Query 030052
Match_columns 183
No_of_seqs 113 out of 451
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 07:46:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030052.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030052hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00654 eIF6 translation in 100.0 8.4E-58 1.8E-62 377.6 23.7 176 3-180 1-176 (200)
2 PF01912 eIF-6: eIF-6 family; 100.0 9.8E-58 2.1E-62 375.8 14.5 175 3-180 1-175 (199)
3 COG1976 TIF6 Translation initi 100.0 7.7E-56 1.7E-60 365.0 21.1 176 1-180 2-177 (222)
4 cd00527 IF6 Ribosome anti-asso 100.0 1.5E-55 3.2E-60 368.7 23.2 176 1-178 44-220 (220)
5 TIGR00323 eIF-6 translation in 100.0 7.5E-55 1.6E-59 363.3 22.6 172 1-179 42-215 (215)
6 PRK04046 translation initiatio 100.0 1.3E-54 2.8E-59 363.5 23.0 173 3-180 47-221 (222)
7 PRK04046 translation initiatio 100.0 1.8E-52 4E-57 350.6 23.6 176 1-180 1-176 (222)
8 PTZ00136 eukaryotic translatio 100.0 3.8E-52 8.2E-57 352.1 23.7 180 1-180 1-180 (247)
9 COG1976 TIF6 Translation initi 100.0 4.1E-49 8.9E-54 325.1 17.8 173 3-180 48-222 (222)
10 cd00527 IF6 Ribosome anti-asso 100.0 1.2E-46 2.6E-51 315.0 23.5 176 3-180 2-177 (220)
11 PTZ00136 eukaryotic translatio 100.0 1.6E-46 3.5E-51 317.8 21.2 174 2-180 48-225 (247)
12 TIGR00323 eIF-6 translation in 100.0 1.2E-44 2.6E-49 302.0 20.9 171 4-180 1-171 (215)
13 KOG3185 Translation initiation 100.0 1.3E-43 2.9E-48 289.2 16.9 180 1-180 1-180 (245)
14 smart00654 eIF6 translation in 100.0 3.5E-41 7.5E-46 278.6 18.6 155 3-159 45-200 (200)
15 PF01912 eIF-6: eIF-6 family; 100.0 3.8E-42 8.2E-47 283.3 10.0 152 3-159 45-199 (199)
16 KOG3185 Translation initiation 99.9 2.5E-25 5.3E-30 182.1 13.8 176 2-180 48-225 (245)
17 PF02274 Amidinotransf: Amidin 43.6 2E+02 0.0042 24.2 9.5 125 14-140 123-260 (281)
18 COG2957 Peptidylarginine deimi 43.1 1E+02 0.0022 27.9 6.8 106 31-136 67-198 (346)
19 PRK13111 trpA tryptophan synth 41.2 1.3E+02 0.0028 25.8 7.2 109 22-165 119-231 (258)
20 COG0159 TrpA Tryptophan syntha 35.3 2.2E+02 0.0048 24.9 7.7 80 71-163 153-234 (265)
21 PF02812 ELFV_dehydrog_N: Glu/ 34.1 78 0.0017 24.5 4.3 57 114-178 38-95 (131)
22 PF09419 PGP_phosphatase: Mito 33.6 50 0.0011 26.7 3.3 33 107-141 81-113 (168)
23 PRK04115 hypothetical protein; 30.8 85 0.0018 24.8 4.0 54 74-137 45-102 (137)
24 PF02274 Amidinotransf: Amidin 29.3 3.4E+02 0.0074 22.7 9.5 158 18-175 70-252 (281)
25 TIGR03636 L23_arch archaeal ri 27.9 87 0.0019 22.1 3.3 31 112-142 16-47 (77)
26 TIGR03380 agmatine_aguA agmati 26.7 3.6E+02 0.0079 24.3 7.9 61 119-179 123-192 (357)
27 COG0089 RplW Ribosomal protein 25.0 1.1E+02 0.0025 22.5 3.6 25 115-139 26-51 (94)
28 COG0334 GdhA Glutamate dehydro 24.8 34 0.00073 31.7 0.9 56 114-178 68-125 (411)
29 PF01136 Peptidase_U32: Peptid 24.2 1.3E+02 0.0028 24.5 4.2 29 66-94 60-89 (233)
30 PF12404 DUF3663: Peptidase ; 24.1 74 0.0016 22.7 2.4 30 150-180 18-47 (77)
31 PLN02591 tryptophan synthase 24.0 3.6E+02 0.0077 23.1 7.0 108 22-164 108-220 (250)
32 PRK14548 50S ribosomal protein 21.5 1.3E+02 0.0029 21.5 3.3 50 70-142 4-54 (84)
33 CHL00030 rpl23 ribosomal prote 20.9 1.5E+02 0.0032 21.7 3.5 28 112-139 21-49 (93)
34 PF09419 PGP_phosphatase: Mito 20.6 1.5E+02 0.0032 24.0 3.8 29 22-52 79-113 (168)
35 KOG4175 Tryptophan synthase al 20.4 2.4E+02 0.0051 24.3 5.0 107 22-164 125-237 (268)
No 1
>smart00654 eIF6 translation initiation factor 6.
Probab=100.00 E-value=8.4e-58 Score=377.56 Aligned_cols=176 Identities=65% Similarity=0.988 Sum_probs=172.3
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQ 82 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~ 82 (183)
.|++|+||++||+|+++||+++|+|+.+++++++.|++.|+ ++++++++++++++|+++++||||+||||.++++|++
T Consensus 1 ~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~~~~~i~e~L~--v~V~~~~i~~~~~iGnli~~N~~g~lv~~~~~~~el~ 78 (200)
T smart00654 1 DRLSFEGSPNIGVYIKLTNSYCLVPVGGDENFYSVIEEVLG--VPVVHTSIGGSRLIGRLTVGNSNGLLVPNTTTDQELQ 78 (200)
T ss_pred CeEEEcCCcceeEEEEEeCCEEEECCCCCHHHHHHHHHhcC--CcEEEEecCCceeEEEEEEEcCCEEEeCCCCCHHHHH
Confidence 37999999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEEec
Q 030052 83 HLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVR 162 (183)
Q Consensus 83 ~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~lV~ 162 (183)
.|++.|+++++|.+++.+++|+||+++|||||||+||+++++|+|+|+|+||||++++|++|.|+|||++||||||+|||
T Consensus 79 ~i~~~L~d~v~V~~~~~~~~avGn~iv~Nd~g~lvhp~~s~ee~~~i~d~L~V~v~~gTi~G~~~VGs~~VannkG~lv~ 158 (200)
T smart00654 79 HLRNSLPDSVEVQRVEERLTALGNLILCNDHGALASPDLSKETEEIISDVLGVEVFRGTIAGNITVGSYCVVTNKGGLVH 158 (200)
T ss_pred HHHHhcCCCeeEEEEccccccceeEEEEcCceEEECCCCCHHHHHHHHHHhCCeEEEEEecCcccceEEEEEECCEEEEC
Confidence 99999987799999998899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHhhccc
Q 030052 163 HRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 163 ~~tt~~El~~i~~~l~~~ 180 (183)
|+||++|++|||++|++-
T Consensus 159 ~~tt~~El~~ie~~l~v~ 176 (200)
T smart00654 159 PDTSEEELKELSELLGVP 176 (200)
T ss_pred CCCCHHHHHHHHHHhCCC
Confidence 999999999999999874
No 2
>PF01912 eIF-6: eIF-6 family; InterPro: IPR002769 This family includes eukaryotic translation initiation factor 6 (eIF6) as well as presumed archaeal homologues. The assembly of 80S ribosomes requires joining of the 40S and 60S subunits, which is triggered by the formation of an initiation complex on the 40S subunit. This event is rate-limiting for translation, and depends on external stimuli and the status of the cell. Eukaryotic translation initiation factor 6 (eIF6) binds specifically to the free 60S ribosomal subunit and prevents its association with the 40S ribosomal subunit ribosomes []. Furthermore, eIF6 interacts in the cytoplasm with RACK1, a receptor for activated protein kinase C (PKC). RACK1 is a major component of translating ribosomes, which harbour significant amounts of PKC. Loading 60S subunits with eIF6 caused a dose-dependent translational block and impairment of 80S formation, which are reversed by expression of RACK1 and stimulation of PKC in vivo and in vitro. PKC stimulation leads to eIF6 phosphorylation and its release, promoting 80S subunit formation. RACK1 provides a physical and functional link between PKC signalling and ribosome activation.; GO: 0043022 ribosome binding, 0042256 mature ribosome assembly; PDB: 4A19_J 4A1D_J 4A1B_J 4A18_J 1G61_A 2X7N_B 1G62_A.
