~~~hvl~~~ 178 (184)
+++++...... .+.+||.|+++..+|.|||||.|. |||+|+|||||. .+.+++++++++|.++|++|+|+++
T Consensus 92 ~~~~~~~~~~~------~~~~qg~Nd~g~~~Y~Gp~PP~g~~HrY~f~vyALd~~~~~~~~g~~~~~~~~~~~~hil~~a 165 (174)
T COG1881 92 ELPEGSGPKSK------IGIVQGINDFGSRGYGGPCPPKGHGHRYYFTVYALDVELLLLPAGASGAELGKAMEGHILAQA 165 (174)
T ss_pred ccccccccccc------cceEEeeccccccCcccCCCCCCCCeEEEEEEEEcccccccCCCCCCHHHHHHHHHHHHHHHh
Confidence 99988643211 468999999999999999999997 999999999995 6778899999999999999999999
Q ss_pred EEEEEC
Q 029999 179 VLTAIF 184 (184)
Q Consensus 179 ~l~g~y 184 (184)
+++|+|
T Consensus 166 ~~~g~y 171 (174)
T COG1881 166 ELTGTY 171 (174)
T ss_pred hhheeE
Confidence 999998
No 4
>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=100.00 E-value=4.3e-45 Score=285.19 Aligned_cols=147 Identities=47% Similarity=0.770 Sum_probs=133.8
Q ss_pred EEEcCCCCCCCCCCccc--ccCCCCCCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCCcceEEEEEEccCCCCCCC
Q 029999 25 RLVSPEINHQGRLPRKY--TNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVNIPPTLKGL 102 (184)
Q Consensus 25 ~l~S~~f~~g~~lp~~~--t~~g~g~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~~~~~HW~v~nIp~~~~~l 102 (184)
+|+|+.|.+|+.||.+| +|+| +|+||+|+|+++|++||||+|+|+|+|+|.. .+|+||++||||+++++|
T Consensus 1 ~~~s~~~~~g~~~p~~~~~~~~g----~~~SP~l~w~~~p~~t~s~al~m~D~Dap~~----~~~~HW~~~nIp~~~~~i 72 (150)
T cd00865 1 KLTSPAFFDGGPIPKKYAFTCDG----ENVSPPLSWSGVPAGTKSLALIVEDPDAPTG----GGFVHWVVWNIPADTTEL 72 (150)
T ss_pred CeecccccCcCCCChhhcccCCC----CCcCCCeEEcCCCCCCeEEEEEEEcCCCCCC----CCEEEEEEeccCcccccc
Confidence 47899999999999999 8887 5899999999999999999999999999843 479999999999998899
Q ss_pred CCCCCCCcccccCcccCeeeecCCCCCCCccCCCCCC-CCceEEEEEEeeCCcCCCCCcccHHHHHHHHhcCeeEEEEEE
Q 029999 103 PEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPN-HGHRFQFKLYALDDEMHLGNKVTKERLLEAIEGHVLGEAVLT 181 (184)
Q Consensus 103 ~~g~~~~~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~-g~HrY~f~vyAl~~~l~l~~~~~~~~l~~a~~~hvl~~~~l~ 181 (184)
++|.... ....+++||.|+++..+|.|||||. +.|||+|+||||+.++.+++++++++|+++|++|+|++|+|+
T Consensus 73 ~~g~~~~-----~~~~~~~~g~n~~~~~~Y~gP~Pp~~~~HrY~f~vyAld~~l~~~~~~~~~~l~~ai~~hvla~~~l~ 147 (150)
T cd00865 73 PEGASRG-----ALPAGAVQGRNDFGEAGYGGPCPPDGGPHRYVFTVYALDVPLLLPPGATRAELLFAMKGHVLAKAELT 147 (150)
T ss_pred cCCcccc-----cCCCCCeEeecCCCCCeecCCCCcCCCceEEEEEEEEeCCccCCCCCCCHHHHHHHHhhceeEEEEEE
Confidence 9987532 1234689999999999999999998 589999999999999999999999999999999999999999
Q ss_pred EEC
Q 029999 182 AIF 184 (184)
Q Consensus 182 g~y 184 (184)
|+|
T Consensus 148 ~~y 150 (150)
T cd00865 148 GTY 150 (150)
T ss_pred EEC
Confidence 998
No 5
>TIGR00481 Raf kinase inhibitor-like protein, YbhB/YbcL family.
Probab=100.00 E-value=2.9e-44 Score=278.29 Aligned_cols=128 Identities=45% Similarity=0.750 Sum_probs=115.8
Q ss_pred CCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCCcceEEEEEEccCCCCCCCCCCCCCCcccccCcccC-eeeecCCCC
Q 029999 50 KNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVNIPPTLKGLPEGFSGKEEEIGGEYAG-IKEGNNDWK 128 (184)
Q Consensus 50 ~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~~~~~HW~v~nIp~~~~~l~~g~~~~~~~~~~~~~g-~~~g~n~~g 128 (184)
+|+||+|+|+++|++||||+|+|+|+|||... .|+||++||||+++++|++|+..... ..+.+ .+||.|+++
T Consensus 12 ~n~SP~l~w~~~P~~t~s~al~~~D~Dap~~~----~~~HWv~~nIp~~~~~l~e~~~~~~~---~~~~g~~~~g~n~~g 84 (141)
T TIGR00481 12 PNISPPLSWDGVPEGAKSLALTCIDPDAPTGC----GWWHWVVVNIPADTTVLPENASSDDK---RLPQGVPLQGRNDFG 84 (141)
T ss_pred CCCCcEEEEcCCCCCceEEEEEEECCCCCCCC----CeEEEEEecCCCCcccccCCcccccc---ccCCcceeEeeccCC
Confidence 69999999999999999999999999998764 49999999999999999999763221 11335 689999999
Q ss_pred CCCccCCCCCCCCceEEEEEEeeCCc-CCCCCcccHHHHHHHHhcCeeEEEEEEEEC
Q 029999 129 VPGWRGPKLPNHGHRFQFKLYALDDE-MHLGNKVTKERLLEAIEGHVLGEAVLTAIF 184 (184)
Q Consensus 129 ~~~Y~GP~Pp~g~HrY~f~vyAl~~~-l~l~~~~~~~~l~~a~~~hvl~~~~l~g~y 184 (184)
..+|.|||||.|.|||+|+|||||.+ |+++++++++||+++|++|||++|+|+|+|
T Consensus 85 ~~~Y~GP~PP~g~HrY~f~vyALd~~~l~l~~~~~~~~l~~ai~ghvl~~~~l~g~y 141 (141)
T TIGR00481 85 KSGYIGPCPPKGDHRYLFTVYALDTEKLDLDPGFSLADLGDAMEGHILAEASIEGLY 141 (141)
T ss_pred CccEeCCCCcCCCEEEEEEEEEecCCCCCCCCCCCHHHHHHHHhhCEEEEEEEEEEC
Confidence 99999999999999999999999976 999999999999999999999999999998
No 6
>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=100.00 E-value=5.1e-42 Score=270.40 Aligned_cols=148 Identities=31% Similarity=0.436 Sum_probs=128.4
Q ss_pred EEEcCCCCC-CCCCCcccccCCCCCCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCCcceEEEEEEccCCCCCCCC
Q 029999 25 RLVSPEINH-QGRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVNIPPTLKGLP 103 (184)
Q Consensus 25 ~l~S~~f~~-g~~lp~~~t~~g~g~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~~~~~HW~v~nIp~~~~~l~ 103 (184)