Probab=100.00 E-value=9.8e-58 Score=375.78 Aligned_cols=175 Identities=50% Similarity=0.723 Sum_probs=151.1
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQ 82 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~ 82 (183)
+|++|+||++||+|+++||+|||+|++++++.++.|++.|+ +++++|+|++|+++|+|+++|+||+|||+.++++|++
T Consensus 1 ~r~~~~gs~~IGvy~~~t~~~~lvp~~~~~~~~~~i~e~L~--v~vv~t~I~gs~lvG~l~~GNsnGllvp~~~~d~El~ 78 (199)
T PF01912_consen 1 QRLSFYGSPNIGVYARATNDYALVPPGVSEKFVSIIEEELD--VEVVETTIAGSRLVGSLCVGNSNGLLVPSIITDEELE 78 (199)
T ss_dssp -EE-BTTBS-HHHHEEEESSEEEEETTS-HHHHHHHHHHHT--SEEEEE-BTTBS-HHHH-EEESSEEEEETT--HHHHH
T ss_pred CeEEEeCCCCEEEEEEEcCCEEEEcCCCCHHHHHHHHHhcC--CcEEEEEecCcceEEEEEEEcCCEEEECCcCCHHHHH
Confidence 58999999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEEec
Q 030052 83 HLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVR 162 (183)
Q Consensus 83 ~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~lV~ 162 (183)
.|++.++ +++|.+++++++|+||+|+|||+||++||++++++.|.|+|+|||||+++||+|.++|||++|+||||+|||
T Consensus 79 ~Lk~~~~-~v~V~~l~~k~tAlGN~Il~ND~~Alv~p~l~~e~~~~I~d~LgVeV~~~tia~~~~VGs~~v~tn~G~Lvh 157 (199)
T PF01912_consen 79 HLKESLP-DVNVEVLPSKLTALGNLILANDKGALVHPELSKETIEIISDVLGVEVFRGTIAGIKTVGSAAVATNKGGLVH 157 (199)
T ss_dssp HHHHHS--TSEEEEE--SSS-HHHHEEE-SSEEEE-CCGGHHHHHHHHHHHTSEEEE--BTTBS-CCCSEEE-SSEEEE-
T ss_pred HHHhhCC-CceEEEeCceeccccCEEEEcCcceEEcCCCCHHHHHHHHHhcCceEEEEEecCcccceeeEEEeCcEEEEC
Confidence 9999998 899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHhhccc
Q 030052 163 HRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 163 ~~tt~~El~~i~~~l~~~ 180 (183)
|+||++|+++++++|++-
T Consensus 158 P~~s~eEl~~l~~~l~v~ 175 (199)
T PF01912_consen 158 PDASEEELEELEELLGVP 175 (199)
T ss_dssp TT--HHHHHHHHHHHTSS
T ss_pred CCCCHHHHHHHHHHhCCc
Confidence 999999999999999863
No 3
>COG1976 TIF6 Translation initiation factor 6 (eIF-6) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.7e-56 Score=365.02 Aligned_cols=176 Identities=44% Similarity=0.631 Sum_probs=172.2
Q ss_pred CceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHH
Q 030052 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQE 80 (183)
Q Consensus 1 m~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e 80 (183)
|+.|++++|||+||+|+.+||+|+|+|+..+++.++.|++.|+ +++++++|++|+++|.|+++|+||+|||+.+.++|
T Consensus 2 mi~r~~~~gs~~IGvy~~~t~~~~lv~~~~~e~~~~~i~e~L~--v~vv~ttI~gS~lvG~l~~gNsnG~lvP~~~~d~E 79 (222)
T COG1976 2 MIRRLSFEGSPNIGVYAKATESYALVPPGLDEKFVDVIREVLG--VPVVETTIAGSRLVGALTAGNSNGLLVPYGVRDEE 79 (222)
T ss_pred ceEEEEecCCCceEEEEEecccEEEEcCCCCHHHHHHHHHHhC--CcEEEEEecCceEEeEEEeecCCceEcCCcccHHH
Confidence 8899999999999999999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEE
Q 030052 81 LQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGL 160 (183)
Q Consensus 81 ~~~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~l 160 (183)
+++|++.+ +++|.+++++++|+||+|+|||+|||+||++++++.|.|+|+||||++||||+|+|+|||++|+||||+|
T Consensus 80 l~~l~~~~--~v~V~~l~~k~nAlGN~Il~ND~~Alvhp~l~~~a~k~I~d~LgVev~rgtIag~~tVGsa~v~tnkG~L 157 (222)
T COG1976 80 LRRLKNAL--GVEVLILPTKLNALGNLILANDKGALVHPDLSDEAEKEIEDVLGVEVVRGTIAGIPTVGSAGVLTNKGGL 157 (222)
T ss_pred HHhhcccC--CceEEEeCccccccccEEEecCceeEecCccCHHHHHHHHhhcceEEEEEEecCccceeeEEEEecCcce
Confidence 99999844 5999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCCHHHHHHHHHhhccc
Q 030052 161 VRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 161 V~~~tt~~El~~i~~~l~~~ 180 (183)
|||+||++|++++++.|++-
T Consensus 158 vhP~~s~~Ele~Lse~f~V~ 177 (222)
T COG1976 158 VHPETSDEELEELSELFGVP 177 (222)
T ss_pred eCCCCCHHHHHHHHHHhCee
Confidence 99999999999999999863
No 4
>cd00527 IF6 Ribosome anti-association factor IF6 binds the large ribosomal subunit and prevents the two subunits from associating during translation initiation. IF6 comprises a family of translation factors that includes both eukaryotic (eIF6) and archeal (aIF6) members. All members of this family have a conserved pentameric fold referred to as a beta/alpha propeller. The eukaryotic IF6 members have a moderately conserved C-terminal extension which is not required for ribosomal binding, and may have an alternative function.
Probab=100.00 E-value=1.5e-55 Score=368.74 Aligned_cols=176 Identities=16% Similarity=0.184 Sum_probs=168.0
Q ss_pred CceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHH
Q 030052 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQE 80 (183)
Q Consensus 1 m~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e 80 (183)
|++|++|+||++||+|+++||+|+|+|+.+++++++.|++.|+.+|+++++++.+| ++|+++++||+|+||||.++++|
T Consensus 44 ~i~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~e~~~l~~~L~~~V~v~~~~~~~s-~iGnli~~Nd~g~lv~~~~~~~e 122 (220)
T cd00527 44 PVVRTTIGGSRLVGSLTVGNSNGLLLPHTTTDQELQHIRNSLPDEVGVLRVKENLS-ALGNVILCNDHGALVHPDLSKEA 122 (220)
T ss_pred cEEEEEEcCccceeEEEEEeCCEEEECCCCCHHHHHHHHHhcCCCeEEEEccccce-eeeeEEEEcCceEEeCCCCCHHH
Confidence 78999999999999999999999999999999999999999998899999988777 99999999999999999999999
Q ss_pred HHHHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCceE
Q 030052 81 LQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRGG 159 (183)
Q Consensus 81 ~~~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G~ 159 (183)
++.|++.|++++.+.++ ++++++||+++|||+|||+||+++++|+++|+|+||||+++||+ +|.|+|||++||||||+
T Consensus 123 ~~~i~~~L~v~V~~~~i-~~~~avGn~iv~Nd~g~LvhP~~s~ee~~~i~d~L~V~v~~gTvN~G~~~VGs~~VannkG~ 201 (220)
T cd00527 123 EEIIEDVLGVEVFRGTI-AGIKTVGSAGVLTNKGGLVHPKTSDEELEELSELFKVPVVAGTVNFGSQYVGAGLVANSKGA 201 (220)
T ss_pred HHHHHHhcCCcEEEEEc-cCcccceeEEEEeccEEEECCCCCHHHHHHHHHHhCCcEEEEEEcCCCCceeEEEEEECCEE
Confidence 99999999855544444 67999999999999999999999999999999999999999999 99999999999999999
Q ss_pred EecCCCCHHHHHHHHHhhc
Q 030052 160 LVRHRISSSRHLLKHFLLQ 178 (183)
Q Consensus 160 lV~~~tt~~El~~i~~~l~ 178 (183)
||||+||++|++|||++|+
T Consensus 202 lvg~~tt~~El~~ie~~l~ 220 (220)
T cd00527 202 VVGSDTTGPELSRIEDALG 220 (220)
T ss_pred EECCCCCHHHHHHHHHHhC
Confidence 9999999999999999996
No 5
>TIGR00323 eIF-6 translation initiation factor eIF-6, putative. This model finds translation initiation factor eIF-6 of eukaryotes, which is a ribosome dissociation factor. It also finds a set of apparent archaeal orthologs, slightly shorter proteins not yet shown to act as initiation factors; these probably should be designated as translation initiation factor aIF-6, putative.
Probab=100.00 E-value=7.5e-55 Score=363.35 Aligned_cols=172 Identities=17% Similarity=0.186 Sum_probs=166.3
Q ss_pred CceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHH
Q 030052 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQE 80 (183)
Q Consensus 1 m~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e 80 (183)
|++|++|+||++||+|+++||+++|+|+..++++++.|++.|+ |+++++++ +++|+++++||||+|+||.++++|
T Consensus 42 ~i~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~~~~~l~e~l~--V~~i~t~i---~~iGnli~~Nd~G~lv~~~~~~~e 116 (215)
T TIGR00323 42 PVLHTTIAGSSLVGAMTAGNSRGLLVPDQVLDHELDSLPDSLK--VQRIEERL---TALGNNILCNDYGALASPELDRDT 116 (215)
T ss_pred cEEEEEEcCCcceeEEEEEcCCEEEECCCcCHHHHHhhHhhcC--eEEEeeEE---EeeeeEEEEcCceEEeCCCCCHHH
Confidence 7899999999999999999999999999999999999999999 99999999 999999999999999999999999
Q ss_pred HHHHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCce
Q 030052 81 LQHLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRG 158 (183)
Q Consensus 81 ~~~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G 158 (183)
++.|++.|++ +|.+.+ ++.+++||.+++||+|||+||+++++|+|.|+|+||||+.+||+ +|.|+|||++||||+|
T Consensus 117 ~~~i~~~L~v--~V~~~~i~~~~~vG~~~v~nN~G~lvhP~~s~ee~~~i~d~LgV~v~~gTin~G~~~VGs~~Vann~G 194 (215)
T TIGR00323 117 EELISDVLGV--EVFRGTIAGLITVGSYAVVTNRGGLVHPQTSVQEQEELSSLLGVELVAGTVNRGTTVVGAGMVANSKG 194 (215)
T ss_pred HHHHHHhcCC--cEEEEecccccccceEEEEeCcEEEECCCCCHHHHHHHHHHhCCcEEEEEecCCCCceeEEEEEECCE
Confidence 9999999984 555556 89999999999999999999999999999999999999999999 7999999999999999
Q ss_pred EEecCCCCHHHHHHHHHhhcc
Q 030052 159 GLVRHRISSSRHLLKHFLLQC 179 (183)