+|+|++|.+ |+.||.+|+|+| .++||+|+|+++|++|++|+|+|+|+|||.. ++|+||++||||++.++++
T Consensus 1 ~l~s~~~~~~g~~lp~~~~~~g----~~~sP~l~w~~~p~~t~s~ali~~DpDap~~----~~~~HWvv~nIp~~~~~~~ 72 (159)
T cd00457 1 TLESPEVGPSGSVLPPEYSFEG----VGRFPSLSWDGPPPDVKEYVLVMEDPDAPLG----RPIVHGLVYGIPANKTSLS 72 (159)
T ss_pred CeecCCcCCCCCccChhhccCC----CCcCCceEecCCCCCCeEEEEEEECCCCCCC----CCceEEEEeccCccccccc
Confidence 479999999 999999999987 4899999999999999999999999999853 3799999999999988898
Q ss_pred CCCCCCcccccCcccCeeeecCCC----CCCCccCCCCCCC--CceEEEEEEeeCCcCCCC---CcccHHHHHHHHhcCe
Q 029999 104 EGFSGKEEEIGGEYAGIKEGNNDW----KVPGWRGPKLPNH--GHRFQFKLYALDDEMHLG---NKVTKERLLEAIEGHV 174 (184)
Q Consensus 104 ~g~~~~~~~~~~~~~g~~~g~n~~----g~~~Y~GP~Pp~g--~HrY~f~vyAl~~~l~l~---~~~~~~~l~~a~~~hv 174 (184)
+|...... ...+..|+.|++ +..+|.|||||.| .|||+|+||||++++.+. ++.+++++.++|++|+
T Consensus 73 ~~~~~~~~----~~~~~~~~~n~~g~~~~~~~Y~GP~PP~G~g~HrY~f~lyald~~~~~~~~~~~~~~~~~~~~~~~~v 148 (159)
T cd00457 73 NDDFVVTD----NGKGGLQGGFKYGKNRGGTVYIGPRPPLGHGPHRYFFQVYALDEPLDRSKLGDGRTKFEVARFAEGNV 148 (159)
T ss_pred ccccccCC----CCccceeccccccccCCCcCCcCCCCCCCCCCeeEEEEEEEecCccccccccCCCCHHHHHHHHHhCe
Confidence 87543211 123467888887 4679999999996 699999999999887754 6899999999999999
Q ss_pred e-EEEEEEEEC
Q 029999 175 L-GEAVLTAIF 184 (184)
Q Consensus 175 l-~~~~l~g~y 184 (184)
| ++|+++++|
T Consensus 149 L~~~a~~~~~~ 159 (159)
T cd00457 149 LGAVGEWVGQF 159 (159)
T ss_pred eeEEEEEEEEC
Confidence 9 999999987
No 7
>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=100.00 E-value=1.6e-34 Score=223.35 Aligned_cols=138 Identities=41% Similarity=0.699 Sum_probs=113.3
Q ss_pred CCCCCcccccCCCC-CCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCC-cceEEEEEEccCCCCCCCCCCCCCCcc
Q 029999 34 QGRLPRKYTNEGQG-AKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPI-VPWTHWVVVNIPPTLKGLPEGFSGKEE 111 (184)
Q Consensus 34 g~~lp~~~t~~g~g-~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~-~~~~HW~v~nIp~~~~~l~~g~~~~~~ 111 (184)
++.|+.+|++.... .|+++||+++|++.|.++++|+|+|+|+|+|.+..+. .+|+||+++||| + ++|++|..