Q Consensus 159 ~lV~~~tt~~El~~i~~~l~~ 179 (183)
+||||+||++|++|||++|+|
T Consensus 195 ~lv~~~tt~~El~~ie~~l~~ 215 (215)
T TIGR00323 195 AVVGLDTTGPELSIIEEALGL 215 (215)
T ss_pred EEECCCCCHHHHHHHHHHhCc
Confidence 999999999999999999986
No 6
>PRK04046 translation initiation factor IF-6; Provisional
Probab=100.00 E-value=1.3e-54 Score=363.54 Aligned_cols=173 Identities=21% Similarity=0.208 Sum_probs=167.8
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQ 82 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~ 82 (183)
+|++++||+++|+|+++||+++|+|+.+++++++.|++.|| |+++++++ +++++|+++++||+|+|+||.++++|++
T Consensus 47 ~~~~i~gs~~iG~~i~~N~~g~lvp~~~~~~e~~~l~e~L~--v~V~~~~~-~~~~vGn~i~~N~~G~lv~p~~~~ee~~ 123 (222)
T PRK04046 47 VETTIAGSSLVGSLAAGNSNGILVPSIVLDEELELLKEALD--LNVEVLPS-KLTALGNLILANDKGALVHPELSDEARK 123 (222)
T ss_pred EEEEecCCcceEEEEEEcCceEEeCCCCCHHHHHHHHHhcC--ceEEEEec-cccceEeEEEEcCcEEEECCCCCHHHHH
Confidence 68999999999999999999999999999999999999999 99999999 9999999999999999999999999999
Q ss_pred HHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCceEE
Q 030052 83 HLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRGGL 160 (183)
Q Consensus 83 ~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G~l 160 (183)
.|++.|+ +++.+.+ ++++++||+++||||||+|||+++++|+++|+|+||||+.++|+ +|.|+|||++||||||+|
T Consensus 124 ~i~~~L~--V~v~~~ti~~~~~VGs~ivaNd~G~lv~p~~t~~ei~~i~~~l~v~~~~gTvn~G~~~VGs~~van~~G~l 201 (222)
T PRK04046 124 VIEDTLG--VEVERGTIAGLKTVGSAGVVTNKGGLVHPDATDEELKFLEDLFKVEVDIGTVNFGSPLVGSGLVANSKGAV 201 (222)
T ss_pred HHHHhhC--ceEEEEecCCccceeeEEEEeCCEEEECCCCCHHHHHHHHHHhCCceEEeEEcCCCCceeEEEEEeCCEEE
Confidence 9999997 5555555 99999999999999999999999999999999999999999999 999999999999999999
Q ss_pred ecCCCCHHHHHHHHHhhccc
Q 030052 161 VRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 161 V~~~tt~~El~~i~~~l~~~ 180 (183)
|||+||++|++|||++|+|+
T Consensus 202 vg~~tt~~El~~ie~~l~~~ 221 (222)
T PRK04046 202 VGSDTTGPELGRIEDALGFI 221 (222)
T ss_pred ECCCCCHHHHHHHHHHhccC
Confidence 99999999999999999987
No 7
>PRK04046 translation initiation factor IF-6; Provisional
Probab=100.00 E-value=1.8e-52 Score=350.58 Aligned_cols=176 Identities=37% Similarity=0.554 Sum_probs=172.4
Q ss_pred CceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHH
Q 030052 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQE 80 (183)
Q Consensus 1 m~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e 80 (183)
|+.|++|+||++||+|+++||++||+|+++++++++.|++.|+ |+++++++++++++|+|+++||+|+++||.++++|
T Consensus 1 ~i~~~~i~gs~~iG~~~~~n~~~~lvp~~~~~~~~~~i~~~L~--v~i~~~~i~gs~~iG~~i~~N~~g~lvp~~~~~~e 78 (222)
T PRK04046 1 MIRRLSIFGSPNIGVYARATDDYALVPPDLDEKTVEKIEETLG--VEVVETTIAGSSLVGSLAAGNSNGILVPSIVLDEE 78 (222)
T ss_pred CcEEEEEcCCCceEEEEEEcCCEEEECCCCCHHHHHHHHHhcC--ceEEEEEecCCcceEEEEEEcCceEEeCCCCCHHH
Confidence 8999999999999999999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEE
Q 030052 81 LQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGL 160 (183)
Q Consensus 81 ~~~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~l 160 (183)
++.|++.|+ +++.+++.+.+++||++++||+||++||+++++|++.|+|+|||+++++|++|.++|||+++|||+|+|
T Consensus 79 ~~~l~e~L~--v~V~~~~~~~~~vGn~i~~N~~G~lv~p~~~~ee~~~i~~~L~V~v~~~ti~~~~~VGs~ivaNd~G~l 156 (222)
T PRK04046 79 LELLKEALD--LNVEVLPSKLTALGNLILANDKGALVHPELSDEARKVIEDTLGVEVERGTIAGLKTVGSAGVVTNKGGL 156 (222)
T ss_pred HHHHHHhcC--ceEEEEeccccceEeEEEEcCcEEEECCCCCHHHHHHHHHhhCceEEEEecCCccceeeEEEEeCCEEE
Confidence 999999996 788888889999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCCHHHHHHHHHhhccc
Q 030052 161 VRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 161 V~~~tt~~El~~i~~~l~~~ 180 (183)
|||++|++|+++|+++|++-
T Consensus 157 v~p~~t~~ei~~i~~~l~v~ 176 (222)
T PRK04046 157 VHPDATDEELKFLEDLFKVE 176 (222)
T ss_pred ECCCCCHHHHHHHHHHhCCc
Confidence 99999999999999999864
No 8
>PTZ00136 eukaryotic translation initiation factor 6-like protein; Provisional
Probab=100.00 E-value=3.8e-52 Score=352.07 Aligned_cols=180 Identities=71% Similarity=1.077 Sum_probs=177.2
Q ss_pred CceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHH
Q 030052 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQE 80 (183)
Q Consensus 1 m~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e 80 (183)
|+.|++|+||++||+|+++||+|||+|++.+++.++.|++.|+..+++++++|++|+++|.|++||+||+|||+.++|+|
T Consensus 1 m~~r~~~~gs~~IGVf~~~t~~y~lvp~~~~~~~~~~~~~~L~~~v~vv~tsI~gs~lvG~l~~gN~nGllvp~~~~d~E 80 (247)
T PTZ00136 1 MALRTQFENSNDIGVFSKLTNSYCLVALGGSENFYSVFESELAPHIPVVHTTIGGTRVIGRLTVGNRKGLLVPSICTDQE 80 (247)
T ss_pred CceeEEecCCCcEEEEEEEeCcEEEEcCCCCHHHHHHHHHHhcCCccEEEEEecCceeEEEEEeecCCeEEcCCcCCHHH
Confidence 99999999999999999999999999999999999999999998899999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEE
Q 030052 81 LQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGL 160 (183)
Q Consensus 81 ~~~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~l 160 (183)
+++|++.|+++++|.+++.+++|+||.++|||++||+||+++++..+.|+|+||||+.++||+|.++|||.+++||||+|
T Consensus 81 l~~l~~~l~d~v~V~~l~~~~saiGn~i~~ND~~alV~p~l~~~~~e~I~d~L~VeVi~~tIag~~lVGs~~v~Nn~G~L 160 (247)
T PTZ00136 81 LQHLRNSLPDSVKVQRVEERLSALGNCIACNDYVALIHPDLDRETEEIIQDVLGVEVFRTTIAGNVLVGTYCVFTNQGGL 160 (247)
T ss_pred HHHHHHhCcCCccEEEeCCccccceeEEEEcCCEEEECCCCCHHHHHHHHHhhCCcEEEEEecCCceEEEEEEEeCcEEE
Confidence 99999999888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCCHHHHHHHHHhhccc
Q 030052 161 VRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 161 V~~~tt~~El~~i~~~l~~~ 180 (183)
|||+++++|+++|+++||+-
T Consensus 161 VhP~~s~ee~~~i~d~L~V~ 180 (247)
T PTZ00136 161 VHPKTSVQEMDELSSLLQVP 180 (247)
T ss_pred ECCCCCHHHHHHHHHHhCCc
Confidence 99999999999999999863
No 9
>COG1976 TIF6 Translation initiation factor 6 (eIF-6) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.1e-49 Score=325.12 Aligned_cols=173 Identities=20% Similarity=0.247 Sum_probs=164.8
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQ 82 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~ 82 (183)
++++|.||+++|.++++|++++|+|+.+.++|++.|++.++.+|.++++++ +++||++++||+|+|+||.++++..|
T Consensus 48 v~ttI~gS~lvG~l~~gNsnG~lvP~~~~d~El~~l~~~~~v~V~~l~~k~---nAlGN~Il~ND~~Alvhp~l~~~a~k 124 (222)
T COG1976 48 VETTIAGSRLVGALTAGNSNGLLVPYGVRDEELRRLKNALGVEVLILPTKL---NALGNLILANDKGALVHPDLSDEAEK 124 (222)
T ss_pred EEEEecCceEEeEEEeecCCceEcCCcccHHHHHhhcccCCceEEEeCccc---cccccEEEecCceeEecCccCHHHHH
Confidence 789999999999999999999999999999999999987775677888766 99999999999999999999999999
Q ss_pred HHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCceEE
Q 030052 83 HLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRGGL 160 (183)
Q Consensus 83 ~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G~l 160 (183)
.|+|.|+ |++.+.+ ++..++|+..++||||+||||++|++|+|+++++|||+++.||+ +|.++||+|+|||++|++
T Consensus 125 ~I~d~Lg--Vev~rgtIag~~tVGsa~v~tnkG~LvhP~~s~~Ele~Lse~f~V~v~~GTvN~Gs~~VG~glVaNs~g~l 202 (222)
T COG1976 125 EIEDVLG--VEVVRGTIAGIPTVGSAGVLTNKGGLVHPETSDEELEELSELFGVPVDVGTVNFGSPYVGAGLVANSKGAL 202 (222)
T ss_pred HHHhhcc--eEEEEEEecCccceeeEEEEecCcceeCCCCCHHHHHHHHHHhCeeEEEeeecCCCcceeeEEEEcCCceE
Confidence 9999998 6666666 99999999999999999999999999999999999999999999 999999999999999999
Q ss_pred ecCCCCHHHHHHHHHhhccc
Q 030052 161 VRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 161 V~~~tt~~El~~i~~~l~~~ 180 (183)
||.+||+|||.|||++|+++
T Consensus 203 vG~dTTgpEl~rIe~aLg~~ 222 (222)
T COG1976 203 VGEDTTGPELARIEDALGFI 222 (222)
T ss_pred EcCCCCCchHHHHHHHhccC
Confidence 99999999999999999964
No 10
>cd00527 IF6 Ribosome anti-association factor IF6 binds the large ribosomal subunit and prevents the two subunits from associating during translation initiation. IF6 comprises a family of translation factors that includes both eukaryotic (eIF6) and archeal (aIF6) members. All members of this family have a conserved pentameric fold referred to as a beta/alpha propeller. The eukaryotic IF6 members have a moderately conserved C-terminal extension which is not required for ribosomal binding, and may have an alternative function.
Probab=100.00 E-value=1.2e-46 Score=314.99 Aligned_cols=176 Identities=60% Similarity=0.909 Sum_probs=167.3
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQ 82 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~ 82 (183)
+|++|+||++||+|+++||+|||+|++++++..+.|++.|+ ++++++++++++++|.|+++|++|+++|+.++++|++
T Consensus 2 ~~~~~~g~~~iGv~~~~~~~~~lvp~~~~~~~~~~i~e~L~--v~i~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~e~~ 79 (220)
T cd00527 2 IRLSFEGSPNIGVFAKATNSYCLVPPGGDENFVSKFEEELG--VPVVRTTIGGSRLVGSLTVGNSNGLLLPHTTTDQELQ 79 (220)
T ss_pred eeEEEeCCCCeEEEEEEeccEEEEcCCCCHHHHHHHHHHhC--CcEEEEEEcCccceeEEEEEeCCEEEECCCCCHHHHH
Confidence 79999999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEEec
Q 030052 83 HLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVR 162 (183)
Q Consensus 83 ~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~lV~ 162 (183)
.|++.|+.++++.+.+.+.+++||++++||+|+++||.++++|++.|+|+|+|+|+++++++.+.||+.+++||||+|||
T Consensus 80 ~l~~~L~~~V~v~~~~~~~s~iGnli~~Nd~g~lv~~~~~~~e~~~i~~~L~v~V~~~~i~~~~avGn~iv~Nd~g~Lvh 159 (220)
T cd00527 80 HIRNSLPDEVGVLRVKENLSALGNVILCNDHGALVHPDLSKEAEEIIEDVLGVEVFRGTIAGIKTVGSAGVLTNKGGLVH 159 (220)
T ss_pred HHHHhcCCCeEEEEccccceeeeeEEEEcCceEEeCCCCCHHHHHHHHHhcCCcEEEEEccCcccceeEEEEeccEEEEC
Confidence 99999975566655544444999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHhhccc
Q 030052 163 HRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 163 ~~tt~~El~~i~~~l~~~ 180 (183)
|+++++|++.|+++|++-
T Consensus 160 P~~s~ee~~~i~d~L~V~ 177 (220)
T cd00527 160 PKTSDEELEELSELFKVP 177 (220)
T ss_pred CCCCHHHHHHHHHHhCCc
Confidence 999999999999999863
No 11
>PTZ00136 eukaryotic translation initiation factor 6-like protein; Provisional
Probab=100.00 E-value=1.6e-46 Score=317.77 Aligned_cols=174 Identities=11% Similarity=0.106 Sum_probs=161.7
Q ss_pred ceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHh--CCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHH
Q 030052 2 ATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAEL--ADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQ 79 (183)
Q Consensus 2 ~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L--~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~ 79 (183)
.++++|+||+++|.++++|++++|+|+.+.++|++.|++.| +.+|..++ .+.+++|+++++||+++||||.++++
T Consensus 48 vv~tsI~gs~lvG~l~~gN~nGllvp~~~~d~El~~l~~~l~d~v~V~~l~---~~~saiGn~i~~ND~~alV~p~l~~~ 124 (247)
T PTZ00136 48 VVHTTIGGTRVIGRLTVGNRKGLLVPSICTDQELQHLRNSLPDSVKVQRVE---ERLSALGNCIACNDYVALIHPDLDRE 124 (247)
T ss_pred EEEEEecCceeEEEEEeecCCeEEcCCcCCHHHHHHHHHhCcCCccEEEeC---CccccceeEEEEcCCEEEECCCCCHH
Confidence 37899999999999999999999999999999999999988 53344455 45599999999999999999999999
Q ss_pred HHHHHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCc
Q 030052 80 ELQHLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNR 157 (183)
Q Consensus 80 e~~~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~ 157 (183)
..+.|++.|+ |++.+.+ ++...+|++.++||+||||||+++++|+++|+|+||||+++||+ +|.|+||||+||||+
T Consensus 125 ~~e~I~d~L~--VeVi~~tIag~~lVGs~~v~Nn~G~LVhP~~s~ee~~~i~d~L~V~v~~gTVn~G~~~VGsg~VaNn~ 202 (247)
T PTZ00136 125 TEEIIQDVLG--VEVFRTTIAGNVLVGTYCVFTNQGGLVHPKTSVQEMDELSSLLQVPLVAGTVNRGSDVIGAGLVVNDW 202 (247)
T ss_pred HHHHHHHhhC--CcEEEEEecCCceEEEEEEEeCcEEEECCCCCHHHHHHHHHHhCCcEEEeeecCCCCceeEEEEEECC
Confidence 9999999998 5555555 89999999999999999999999999999999999999999999 799999999999999
Q ss_pred eEEecCCCCHHHHHHHHHhhccc
Q 030052 158 GGLVRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 158 G~lV~~~tt~~El~~i~~~l~~~ 180 (183)
|++|||+||++|+++||++|++-
T Consensus 203 G~lvg~~TT~~El~~Ie~~l~v~ 225 (247)
T PTZ00136 203 AAFCGMDTTATEISVIERIFKLR 225 (247)
T ss_pred EEEECCCCCHHHHHHHHHHhCCC
Confidence 99999999999999999999874
No 12
>TIGR00323 eIF-6 translation initiation factor eIF-6, putative. This model finds translation initiation factor eIF-6 of eukaryotes, which is a ribosome dissociation factor. It also finds a set of apparent archaeal orthologs, slightly shorter proteins not yet shown to act as initiation factors; these probably should be designated as translation initiation factor aIF-6, putative.
Probab=100.00 E-value=1.2e-44 Score=302.04 Aligned_cols=171 Identities=53% Similarity=0.821 Sum_probs=165.1
Q ss_pred EEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHHH
Q 030052 4 RLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQH 83 (183)
Q Consensus 4 ~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~~ 83 (183)
|++|+|||+||+|+++||+|||+|++.+++..+.|++.|+ ++++++++++++.+|.|+++||+|+++|+..++++++.
T Consensus 1 ~~~~~g~~~iGv~~~~~~~~~~vp~~~~~~~~~~~~e~l~--v~i~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~~~~~ 78 (215)
T TIGR00323 1 RTQFSGNPEIGVYAKVTEEYALVPVNGSENFYSAFEEELE--VPVLHTTIAGSSLVGAMTAGNSRGLLVPDQVLDHELDS 78 (215)
T ss_pred CeeeeCCCCEEEEEEEeCcEEEEcCCCCHHHHHHHHHHhC--CcEEEEEEcCCcceeEEEEEcCCEEEECCCcCHHHHHh
Confidence 6899999999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred HHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEEecC
Q 030052 84 LRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVRH 163 (183)
Q Consensus 84 i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~lV~~ 163 (183)
|++.| ++.+++.+++++||++++||+|+++||.++++|++.|+|.|+++|.+.++++.+++|+.+++||||+||||
T Consensus 79 l~e~l----~V~~i~t~i~~iGnli~~Nd~G~lv~~~~~~~e~~~i~~~L~v~V~~~~i~~~~~vG~~~v~nN~G~lvhP 154 (215)
T TIGR00323 79 LPDSL----KVQRIEERLTALGNNILCNDYGALASPELDRDTEELISDVLGVEVFRGTIAGLITVGSYAVVTNRGGLVHP 154 (215)
T ss_pred hHhhc----CeEEEeeEEEeeeeEEEEcCceEEeCCCCCHHHHHHHHHhcCCcEEEEecccccccceEEEEeCcEEEECC
Confidence 99875 46667778899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHhhccc
Q 030052 164 RISSSRHLLKHFLLQCI 180 (183)
Q Consensus 164 ~tt~~El~~i~~~l~~~ 180 (183)
+++++|++.|+++|++-
T Consensus 155 ~~s~ee~~~i~d~LgV~ 171 (215)
T TIGR00323 155 QTSVQEQEELSSLLGVE 171 (215)
T ss_pred CCCHHHHHHHHHHhCCc
Confidence 99999999999999863
No 13
>KOG3185 consensus Translation initiation factor 6 (eIF-6) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-43 Score=289.19 Aligned_cols=180 Identities=76% Similarity=1.119 Sum_probs=177.2
Q ss_pred CceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHH
Q 030052 1 MATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQE 80 (183)
Q Consensus 1 m~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e 80 (183)
|..|+.|.+|+.||+|...+|.|||+...-++..+..++..|+..+|++.++|++++.+|.+++||.+|+|||..++|+|
T Consensus 1 Ma~R~qfens~eiGvf~kLTNtYclva~ggS~nfys~~e~el~d~IPiV~tsI~g~riiGrl~~GNr~GLLvp~~tTDqE 80 (245)
T KOG3185|consen 1 MALRVQFENSNEIGVFSKLTNTYCLVAIGGSENFYSAFEAELGDVIPIVHTSIGGTRIIGRLCVGNRHGLLVPHTTTDQE 80 (245)
T ss_pred CceeeeecCCcceeeeeecccceEEEEecCchhHHHHHHHHhcCccceEEeeccceeeeehhhccCcCceecCCcCcHHH
Confidence 88999999999999999999999999999999999999999998899999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEE
Q 030052 81 LQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGL 160 (183)
Q Consensus 81 ~~~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~l 160 (183)
+++|+++||++|.+.|++.+++|+||+|.|||+-|++||++++|..+.|.|+|||||+|.||++.++|||+++.+|+|++
T Consensus 81 lqHlRnSLPd~V~i~RveErlsALGNviaCNDyvAlvH~dldketEeii~dVL~VeVfRqtia~n~LvGsyc~lsnqG~l 160 (245)
T KOG3185|consen 81 LQHLRNSLPDEVVIQRVEERLSALGNVIACNDYVALVHPDLDKETEEIIADVLKVEVFRQTIAQNSLVGSYCALSNQGGL 160 (245)
T ss_pred HHHHHhcCCcceeeehhhhHHhhhcCEEEecceeEEecCccchhHHHHHHHHhheeeeeecccCCceeeeeEEEcCCCce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCCHHHHHHHHHhhccc
Q 030052 161 VRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 161 V~~~tt~~El~~i~~~l~~~ 180 (183)
|||.|+-++++.++.+||..
T Consensus 161 Vhp~Ts~e~q~Els~LlqVp 180 (245)
T KOG3185|consen 161 VHPRTSVEDQDELSSLLQVP 180 (245)
T ss_pred ecCCCCHHHHHHHHHHhccc
Confidence 99999999999999999864
No 14
>smart00654 eIF6 translation initiation factor 6.
Probab=100.00 E-value=3.5e-41 Score=278.57 Aligned_cols=155 Identities=18% Similarity=0.225 Sum_probs=143.5
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQ 82 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~ 82 (183)
.++++++++++|+++++||+++|+||.+++++++.|++.|+..+++.+.+. +.+++||++++||+|+|+||.++++|++
T Consensus 45 ~~~~i~~~~~iGnli~~N~~g~lv~~~~~~~el~~i~~~L~d~v~V~~~~~-~~~avGn~iv~Nd~g~lvhp~~s~ee~~ 123 (200)
T smart00654 45 VHTSIGGSRLIGRLTVGNSNGLLVPNTTTDQELQHLRNSLPDSVEVQRVEE-RLTALGNLILCNDHGALASPDLSKETEE 123 (200)
T ss_pred EEEecCCceeEEEEEEEcCCEEEeCCCCCHHHHHHHHHhcCCCeeEEEEcc-ccccceeEEEEcCceEEECCCCCHHHHH
Confidence 578999999999999999999999999999999999999863344433332 3799999999999999999999999999
Q ss_pred HHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCceE
Q 030052 83 HLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRGG 159 (183)
Q Consensus 83 ~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G~ 159 (183)
.|+|.|++++...++ ++.+++|+.++|||||+||||++|++|+++|+++||++++.||+ +|.||||||++||++|+
T Consensus 124 ~i~d~L~V~v~~gTi-~G~~~VGs~~VannkG~lv~~~tt~~El~~ie~~l~v~~~~gTvN~G~~~vg~glvaN~~g~ 200 (200)
T smart00654 124 IISDVLGVEVFRGTI-AGNITVGSYCVVTNKGGLVHPDTSEEELKELSELLGVPLVAGTVNFGSEVVGAGLVANDNGA 200 (200)
T ss_pred HHHHHhCCeEEEEEe-cCcccceEEEEEECCEEEECCCCCHHHHHHHHHHhCCCcccceecCCCCceeeEEEEccccC
Confidence 999999988777778 99999999999999999999999999999999999999999999 99999999999999995
No 15
>PF01912 eIF-6: eIF-6 family; InterPro: IPR002769 This family includes eukaryotic translation initiation factor 6 (eIF6) as well as presumed archaeal homologues. The assembly of 80S ribosomes requires joining of the 40S and 60S subunits, which is triggered by the formation of an initiation complex on the 40S subunit. This event is rate-limiting for translation, and depends on external stimuli and the status of the cell. Eukaryotic translation initiation factor 6 (eIF6) binds specifically to the free 60S ribosomal subunit and prevents its association with the 40S ribosomal subunit ribosomes []. Furthermore, eIF6 interacts in the cytoplasm with RACK1, a receptor for activated protein kinase C (PKC). RACK1 is a major component of translating ribosomes, which harbour significant amounts of PKC. Loading 60S subunits with eIF6 caused a dose-dependent translational block and impairment of 80S formation, which are reversed by expression of RACK1 and stimulation of PKC in vivo and in vitro. PKC stimulation leads to eIF6 phosphorylation and its release, promoting 80S subunit formation. RACK1 provides a physical and functional link between PKC signalling and ribosome activation.; GO: 0043022 ribosome binding, 0042256 mature ribosome assembly; PDB: 4A19_J 4A1D_J 4A1B_J 4A18_J 1G61_A 2X7N_B 1G62_A.