T Consensus 1 ~~~L~v~f~~~~~~~~G~~~sp~~~~~~~P~~~~~y~lim~D~D~P~~~~~~~~~~~Hwl~~ni~-~-~~~~~~~~---- 74 (146)
T PF01161_consen 1 NGKLPVKFTGNKSVCPGNNVSPPLSWQNAPTGTKSYTLIMVDPDAPSRENPSFGPFLHWLVTNIP-S-TELPEGSD---- 74 (146)
T ss_dssp -CEEEEEECTTEECSTTEEEEGGGECSS-TCTTSEEEEEEEETTSSBTTSCTTTSEEEEEEEEEE-T-SEE-TTSS----
T ss_pred CcCcCceeEcccccCCCCCCCcCcccccCCCCCcEEEEEEECCCCCccccCCCCcEEEEEEcCCC-C-ccCCCCCC----
Confidence 46799999822111 1368999999999999999999999999999866554 789999999999 6 78988862
Q ss_pred cccCcccCeeeecCCCCC--CCccCCCCCCC--CceEEEEEEeeCCcCCCCCcccHHHHHHHHhcCeeEEEEEEEEC
Q 029999 112 EIGGEYAGIKEGNNDWKV--PGWRGPKLPNH--GHRFQFKLYALDDEMHLGNKVTKERLLEAIEGHVLGEAVLTAIF 184 (184)
Q Consensus 112 ~~~~~~~g~~~g~n~~g~--~~Y~GP~Pp~g--~HrY~f~vyAl~~~l~l~~~~~~~~l~~a~~~hvl~~~~l~g~y 184 (184)
+.+++.|+.+. ..|.|||||.| .|||+|+||+|+++++++..+++.++.+++++|+|+.++|+|.|
T Consensus 75 -------~~~~~~~~~g~~~~~Y~~P~Pp~g~g~HrY~f~ly~q~~~~~l~~~~~~~~~~~~~~~~~L~~~~l~~~y 144 (146)
T PF01161_consen 75 -------GARQGINSSGQVIAPYLGPCPPKGSGPHRYVFLLYAQPSPLPLSDGATKFDLREAFKGHGLGPASLAGNY 144 (146)
T ss_dssp -------TCETSBGGTSEEEES--SB-SSTTSSCEEEEEEEEEESSSSTSGBSSTHHTHHHHHHHTTEESEESEEEE
T ss_pred -------ccEecccccCccccEEcCCcCcCcCCCceEEEEEEEcCCCCCCCCCCCHHHHHHHHHcCCCCCceEEEEE
Confidence 34677888775 89999999975 79999999999998889889999999999999999999999987
No 8
>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=99.87 E-value=1.1e-21 Score=152.93 Aligned_cols=105 Identities=25% Similarity=0.416 Sum_probs=82.3
Q ss_pred CCCCCCCCCCcccccCCCCCCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCC-cceEEEEEEccCCCCCCCCCCCC
Q 029999 29 PEINHQGRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPI-VPWTHWVVVNIPPTLKGLPEGFS 107 (184)
Q Consensus 29 ~~f~~g~~lp~~~t~~g~g~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~-~~~~HW~v~nIp~~~~~l~~g~~ 107 (184)
..+..|..|+.+.+ ..+|.|+|++.++++++|+|+|+|+|+|.+..+. .+|+||+++|||++... .+.
T Consensus 11 ~~v~~G~~l~~~~~--------~~~P~i~~~~~~~~~~~y~lvm~DpD~p~~~~~~~~~~lHwl~~ni~~~~~~--~~~- 79 (154)
T cd00866 11 GVVTPGNLLTPSET--------QKAPTVSFSSEDPPDKLYTLVMVDPDAPSRDDPKFREWLHWLVTNIPGSDTT--TGL- 79 (154)
T ss_pred cCcCCCCCCCHHHh--------CcCCeEEEecCCCCCCeEEEEEECCCCCCCCCCCCCCEEEEEEeCcCCcccc--ccc-
Confidence 34566888877644 3589999999988899999999999999987666 78999999999987432 110
Q ss_pred CCcccccCcccCeeeecCCCCCCCccCCCCCCC--CceEEEEEEeeCCcCCCCC
Q 029999 108 GKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNH--GHRFQFKLYALDDEMHLGN 159 (184)
Q Consensus 108 ~~~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~g--~HrY~f~vyAl~~~l~l~~ 159 (184)
..+......|.||+||.| .|||+|+||+|++.+.+..