Probab=100.00 E-value=3.8e-42 Score=283.34 Aligned_cols=152 Identities=21% Similarity=0.269 Sum_probs=126.0
Q ss_pred eEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHh-CCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHH
Q 030052 3 TRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAEL-ADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQEL 81 (183)
Q Consensus 3 ~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L-~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~ 81 (183)
++++|+||+++|.|+++|++++|+|+.+.++|++.|++.+ |.+|.+++.+. +++||++++||+|+++||.+++++.
T Consensus 45 v~t~I~gs~lvG~l~~GNsnGllvp~~~~d~El~~Lk~~~~~v~V~~l~~k~---tAlGN~Il~ND~~Alv~p~l~~e~~ 121 (199)
T PF01912_consen 45 VETTIAGSRLVGSLCVGNSNGLLVPSIITDEELEHLKESLPDVNVEVLPSKL---TALGNLILANDKGALVHPELSKETI 121 (199)
T ss_dssp EEE-BTTBS-HHHH-EEESSEEEEETT--HHHHHHHHHHS-TSEEEEE--SS---S-HHHHEEE-SSEEEE-CCGGHHHH
T ss_pred EEEEecCcceEEEEEEEcCCEEEECCcCCHHHHHHHHhhCCCceEEEeCcee---ccccCEEEEcCcceEEcCCCCHHHH
Confidence 7899999999999999999999999999999999999999 76677787554 9999999999999999999999999
Q ss_pred HHHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCceE
Q 030052 82 QHLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRGG 159 (183)
Q Consensus 82 ~~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G~ 159 (183)
+.|+|.|+ |+|.+.+ ++.+++|+..++||+|+|+||+++++|+++++++|+|++++||+ +|.||||||++|||+|+
T Consensus 122 ~~I~d~Lg--VeV~~~tia~~~~VGs~~v~tn~G~LvhP~~s~eEl~~l~~~l~v~~~~GTVN~Gs~~VgsGlvaN~~g~ 199 (199)
T PF01912_consen 122 EIISDVLG--VEVFRGTIAGIKTVGSAAVATNKGGLVHPDASEEELEELEELLGVPVDIGTVNRGSPFVGSGLVANDKGA 199 (199)
T ss_dssp HHHHHHHT--SEEEE--BTTBS-CCCSEEE-SSEEEE-TT--HHHHHHHHHHHTSSEEE--BTTTBS-HHHHEEEESSEE
T ss_pred HHHHHhcC--ceEEEEEecCcccceeeEEEeCcEEEECCCCCHHHHHHHHHHhCCceeeeeecCCCCceeEEEEeccccC
Confidence 99999998 6666666 99999999999999999999999999999999999999999999 99999999999999996
No 16
>KOG3185 consensus Translation initiation factor 6 (eIF-6) [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=2.5e-25 Score=182.13 Aligned_cols=176 Identities=13% Similarity=0.137 Sum_probs=162.0
Q ss_pred ceEEeeeCccceeeEEEeeCCEEEEcCCCChhHHHHHHHHhCCcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHH
Q 030052 2 ATRLMFENSCEVGVFSKLTNAFCLVAIGGSESFYSTFEAELADVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQEL 81 (183)
Q Consensus 2 ~~~~~i~gs~~iG~~~~~Nd~~~Lvp~~i~~~~~~~i~~~L~~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~ 81 (183)
++.++|.|++.||-++++|-++.|||..+.+.|+..|+..|...|.+-+. --+-.++||.+++||.-+||||++++|--
T Consensus 48 iV~tsI~g~riiGrl~~GNr~GLLvp~~tTDqElqHlRnSLPd~V~i~Rv-eErlsALGNviaCNDyvAlvH~dldketE 126 (245)
T KOG3185|consen 48 IVHTSIGGTRIIGRLCVGNRHGLLVPHTTTDQELQHLRNSLPDEVVIQRV-EERLSALGNVIACNDYVALVHPDLDKETE 126 (245)
T ss_pred eEEeeccceeeeehhhccCcCceecCCcCcHHHHHHHHhcCCcceeeehh-hhHHhhhcCEEEecceeEEecCccchhHH
Confidence 47899999999999999999999999999999999999999744444332 13348999999999999999999999998
Q ss_pred HHHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEee-cCcccceeEEEEcCceE
Q 030052 82 QHLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTI-AGNILVGSYCSFSNRGG 159 (183)
Q Consensus 82 ~~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti-~G~~~VGs~~vann~G~ 159 (183)
+.|+|.|+ |+|.|-+ ++...+|+...-+|+|++|||.++-++.+.++..|.|++.-||+ +|...+|+|+|+|+.=+
T Consensus 127 eii~dVL~--VeVfRqtia~n~LvGsyc~lsnqG~lVhp~Ts~e~q~Els~LlqVplVAGTvNrGS~vi~aGmvvNDw~a 204 (245)
T KOG3185|consen 127 EIIADVLK--VEVFRQTIAQNSLVGSYCALSNQGGLVHPRTSVEDQDELSSLLQVPLVAGTVNRGSEVIGAGMVVNDWTA 204 (245)
T ss_pred HHHHHHhh--eeeeeecccCCceeeeeEEEcCCCceecCCCCHHHHHHHHHHhccceeeeeecCCceeeecceEeeceee
Confidence 99999997 8888777 88999999999999999999999999999999999999999999 99999999999999999
Q ss_pred EecCCCCHHHHHHHHHhhccc
Q 030052 160 LVRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 160 lV~~~tt~~El~~i~~~l~~~ 180 (183)
..|-+||-.|+..+|..|.+-
T Consensus 205 f~G~dTTa~ElsViesiFkL~ 225 (245)
T KOG3185|consen 205 FCGLDTTATELSVIESIFKLN 225 (245)
T ss_pred eeccCCcchhHHHHHHHHhhc
Confidence 999999999999999999763
No 17
>PF02274 Amidinotransf: Amidinotransferase; InterPro: IPR003198 This family contains glycine and inosamine amidinotransferases, enzymes which are involved in creatine and streptomycin biosynthesis respectively. This family also includes arginine deiminases, which catalyse the reversible reaction: arginine + H2O = citrulline + NH3 The Streptococcus anti-tumour glycoprotein is also found in this family [].; GO: 0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines, 0005737 cytoplasm; PDB: 2CI7_A 2CI1_A 2CI4_A 2CI3_A 2CI5_A 2C6Z_A 2CI6_A 3I4A_B 3I2E_B 2JAI_A ....
Probab=43.62 E-value=2e+02 Score=24.16 Aligned_cols=125 Identities=15% Similarity=0.143 Sum_probs=69.9
Q ss_pred eeEEEeeCCEEE--EcCCCChhHHHHHHHHhCCcc---cE--EEEeecC--ceEEEeEEEeeCCeEEeCCCCC-HHHHHH
Q 030052 14 GVFSKLTNAFCL--VAIGGSESFYSTFEAELADVI---PV--VKTSIGG--NRIIGRLCVGNKNGLLLPHTTT-DQELQH 83 (183)
Q Consensus 14 G~~~~~Nd~~~L--vp~~i~~~~~~~i~~~L~~~v---~v--v~~~i~~--s~~vG~li~~N~~G~lV~~~~~-~~e~~~ 83 (183)
|-++...++..+ +..-.+++-++.+++.+.... .+ +...... .-+=-.+...-.+-++++|.+. +.+.+.
T Consensus 123 GDv~~~~~~~~v~G~g~RTn~~g~~~l~~~l~~~~~~~~v~~~~~~~~~~~~HLD~~~~~l~~~~~l~~~~~~~~~~~~~ 202 (281)
T PF02274_consen 123 GDVLVLGDNVLVIGVGSRTNEEGIEQLARALGEEEVVFEVVVVVVPVDPGFLHLDTVFNPLDPDLVLVYPDAFDPEEEEE 202 (281)
T ss_dssp GGEEEESTEEEEEEESSSS-HHHHHHHHHHHCCTTSESEEEEEEEEECSSSSSGGGTEEEEETTEEEEECCHHCTHHHHH
T ss_pred cEEEEECCEEEEEeecCCCCHHHHHHHHHHhcccccccccceeeccCccCccccceEEEEcCCCEEEEeCcccchHHHHH
Confidence 556666666666 566677788999999998441 11 1111111 1122244555556666665554 455778
Q ss_pred HHhhCCCC-eEEEEec--CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEE
Q 030052 84 LRNSLPDQ-VVVQRIE--ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQ 140 (183)
Q Consensus 84 i~~~L~~~-v~v~~~~--~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~g 140 (183)
+.+.|... .++..++ ......+|.+..++.-.++ ++-.....+.+++ .|++|..-
T Consensus 203 l~~~l~~~~~~iI~v~~~e~~~~~~N~l~l~~~~vi~-~~~~~~~~~~L~~-~G~~v~~v 260 (281)
T PF02274_consen 203 LEQALKERGFEIIEVPEEEQWNFACNVLSLGPGKVIA-YASNPRTNEQLEK-AGIEVIEV 260 (281)
T ss_dssp HHHHHSSSTCEEEEESSCSCSGGGGS-EEECTTEEEE-ETTHHHHHHHHHH-TT-EEEEE
T ss_pred HHHHhcccCcEEEEeccchhhhccCCEEEecCCEEEE-CCCCHHHHHHHHh-cCCeEEEE
Confidence 88877533 6666665 3345667777775544444 4444555566665 47776543
No 18
>COG2957 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]
Probab=43.12 E-value=1e+02 Score=27.87 Aligned_cols=106 Identities=21% Similarity=0.237 Sum_probs=75.6
Q ss_pred ChhHHHHHHHHhC-CcccEEEEeecCc--eEEEeEEEeeCCe--------------EEeCCCCCHHHHHHHHhhCCC-Ce
Q 030052 31 SESFYSTFEAELA-DVIPVVKTSIGGN--RIIGRLCVGNKNG--------------LLLPHTTTDQELQHLRNSLPD-QV 92 (183)
Q Consensus 31 ~~~~~~~i~~~L~-~~v~vv~~~i~~s--~~vG~li~~N~~G--------------~lV~~~~~~~e~~~i~~~L~~-~v 92 (183)
++++++.-+..|+ .+|++++.....+ +=.|..++.|++| +-.+....+.-..++.+.+.. +.
T Consensus 67 ~~~~~~~a~a~l~~~~V~~~~i~~nDtW~RDtGP~~~i~~~g~~~a~d~~FNaWGGlkf~~e~Dd~Va~k~~~~~~k~~~ 146 (346)
T COG2957 67 PDDDLEDARARLDDANVEIVRIDTNDTWLRDTGPTIVINDKGDLRAVDFGFNAWGGLKFPWELDDQVASKLAELLFKAPL 146 (346)
T ss_pred chHHHHHHHhhcCCCceEEEEccCCCcHhhccCCcEEecCCCcEEEecceeccccccccccccchHHHHHHHHhhccCcc
Confidence 4555666666665 5699888654332 3457677777765 467888888888888888751 11
Q ss_pred E--EEEec-CCccceeeEEEEeCceeEE----ccCCCHHHHH-HHHhhhCee
Q 030052 93 V--VQRIE-ERLSALGNCIACNDHVALA----HTDLDRETEE-IIADVLGVE 136 (183)
Q Consensus 93 ~--v~~~~-~~~~avGn~ivaNd~galv----~p~~s~~el~-~I~dvL~Ve 136 (183)
. =..++ +.+..=|..-+-+.+-||. +|.+++++++ .++|.||++
T Consensus 147 ~~~~fiLEGGsi~~dG~Gt~LTT~~CLLn~nRNPhl~~~~ie~~L~e~Lg~k 198 (346)
T COG2957 147 KTDPFILEGGSIHSDGEGTLLTTEQCLLNDNRNPHLNQEGIENKLKEYLGAK 198 (346)
T ss_pred ccCCeeeecCceeecCceeEEeehHhhcCCCCCCCcCHHHHHHHHHHHhCcc
Confidence 1 12344 5677889999999999999 7899999987 578999998
No 19
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=41.20 E-value=1.3e+02 Score=25.80 Aligned_cols=109 Identities=14% Similarity=0.093 Sum_probs=61.6
Q ss_pred CEEEEcCCCChhHHHHHHHHhCC-cccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHHHHHhhCCCCeEEEEecCC
Q 030052 22 AFCLVAIGGSESFYSTFEAELAD-VIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEER 100 (183)
Q Consensus 22 ~~~Lvp~~i~~~~~~~i~~~L~~-~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~~i~~~L~~~v~v~~~~~~ 100 (183)
+++|+| +.+-++.+.+.+.+.. .++.+. +++|..+++.++.+.+.-+ ++- ..+. .
T Consensus 119 dGviip-DLp~ee~~~~~~~~~~~gl~~I~--------------------lvap~t~~eri~~i~~~s~-gfI-Y~vs-~ 174 (258)
T PRK13111 119 DGLIIP-DLPPEEAEELRAAAKKHGLDLIF--------------------LVAPTTTDERLKKIASHAS-GFV-YYVS-R 174 (258)
T ss_pred cEEEEC-CCCHHHHHHHHHHHHHcCCcEEE--------------------EeCCCCCHHHHHHHHHhCC-CcE-EEEe-C
Confidence 678887 5666677666655431 144442 7899999999999987743 332 2221 1
Q ss_pred ccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCccc---ceeEEEEcCceEEecCCC
Q 030052 101 LSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNIL---VGSYCSFSNRGGLVRHRI 165 (183)
Q Consensus 101 ~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~---VGs~~vann~G~lV~~~t 165 (183)
...-|. .+.. |..-++.++.+++..++++..| +|+.. +....-. -.|++||.-.
T Consensus 175 ~GvTG~---~~~~-----~~~~~~~i~~vk~~~~~pv~vG--fGI~~~e~v~~~~~~-ADGviVGSai 231 (258)
T PRK13111 175 AGVTGA---RSAD-----AADLAELVARLKAHTDLPVAVG--FGISTPEQAAAIAAV-ADGVIVGSAL 231 (258)
T ss_pred CCCCCc---ccCC-----CccHHHHHHHHHhcCCCcEEEE--cccCCHHHHHHHHHh-CCEEEEcHHH
Confidence 111221 1111 3444678889999888887654 34422 2222212 4788887743
No 20
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=35.30 E-value=2.2e+02 Score=24.85 Aligned_cols=80 Identities=16% Similarity=0.208 Sum_probs=45.6
Q ss_pred EeCCCCCHHHHHHHHhhCCCCeEEEEec-CCccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEe-ecCcccc
Q 030052 71 LLPHTTTDQELQHLRNSLPDQVVVQRIE-ERLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQT-IAGNILV 148 (183)
Q Consensus 71 lV~~~~~~~e~~~i~~~L~~~v~v~~~~-~~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gt-i~G~~~V 148 (183)
|++|.++++.++.+.+.-. +. +..+. .+.| |. +... +.. -++-+++|++.-++++..|= |..--.+
T Consensus 153 lvaPtt~~~rl~~i~~~a~-GF-iY~vs~~GvT--G~------~~~~-~~~-~~~~v~~vr~~~~~Pv~vGFGIs~~e~~ 220 (265)
T COG0159 153 LVAPTTPDERLKKIAEAAS-GF-IYYVSRMGVT--GA------RNPV-SAD-VKELVKRVRKYTDVPVLVGFGISSPEQA 220 (265)
T ss_pred EeCCCCCHHHHHHHHHhCC-Cc-EEEEeccccc--CC------Cccc-chh-HHHHHHHHHHhcCCCeEEecCcCCHHHH
Confidence 8999999999999987742 22 22221 1111 11 1111 112 47889999998899987663 2222222
Q ss_pred eeEEEEcCceEEecC
Q 030052 149 GSYCSFSNRGGLVRH 163 (183)
Q Consensus 149 Gs~~vann~G~lV~~ 163 (183)
-...-+ -.|++||.
T Consensus 221 ~~v~~~-ADGVIVGS 234 (265)
T COG0159 221 AQVAEA-ADGVIVGS 234 (265)
T ss_pred HHHHHh-CCeEEEcH
Confidence 222333 56777775
No 21
>PF02812 ELFV_dehydrog_N: Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; InterPro: IPR006097 Glutamate, leucine, phenylalanine and valine dehydrogenases are structurally and functionally related. They contain a Gly-rich region containing a conserved Lys residue, which has been implicated in the catalytic activity, in each case a reversible oxidative deamination reaction. Glutamate dehydrogenases (1.4.1.2 from EC, 1.4.1.3 from EC, and 1.4.1.4 from EC) (GluDH) are enzymes that catalyse the NAD- and/or NADP-dependent reversible deamination of L-glutamate into alpha-ketoglutarate [, ]. GluDH isozymes are generally involved with either ammonia assimilation or glutamate catabolism. Two separate enzymes are present in yeasts: the NADP-dependent enzyme, which catalyses the amination of alpha-ketoglutarate to L-glutamate; and the NAD-dependent enzyme, which catalyses the reverse reaction [] - this form links the L-amino acids with the Krebs cycle, which provides a major pathway for metabolic interconversion of alpha-amino acids and alpha- keto acids []. Leucine dehydrogenase (1.4.1.9 from EC) (LeuDH) is a NAD-dependent enzyme that catalyses the reversible deamination of leucine and several other aliphatic amino acids to their keto analogues []. Each subunit of this octameric enzyme from Bacillus sphaericus contains 364 amino acids and folds into two domains, separated by a deep cleft. The nicotinamide ring of the NAD+ cofactor binds deep in this cleft, which is thought to close during the hydride transfer step of the catalytic cycle. Phenylalanine dehydrogenase (1.4.1.20 from EC) (PheDH) is na NAD-dependent enzyme that catalyses the reversible deamidation of L-phenylalanine into phenyl-pyruvate []. Valine dehydrogenase (1.4.1.8 from EC) (ValDH) is an NADP-dependent enzyme that catalyses the reversible deamidation of L-valine into 3-methyl-2-oxobutanoate []. This entry represents the dimerisation region of these enzymes.; GO: 0016491 oxidoreductase activity, 0006520 cellular amino acid metabolic process, 0055114 oxidation-reduction process; PDB: 2BMA_C 1C1D_B 1BXG_A 1BW9_B 1C1X_A 2YFQ_B 3R3J_D 1V9L_C 1B26_C 2TMG_B ....
Probab=34.10 E-value=78 Score=24.46 Aligned_cols=57 Identities=12% Similarity=0.013 Sum_probs=40.5
Q ss_pred eeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCceEEecC-CCCHHHHHHHHHhhc
Q 030052 114 VALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRGGLVRH-RISSSRHLLKHFLLQ 178 (183)
Q Consensus 114 galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G~lV~~-~tt~~El~~i~~~l~ 178 (183)
|+=.||..|.+|.+.++..+-.+ -.++|+||=|+=+++ ...| +.|.+|++++-+.|.
T Consensus 38 GiR~~~~~s~~ev~~LA~~MT~K---~Al~~lp~GGaKggI-----~~dp~~~s~~e~e~l~r~f~ 95 (131)
T PF02812_consen 38 GIRMHPYVSEEEVLRLARGMTYK---CALAGLPFGGAKGGI-----KIDPKDLSDNERERLTRRFG 95 (131)
T ss_dssp EEEEETTSSHHHHHHHHHHHHHH---HHHTTSS-EEEEEEE-----ESSGGGS-HHHHHHHHHHHH
T ss_pred CeEEecCCCHHHHHHHHHHHHhh---hhhccCCCCceeEEe-----ecCcccccHHHHHHHHHHHH
Confidence 34499999999999999876553 345899998875544 2223 478999999888774
No 22
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=33.57 E-value=50 Score=26.70 Aligned_cols=33 Identities=30% Similarity=0.424 Sum_probs=25.9
Q ss_pred EEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEe
Q 030052 107 CIACNDHVALAHTDLDRETEEIIADVLGVEVFRQT 141 (183)
Q Consensus 107 ~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gt 141 (183)
+|+.|+.|-- ++.+.++.+.+++.||++|.+-.
T Consensus 81 ~IvSNsaGs~--~d~~~~~a~~~~~~lgIpvl~h~ 113 (168)
T PF09419_consen 81 LIVSNSAGSS--DDPDGERAEALEKALGIPVLRHR 113 (168)
T ss_pred EEEECCCCcc--cCccHHHHHHHHHhhCCcEEEeC
Confidence 5667766543 37789999999999999987654
No 23
>PRK04115 hypothetical protein; Provisional
Probab=30.82 E-value=85 Score=24.81 Aligned_cols=54 Identities=30% Similarity=0.464 Sum_probs=34.5
Q ss_pred CCCCHHHHHHHHhhCCCCeEEEEec---CCcccee-eEEEEeCceeEEccCCCHHHHHHHHhhhCeeE
Q 030052 74 HTTTDQELQHLRNSLPDQVVVQRIE---ERLSALG-NCIACNDHVALAHTDLDRETEEIIADVLGVEV 137 (183)
Q Consensus 74 ~~~~~~e~~~i~~~L~~~v~v~~~~---~~~~avG-n~ivaNd~galv~p~~s~~el~~I~dvL~Vev 137 (183)
..+..+|++.|++.++.+..-.+++ .-.+..| ..+.+++ .+|+|.|+.+||.+.