T Consensus 80 ---------------~~~~~~~~~Y~~P~Pp~g~g~HRY~fll~~q~~~~~~~~ 118 (154)
T cd00866 80 ---------------VSKGEVLVPYLGPGPPKGTGPHRYVFLLFKQPGGLDFPE 118 (154)
T ss_pred ---------------cCCCCCcceeeCCCCCCCCCCccEEEEEEEeCCccCccc
Confidence 112224689999999985 6999999999998776544
No 9
>PLN00169 CETS family protein; Provisional
Probab=99.86 E-value=1.2e-20 Score=150.94 Aligned_cols=113 Identities=27% Similarity=0.380 Sum_probs=85.6
Q ss_pred EcCCCCCCCCCCcccccCCCCCCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCC-cceEEEEEEccCCCCCCCCCC
Q 029999 27 VSPEINHQGRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPI-VPWTHWVVVNIPPTLKGLPEG 105 (184)
Q Consensus 27 ~S~~f~~g~~lp~~~t~~g~g~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~-~~~~HW~v~nIp~~~~~l~~g 105 (184)
.|..+..|..|+...++. .|.|+|++. +..++|+|+|+|||||++.++. ++|+||+++|||++... ..
T Consensus 33 ~s~~V~~G~~l~p~~t~~--------~P~i~~~~~-~~~~~ytlim~DpDaP~~~~~~~~~~~HW~v~nip~~~~~-~~- 101 (175)
T PLN00169 33 GSREVNNGCELKPSQVVN--------QPRVDIGGE-DLRTFYTLVMVDPDAPSPSNPNLREYLHWLVTDIPATTGA-TF- 101 (175)
T ss_pred CCcCcCCcCCCCHHHhcc--------CCEEEEccC-CCCceeEEEEECCCCCCCCCCCcccEEEEEEeCCcccccc-cc-
Confidence 366788899998888754 499999875 3568999999999999988777 88999999999975310 00
Q ss_pred CCCCcccccCcccCeeeecCCCCCCCccCCCCCCCCceEEEEEEeeCCcCCCCC-----cccHHHHHHHH
Q 029999 106 FSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNHGHRFQFKLYALDDEMHLGN-----KVTKERLLEAI 170 (184)
Q Consensus 106 ~~~~~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~g~HrY~f~vyAl~~~l~l~~-----~~~~~~l~~a~ 170 (184)
|. ....|.||+||.|.|||+|+||+|..++.+.. .++.+++.+.-
T Consensus 102 -----------------g~---~~~~Y~~P~Pp~G~HRYvflly~Q~~~~~~~~~~~R~~F~~~~Fa~~~ 151 (175)
T PLN00169 102 -----------------GQ---EVVCYESPRPTAGIHRFVFVLFRQLGRQTVYAPGWRQNFNTRDFAELY 151 (175)
T ss_pred -----------------Cc---cceeecCCCCCCCceeEEEEEEEcCCCcccCCcccCCCcCHHHHHHHh
Confidence 10 24689999999999999999999987665332 34555554443
No 10
>KOG3346 consensus Phosphatidylethanolamine binding protein [General function prediction only]
Probab=99.83 E-value=1.8e-20 Score=150.45 Aligned_cols=97 Identities=29% Similarity=0.550 Sum_probs=75.9
Q ss_pred CCCCCCCCcccccCCCCCCCCCcCeeEeccCCCCceEEEEEEecCCCCCCCCCC-cceEEEEEEccCCCCCCCCCCCCCC
Q 029999 31 INHQGRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPI-VPWTHWVVVNIPPTLKGLPEGFSGK 109 (184)
Q Consensus 31 f~~g~~lp~~~t~~g~g~~~n~sP~l~w~~~P~~tks~alim~DpDaP~~~~p~-~~~~HW~v~nIp~~~~~l~~g~~~~ 109 (184)
+..|..|+..-+. ..|.++|.+....-..|+|+|+|||||++++|+ ++|+||+|.|||++.. +..|-
T Consensus 37 v~~G~~l~pt~~~--------~~P~v~~~~~a~~~~~yTLvm~DPDaPsr~~p~~rE~lHWlV~nIPg~~~-~~~G~--- 104 (185)
T KOG3346|consen 37 VENGNELTPTQVK--------NRPIVSWDGFADPGSLYTLVMTDPDAPSRSDPKFREWLHWLVTNIPGTDG-ISKGQ--- 104 (185)
T ss_pred ecCCCEeCchhhc--------cCCeEEEcCcCCCCCeEEEEEeCCCCCCCCCCcceeEEEEEEEeecCCcc-ccCCe---
Confidence 4567777664442 359999997533446799999999999999999 8999999999998642 22221
Q ss_pred cccccCcccCeeeecCCCCCCCccCCCCCCC--CceEEEEEEeeCCcCCC
Q 029999 110 EEEIGGEYAGIKEGNNDWKVPGWRGPKLPNH--GHRFQFKLYALDDEMHL 157 (184)
Q Consensus 110 ~~~~~~~~~g~~~g~n~~g~~~Y~GP~Pp~g--~HrY~f~vyAl~~~l~l 157 (184)
....|.||.||.| .|||+|.||.|..+++.
T Consensus 105 ------------------~i~~Y~~P~Pp~~tG~HRyVfll~rQ~~~~~~ 136 (185)
T KOG3346|consen 105 ------------------EISEYLGPGPPKGTGLHRYVFLLYRQPGRLDS 136 (185)
T ss_pred ------------------EeeeeeCCCCCCCCCceEEEEEEEEcCCcccc
Confidence 2468999999964 79999999999987765
No 11
>cd00470 PTPS 6-pyruvoyl tetrahydropterin synthase (PTPS). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids, as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a carrier-mediated active transport system. Most microbes and plants lack this system and must synthesize folates de novo from guanosine triphosphate. One enzyme from this pathway is PTPS which catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin. The functional enzyme is a hexamer of identical subunits.
Probab=40.36 E-value=31 Score=26.23 Aligned_cols=44 Identities=18% Similarity=0.168 Sum_probs=27.2
Q ss_pred CCccCCCC--CCCCceEEEEEEeeCCcCCCCC-cccHHHHHHHHhcC
Q 029999 130 PGWRGPKL--PNHGHRFQFKLYALDDEMHLGN-KVTKERLLEAIEGH 173 (184)
Q Consensus 130 ~~Y~GP~P--p~g~HrY~f~vyAl~~~l~l~~-~~~~~~l~~a~~~h 173 (184)
..+.|+|- ....|+|.+.|.-..+.++-.. -.+..++.++++..
T Consensus 27 ~~~~gkC~~~~lHGH~y~v~v~v~g~~~~~~GmviDF~~lk~~l~~~ 73 (135)
T cd00470 27 LEVFGKCNNPNGHGHNYKVEVTVRGEIDPVTGMVMNLTDLKKAIEEA 73 (135)
T ss_pred ccCCCcCCCCCccCCCeEEEEEEEEeEcCCCCEEEEHHHHHHHHHHH
Confidence 35679999 6567999998887543322111 24666666555443
No 12
>TIGR03112 6_pyr_pter_rel 6-pyruvoyl tetrahydropterin synthase-related domain. Members of this family are small proteins, or small domains of larger proteins, that occur in certain Firmicutes in the same regions as members of families TIGR03110 and TIGR03111. Members of TIGR03110 resemble exosortase, a proposed protein sorting transpeptidase (see TIGR02602). TIGR03111 represents a small clade among the group 2 glycosyltransferases. Members of the current protein family resemble eukaryotic known and prokaryotic predicted 6-pyruvoyl tetrahydropterin synthases.