T Consensus 45 h~~kr~ELe~L~~~l~~~~~~lrLPIile~~~~~~~g~~~VrG----------~~evk~IskiLg~~~ 102 (137)
T PRK04115 45 HRIKRRELEFLKELLDEDACRLRLPIILEIDSSLGEGAIVVRG----------KEEVKVISKILGKED 102 (137)
T ss_pred EEecHHHHHHHHHhccchhhheeeeEEEEEecCCCceEEEEcC----------HHHHHHHHHHhCccc
Confidence 4568899999999997552222332 2222232 3334443 569999999999884
No 24
>PF02274 Amidinotransf: Amidinotransferase; InterPro: IPR003198 This family contains glycine and inosamine amidinotransferases, enzymes which are involved in creatine and streptomycin biosynthesis respectively. This family also includes arginine deiminases, which catalyse the reversible reaction: arginine + H2O = citrulline + NH3 The Streptococcus anti-tumour glycoprotein is also found in this family [].; GO: 0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines, 0005737 cytoplasm; PDB: 2CI7_A 2CI1_A 2CI4_A 2CI3_A 2CI5_A 2C6Z_A 2CI6_A 3I4A_B 3I2E_B 2JAI_A ....
Probab=29.30 E-value=3.4e+02 Score=22.68 Aligned_cols=158 Identities=13% Similarity=0.076 Sum_probs=82.7
Q ss_pred EeeCCEEEEcCCCC---hhHHHHHHHHhCC---cc-cEEEEe---ecCceEE-EeEEEeeCCeEE--eCCCCCHHHHHHH
Q 030052 18 KLTNAFCLVAIGGS---ESFYSTFEAELAD---VI-PVVKTS---IGGNRII-GRLCVGNKNGLL--LPHTTTDQELQHL 84 (183)
Q Consensus 18 ~~Nd~~~Lvp~~i~---~~~~~~i~~~L~~---~v-~vv~~~---i~~s~~v-G~li~~N~~G~l--V~~~~~~~e~~~i 84 (183)
...++.+++.+... ..|.+..+..+.. .. .++... -.+-.+= |.++..+++-++ ++.-.+.+-++.+
T Consensus 70 ~~~~~~~ii~~m~~~~R~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEGGDv~~~~~~~~v~G~g~RTn~~g~~~l 149 (281)
T PF02274_consen 70 VVIGGGVIIGRMRAPSRRGEEDVYKEIFEKHPFNIPRVLDIEEENGDPGYLEGGDVLVLGDNVLVIGVGSRTNEEGIEQL 149 (281)
T ss_dssp EEECTEEEE-B-SSGGGHGHHHHHHHHHHHSCCCTCCEEEEEEC--TTS-B-GGGEEEESTEEEEEEESSSS-HHHHHHH
T ss_pred EEEcCCEEEeCCChHHhcCcchHHHHHHHhhccccceeeCCccccccCceecCcEEEEECCEEEEEeecCCCCHHHHHHH
Confidence 34666677666643 3566666665531 11 222222 0111222 556656655555 6788889999999
Q ss_pred HhhCCCC------eEEEE-ec-CCccceeeEEEEeCceeEEccCCCHH-HHHHHHhhhC---eeEEEEeecCcccceeEE
Q 030052 85 RNSLPDQ------VVVQR-IE-ERLSALGNCIACNDHVALAHTDLDRE-TEEIIADVLG---VEVFRQTIAGNILVGSYC 152 (183)
Q Consensus 85 ~~~L~~~------v~v~~-~~-~~~~avGn~ivaNd~galv~p~~s~~-el~~I~dvL~---Vev~~gti~G~~~VGs~~ 152 (183)
++.|+.. +.+.. .+ .-+..=-.+-...++-++++|.+-++ +.+.+.+.|+ .++..-+-.....-++-+
T Consensus 150 ~~~l~~~~~~~~v~~~~~~~~~~~~HLD~~~~~l~~~~~l~~~~~~~~~~~~~l~~~l~~~~~~iI~v~~~e~~~~~~N~ 229 (281)
T PF02274_consen 150 ARALGEEEVVFEVVVVVVPVDPGFLHLDTVFNPLDPDLVLVYPDAFDPEEEEELEQALKERGFEIIEVPEEEQWNFACNV 229 (281)
T ss_dssp HHHHCCTTSESEEEEEEEEECSSSSSGGGTEEEEETTEEEEECCHHCTHHHHHHHHHHSSSTCEEEEESSCSCSGGGGS-
T ss_pred HHHhcccccccccceeeccCccCccccceEEEEcCCCEEEEeCcccchHHHHHHHHHhcccCcEEEEeccchhhhccCCE
Confidence 9999866 11111 11 22222223344567778888887654 4777888877 456655543333334444
Q ss_pred EEcCceEEecCCCCHHHHHHHHH
Q 030052 153 SFSNRGGLVRHRISSSRHLLKHF 175 (183)
Q Consensus 153 vann~G~lV~~~tt~~El~~i~~ 175 (183)
+.=+.|-++.++...+-..++++
T Consensus 230 l~l~~~~vi~~~~~~~~~~~L~~ 252 (281)
T PF02274_consen 230 LSLGPGKVIAYASNPRTNEQLEK 252 (281)
T ss_dssp EEECTTEEEEETTHHHHHHHHHH
T ss_pred EEecCCEEEECCCCHHHHHHHHh
Confidence 44355566655554444444443
No 25
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=27.91 E-value=87 Score=22.13 Aligned_cols=31 Identities=6% Similarity=0.120 Sum_probs=24.4
Q ss_pred CceeEEccCCCHHHHH-HHHhhhCeeEEEEee
Q 030052 112 DHVALAHTDLDRETEE-IIADVLGVEVFRQTI 142 (183)
Q Consensus 112 d~galv~p~~s~~el~-~I~dvL~Vev~~gti 142 (183)
-....|+|+++..|++ .||..|+|+|..-..
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt 47 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNT 47 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 4456799999999987 678889999776444
No 26
>TIGR03380 agmatine_aguA agmatine deiminase. Members of this family are agmatine deiminase (3.5.3.12), as characterized in Pseudomonas aeruginosa and plants. Related deiminases include the peptidyl-arginine deiminase (3.5.3.15) as found in Porphyromonas gingivalis.
Probab=26.72 E-value=3.6e+02 Score=24.34 Aligned_cols=61 Identities=16% Similarity=0.232 Sum_probs=40.4
Q ss_pred cCCCHHHHHHHHhhhCeeEEEEee---cCcccc-eeEEEEcCceEEe----cCCCCHHHH-HHHHHhhcc
Q 030052 119 TDLDRETEEIIADVLGVEVFRQTI---AGNILV-GSYCSFSNRGGLV----RHRISSSRH-LLKHFLLQC 179 (183)
Q Consensus 119 p~~s~~el~~I~dvL~Vev~~gti---~G~~~V-Gs~~vann~G~lV----~~~tt~~El-~~i~~~l~~ 179 (183)
.+.++.--..|.+.+|++..+..+ +|.--+ |.|-+.+..-+|. .|.-|.+|+ .++.+.||+
T Consensus 123 ~~~D~~v~~~ia~~~g~~~~~~~lvlEGG~ie~dG~GtlltTe~clln~nRNP~ls~~eIe~~Lk~~LGv 192 (357)
T TIGR03380 123 WDKDDLVARKVCELEGIDRYRADFVLEGGSIHVDGEGTLLTTEECLLSEGRNPHLTKEQIEEKLKDYLGV 192 (357)
T ss_pred cchHHHHHHHHHHHcCCCccccCeEEeCCcEEECCCeeEEEEhhhhcCCCCCCCCCHHHHHHHHHHHHCC
Confidence 355566677889999999776432 333333 6666666665665 456788888 677777764
No 27
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=24.99 E-value=1.1e+02 Score=22.54 Aligned_cols=25 Identities=16% Similarity=0.367 Sum_probs=20.9
Q ss_pred eEEccCCCHHHHH-HHHhhhCeeEEE
Q 030052 115 ALAHTDLDRETEE-IIADVLGVEVFR 139 (183)
Q Consensus 115 alv~p~~s~~el~-~I~dvL~Vev~~ 139 (183)
..|+|+++..+++ .+++.|+|+|.+
T Consensus 26 F~V~~~AtK~~IK~AvE~lF~VkV~k 51 (94)
T COG0089 26 FIVDPDATKPEIKAAVEELFGVKVEK 51 (94)
T ss_pred EEECCCCCHHHHHHHHHHHhCCeEEE
Confidence 4688999999986 488899999776
No 28
>COG0334 GdhA Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]
Probab=24.84 E-value=34 Score=31.72 Aligned_cols=56 Identities=14% Similarity=0.113 Sum_probs=40.0
Q ss_pred eeEEccCCCHHHHHHHHhhhCeeEEEEeecCcccceeEEEEcCce-EEecCC-CCHHHHHHHHHhhc
Q 030052 114 VALAHTDLDRETEEIIADVLGVEVFRQTIAGNILVGSYCSFSNRG-GLVRHR-ISSSRHLLKHFLLQ 178 (183)
Q Consensus 114 galv~p~~s~~el~~I~dvL~Vev~~gti~G~~~VGs~~vann~G-~lV~~~-tt~~El~~i~~~l~ 178 (183)
|.=.||+.+.+|++.++--+ .+|-.+.|+|+=|. || ..+.|+ -|..|++|+.|+|.