Probab=33.35 E-value=86 Score=23.13 Aligned_cols=39 Identities=13% Similarity=0.228 Sum_probs=27.1
Q ss_pred CCccCCCCCCCCceEEEEEEeeCCcCCCCCcccHHHHHHHHh
Q 029999 130 PGWRGPKLPNHGHRFQFKLYALDDEMHLGNKVTKERLLEAIE 171 (184)
Q Consensus 130 ~~Y~GP~Pp~g~HrY~f~vyAl~~~l~l~~~~~~~~l~~a~~ 171 (184)
..|.|+|-..+.|.|+..|+--.+.. .-.+..+|.+.++
T Consensus 13 l~~~gkc~~lHGHty~vev~v~g~~~---g~vDf~~lk~~l~ 51 (113)
T TIGR03112 13 IIINGVRGNKHPHTWEITIFVIKKED---KFILFNDVEKKVE 51 (113)
T ss_pred CCCCCCcCCcCCCcEEEEEEEEecCC---eEEEHHHHHHHHH
Confidence 45899998877899999987755441 2345666655553
No 13
>TIGR00039 6PTHBS 6-pyruvoyl tetrahydropterin synthase/QueD family protein. This model has been downgraded from hypothetical_equivalog to subfamily. The animal enzymes are known to be 6-pyruvoyl tetrahydropterin synthase. The function of the bacterial branch of the sequence lineage had been thought to be the same, but many are now taken to be QueD, and enzyme of queuosine biosynthesis. Queuosine is a hypermodified base in the wobble position of some tRNAs in most species. A new model is built to be the QueD equivalog model.
Probab=28.83 E-value=1.2e+02 Score=22.43 Aligned_cols=42 Identities=17% Similarity=0.246 Sum_probs=26.5
Q ss_pred CCccCCCCCCCCceEEEEEEeeCCcCCCCC-cccHHHHHHHHh
Q 029999 130 PGWRGPKLPNHGHRFQFKLYALDDEMHLGN-KVTKERLLEAIE 171 (184)
Q Consensus 130 ~~Y~GP~Pp~g~HrY~f~vyAl~~~l~l~~-~~~~~~l~~a~~ 171 (184)
..|.|+|-....|.|...|.--.+.++-.. -.+..++.+.++
T Consensus 17 ~~~~g~c~~lHGH~y~v~v~v~g~~~~~~G~viDf~~lk~~~~ 59 (124)
T TIGR00039 17 PGHEGKCGNLHGHSYKVDVEVSGERDPKTGMVMDFSDLKKIVK 59 (124)
T ss_pred CCCCCCCCCccCCcEEEEEEEEEeeCCCceEEEEHHHHHHHHH
Confidence 456789987777999998876654443221 235666655554
No 14
>TIGR03367 queuosine_QueD queuosine biosynthesis protein QueD. Members of this protein family, closely related to eukaryotic 6-pyruvoyl tetrahydrobiopterin synthase enzymes, are the QueD protein of queuosine biosynthesis. Queuosine is a hypermodified base in the wobble position of tRNAs for Tyr, His, Asp, and Asn in many species. This modification, although widespread, appears not to be important for viability. The queuosine precursor made by this enzyme may be converted instead to archeaosine as in some Archaea.