T Consensus 68 GiRfhP~v~~~ev~~Ls~~M---T~Knal~~Lp~GGG------KGgi~~DPk~~S~~E~erl~raf~ 125 (411)
T COG0334 68 GVRFHPYVTLEEVKALSFWM---TLKNALAGLPYGGG------KGGIIVDPKGLSDGELERLSRAFG 125 (411)
T ss_pred ceecCCCCCHHHHHHHHHHH---HHHHHHhCCCCCCC------ceeeeCCcccCCHHHHHHHHHHHH
Confidence 55689999999999665532 34445688998775 22 234444 68999999999873
No 29
>PF01136 Peptidase_U32: Peptidase family U32 This is family U32 in the peptidase classification. ; InterPro: IPR001539 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belonging to MEROPS peptidase family U32 (clan U-). The type example is collagenase (gene prtC) from Porphyromonas gingivalis (Bacteroides gingivalis) [], which is an enzyme that degrades type I collagen and that seems to require a metal cofactor. The product of PrtC is evolutionary related to a number of uncharacterised proteins with a well conserved region containing two cysteines.; GO: 0008233 peptidase activity, 0006508 proteolysis
Probab=24.20 E-value=1.3e+02 Score=24.51 Aligned_cols=29 Identities=10% Similarity=0.132 Sum_probs=24.1
Q ss_pred eCCeEEeCCCCCHHHHHHHHhhC-CCCeEE
Q 030052 66 NKNGLLLPHTTTDQELQHLRNSL-PDQVVV 94 (183)
Q Consensus 66 N~~G~lV~~~~~~~e~~~i~~~L-~~~v~v 94 (183)
+=+.+.+||.++.+|++.|.+.. +.++++
T Consensus 60 G~~~i~ls~EL~~~ei~~i~~~~~~~~~Ev 89 (233)
T PF01136_consen 60 GASRITLSPELSLEEIKEIAENSPGVPLEV 89 (233)
T ss_pred CCCEEEECccCCHHHHHHHHHhCCCCeEEE
Confidence 34688999999999999999998 555554
No 30
>PF12404 DUF3663: Peptidase ; InterPro: IPR008330 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This family represents the peptidase B group of leucyl aminopeptidases, which are restricted to the gammaproteobacteria. They contain a C-terminal aminopeptidase catalytic domain and an N-terminal domain of unknown function. They are zinc-dependent exopeptidases (3.4.11.1 from EC) and belong to MEROPS peptidase family M17 (leucyl aminopeptidase family, clan MF). They selectively release N-terminal amino acid residues from polypeptides and proteins and are involved in the processing, catabolism and degradation of intracellular proteins [, , ]. Leucyl aminopeptidase forms a homohexamer containing two trimers stacked on top of one another []. Each monomer binds two zinc ions. The zinc-binding and catalytic sites are located within the C-terminal catalytic domain []. The same catalytic aminopeptidase domain is found in the other M17 peptidases IPR011356 from INTERPRO. These two groups of aminopeptidases differ by their N-terminal domains. The N-terminal domain in members of IPR011356 from INTERPRO has been implicated in DNA binding [, ] and it is not associated with members of this family which have a different N-terminal domain and therefore are not expected to bind DNA or be involved in transcriptional regulation. In addition, there are related proteins with the same catalytic domain and unique N-terminal sequences unrelated to any of the two N-terminal domains discussed above. For additional information please see [, , , ]. ; GO: 0004177 aminopeptidase activity, 0008235 metalloexopeptidase activity, 0030145 manganese ion binding, 0005737 cytoplasm
Probab=24.13 E-value=74 Score=22.73 Aligned_cols=30 Identities=10% Similarity=0.096 Sum_probs=24.6
Q ss_pred eEEEEcCceEEecCCCCHHHHHHHHHhhccc
Q 030052 150 SYCSFSNRGGLVRHRISSSRHLLKHFLLQCI 180 (183)
Q Consensus 150 s~~vann~G~lV~~~tt~~El~~i~~~l~~~ 180 (183)
+-+-+|+.|+.+|- +.++++..|++|=+-|
T Consensus 18 AllSf~~~ga~IHl-~~~~~l~~IQrAaRkL 47 (77)
T PF12404_consen 18 ALLSFNEQGATIHL-SEGDDLRAIQRAARKL 47 (77)
T ss_pred cEEEEcCCCEEEEE-CCCcchHHHHHHHHHH
Confidence 56778999999998 7778899999986543
No 31
>PLN02591 tryptophan synthase
Probab=24.04 E-value=3.6e+02 Score=23.06 Aligned_cols=108 Identities=15% Similarity=0.105 Sum_probs=60.9
Q ss_pred CEEEEcCCCChhHHHHHHHHhC-CcccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHHHHHhhCCCCeEEEEec-C
Q 030052 22 AFCLVAIGGSESFYSTFEAELA-DVIPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIE-E 99 (183)
Q Consensus 22 ~~~Lvp~~i~~~~~~~i~~~L~-~~v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~~i~~~L~~~v~v~~~~-~ 99 (183)
+++|+| +.+-+|.+.+.+.+. ..++.+. +++|..+++.++.+.+.-. +.- ..+. .
T Consensus 108 ~Gviip-DLP~ee~~~~~~~~~~~gl~~I~--------------------lv~Ptt~~~ri~~ia~~~~-gFI-Y~Vs~~ 164 (250)
T PLN02591 108 HGLVVP-DLPLEETEALRAEAAKNGIELVL--------------------LTTPTTPTERMKAIAEASE-GFV-YLVSST 164 (250)
T ss_pred CEEEeC-CCCHHHHHHHHHHHHHcCCeEEE--------------------EeCCCCCHHHHHHHHHhCC-CcE-EEeeCC
Confidence 677887 455566655555542 1155543 7899999988999987742 332 2221 2
Q ss_pred CccceeeEEEEeCceeEEccCCCHHHHHHHHhhhCeeEEEEeecCcc---cceeEEEEcCceEEecCC
Q 030052 100 RLSALGNCIACNDHVALAHTDLDRETEEIIADVLGVEVFRQTIAGNI---LVGSYCSFSNRGGLVRHR 164 (183)
Q Consensus 100 ~~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~Vev~~gti~G~~---~VGs~~vann~G~lV~~~ 164 (183)
+.+ |+ +..+ |.--++-++.+++.-++++..|. |+. .+....-.--.|++||.-
T Consensus 165 GvT--G~------~~~~--~~~~~~~i~~vk~~~~~Pv~vGF--GI~~~e~v~~~~~~GADGvIVGSa 220 (250)
T PLN02591 165 GVT--GA------RASV--SGRVESLLQELKEVTDKPVAVGF--GISKPEHAKQIAGWGADGVIVGSA 220 (250)
T ss_pred CCc--CC------CcCC--chhHHHHHHHHHhcCCCceEEeC--CCCCHHHHHHHHhcCCCEEEECHH
Confidence 221 22 1111 33335568888888888877653 333 344333333567777763
No 32
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=21.55 E-value=1.3e+02 Score=21.55 Aligned_cols=50 Identities=8% Similarity=0.171 Sum_probs=35.9
Q ss_pred EEeCCCCCHHHHHHHHhhCCCCeEEEEecCCccceeeEEEEeCceeEEccCCCHHHHHH-HHhhhCeeEEEEee
Q 030052 70 LLLPHTTTDQELQHLRNSLPDQVVVQRIEERLSALGNCIACNDHVALAHTDLDRETEEI-IADVLGVEVFRQTI 142 (183)
Q Consensus 70 ~lV~~~~~~~e~~~i~~~L~~~v~v~~~~~~~~avGn~ivaNd~galv~p~~s~~el~~-I~dvL~Vev~~gti 142 (183)
.|.+|.+|+.....+++. |-....|+|+++..+++. ||..|+|+|..=..
T Consensus 4 iI~~PviTEK~~~~~e~~-----------------------n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT 54 (84)
T PRK14548 4 IIKYPLVTEKAMNLIEKE-----------------------NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNT 54 (84)
T ss_pred chhccccCHHHHHHHHhC-----------------------CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 567788887776665532 334567899999999864 78889999776443
No 33
>CHL00030 rpl23 ribosomal protein L23
Probab=20.95 E-value=1.5e+02 Score=21.73 Aligned_cols=28 Identities=14% Similarity=0.106 Sum_probs=22.4
Q ss_pred CceeEEccCCCHHHHH-HHHhhhCeeEEE
Q 030052 112 DHVALAHTDLDRETEE-IIADVLGVEVFR 139 (183)
Q Consensus 112 d~galv~p~~s~~el~-~I~dvL~Vev~~ 139 (183)
-..-.|+|+++..|++ .||..|+|+|..
T Consensus 21 ~y~F~V~~~anK~eIK~avE~lf~VkV~~ 49 (93)
T CHL00030 21 QYTFDVDSGSTKTEIKHWIELFFGVKVIA 49 (93)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCeEEE
Confidence 3456789999999986 578889999765
No 34
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=20.59 E-value=1.5e+02 Score=23.98 Aligned_cols=29 Identities=21% Similarity=0.292 Sum_probs=21.1
Q ss_pred CEEEEcCC------CChhHHHHHHHHhCCcccEEEEe
Q 030052 22 AFCLVAIG------GSESFYSTFEAELADVIPVVKTS 52 (183)
Q Consensus 22 ~~~Lvp~~------i~~~~~~~i~~~L~~~v~vv~~~ 52 (183)
++++|+.. ...++.+.+++.|+ +++++-+
T Consensus 79 ~v~IvSNsaGs~~d~~~~~a~~~~~~lg--Ipvl~h~ 113 (168)
T PF09419_consen 79 RVLIVSNSAGSSDDPDGERAEALEKALG--IPVLRHR 113 (168)
T ss_pred eEEEEECCCCcccCccHHHHHHHHHhhC--CcEEEeC
Confidence 45555554 36788999999999 9987643
No 35
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=20.42 E-value=2.4e+02 Score=24.26 Aligned_cols=107 Identities=18% Similarity=0.177 Sum_probs=62.0
Q ss_pred CEEEEcCCCChhHHHHHHHHhCCc-ccEEEEeecCceEEEeEEEeeCCeEEeCCCCCHHHHHHHHhhCCCCeEEEEecCC
Q 030052 22 AFCLVAIGGSESFYSTFEAELADV-IPVVKTSIGGNRIIGRLCVGNKNGLLLPHTTTDQELQHLRNSLPDQVVVQRIEER 100 (183)
Q Consensus 22 ~~~Lvp~~i~~~~~~~i~~~L~~~-v~vv~~~i~~s~~vG~li~~N~~G~lV~~~~~~~e~~~i~~~L~~~v~v~~~~~~ 100 (183)
++.++| +++.||-+.+++....+ ++.+. |+.|..+|+.++.|.+.-. .+ +..+ ++
T Consensus 125 nGfiiv-DlPpEEa~~~Rne~~k~gislvp--------------------LvaPsTtdeRmell~~~ad-sF-iYvV-Sr 180 (268)
T KOG4175|consen 125 NGFIIV-DLPPEEAETLRNEARKHGISLVP--------------------LVAPSTTDERMELLVEAAD-SF-IYVV-SR 180 (268)
T ss_pred CceEec-cCChHHHHHHHHHHHhcCceEEE--------------------eeCCCChHHHHHHHHHhhc-ce-EEEE-Ee
Confidence 455665 77888888888876422 55543 7889999999999877742 22 2222 22
Q ss_pred ccceeeEEEEeCceeEEccCCCHHHHHHHHhhhC-eeEEEE----eecCcccceeEEEEcCceEEecCC
Q 030052 101 LSALGNCIACNDHVALAHTDLDRETEEIIADVLG-VEVFRQ----TIAGNILVGSYCSFSNRGGLVRHR 164 (183)
Q Consensus 101 ~~avGn~ivaNd~galv~p~~s~~el~~I~dvL~-Vev~~g----ti~G~~~VGs~~vann~G~lV~~~ 164 (183)
+..-|.---+|.+ -++-++++++.-| .++-.| |=.-...|||. ..|++||..
T Consensus 181 mG~TG~~~svn~~--------l~~L~qrvrk~t~dtPlAVGFGvst~EHf~qVgsv----aDGVvvGSk 237 (268)
T KOG4175|consen 181 MGVTGTRESVNEK--------LQSLLQRVRKATGDTPLAVGFGVSTPEHFKQVGSV----ADGVVVGSK 237 (268)
T ss_pred ccccccHHHHHHH--------HHHHHHHHHHhcCCCceeEeeccCCHHHHHhhhhh----ccceEecHH
Confidence 2223322223322 1456677777653 333222 22334567776 578888763
Done!