Probab=25.63 E-value=1.7e+02 Score=20.50 Aligned_cols=41 Identities=17% Similarity=0.348 Sum_probs=25.1
Q ss_pred CCccCCCCCCCCceEEEEEEeeCCcCCCCC-cccHHHHHHHH
Q 029999 130 PGWRGPKLPNHGHRFQFKLYALDDEMHLGN-KVTKERLLEAI 170 (184)
Q Consensus 130 ~~Y~GP~Pp~g~HrY~f~vyAl~~~l~l~~-~~~~~~l~~a~ 170 (184)
..+.|+|-....|+|...|.-..+.++-.. -.+..++.+.+
T Consensus 15 ~~~~g~c~~lHGH~y~v~v~~~~~~l~~~g~v~Df~~lk~~~ 56 (92)
T TIGR03367 15 PGYPGKCANLHGHTYKVEVTVSGEVLDEAGMVMDFSDLKAIV 56 (92)
T ss_pred CCCCCCccCcCCccEEEEEEEEEeecCCccEEEEHHHHHHHH
Confidence 456688888777999999987654433111 23455554444
No 15
>PF09336 Vps4_C: Vps4 C terminal oligomerisation domain; InterPro: IPR015415 This domain is found at the C-terminal of ATPase proteins involved in vacuolar sorting. It forms an alpha helix structure and is required for oligomerisation []. ; PDB: 1XWI_A 3EIH_C 2QPA_C 3EIE_A 2RKO_A 2QP9_X 3MHV_C 3CF3_C 3CF1_A 3CF2_A ....
Probab=24.13 E-value=25 Score=23.18 Aligned_cols=37 Identities=19% Similarity=0.317 Sum_probs=23.8
Q ss_pred CCCCCCCceEEEEEEeeC-CcCCCCCcccHHHHHHHHhc
Q 029999 135 PKLPNHGHRFQFKLYALD-DEMHLGNKVTKERLLEAIEG 172 (184)
Q Consensus 135 P~Pp~g~HrY~f~vyAl~-~~l~l~~~~~~~~l~~a~~~ 172 (184)
||.|.-.--..-.+..++ +.|..+ ..+++++.+||+.
T Consensus 4 PCs~~dp~a~~m~~~di~~~~l~~p-~it~~DF~~Al~~ 41 (62)
T PF09336_consen 4 PCSPSDPGAVEMSLMDIPAEKLKEP-PITMEDFEEALKK 41 (62)
T ss_dssp EESSSSTTEEEEEGTGS-GGGB-HH-HBCHHHHHHHHHT
T ss_pred CCCCCCccchhccHhhcCcccccCC-CCCHHHHHHHHHH
Confidence 777764445666666666 345443 6899999999863
No 16
>PLN03070 photosystem I reaction center subunit psaK 247; Provisional
Probab=22.22 E-value=16 Score=27.92 Aligned_cols=28 Identities=21% Similarity=0.256 Sum_probs=22.8
Q ss_pred CCCCcccHHHHHHHHh-cCeeEEEEEEEE
Q 029999 156 HLGNKVTKERLLEAIE-GHVLGEAVLTAI 183 (184)
Q Consensus 156 ~l~~~~~~~~l~~a~~-~hvl~~~~l~g~ 183 (184)
..+.+++..+++.+.. ||+|+.|.+-|+
T Consensus 94 ~dpaGf~~~~~La~~s~GHiiG~G~ILGL 122 (128)
T PLN03070 94 GDPAGFTLADTLACGAVGHIIGVGVVLGL 122 (128)
T ss_pred CCCCCcCHHHHHHhhhHHHHHHHHHHhcc
Confidence 4567899999999996 999998876553
No 17
>cd02859 AMPKbeta_GBD_like AMP-activated protein kinase (AMPK) beta subunit glycogen binding domain (GBD). AMPK is a metabolic stress sensing protein that senses AMP/ATP and has recently been found to act as a glycogen sensor as well. The protein functions as a alpha-beta-gamma heterotrimer. This domain is the glycogen binding domain of the beta subunit.
Probab=20.57 E-value=73 Score=21.60 Aligned_cols=13 Identities=15% Similarity=0.319 Sum_probs=9.6
Q ss_pred CCCCCCCceEEEEE
Q 029999 135 PKLPNHGHRFQFKL 148 (184)
Q Consensus 135 P~Pp~g~HrY~f~v 148 (184)
+.|| |.|+|.|.|
T Consensus 42 ~L~~-g~y~YkF~V 54 (79)
T cd02859 42 RLPP-GKYQYKFIV 54 (79)
T ss_pred EcCC-CCEEEEEEE
Confidence 4444 679999987
Done!