Query 016906
Match_columns 380
No_of_seqs 259 out of 1343
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 03:52:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10787 DNA-binding ATP-depen 99.9 1.2E-26 2.6E-31 252.4 17.6 174 83-261 7-195 (784)
2 COG0466 Lon ATP-dependent Lon 99.9 1.2E-26 2.6E-31 244.8 14.3 172 86-261 9-196 (782)
3 PF02190 LON: ATP-dependent pr 99.9 8.5E-25 1.8E-29 197.7 15.4 173 86-261 1-198 (205)
4 TIGR00763 lon ATP-dependent pr 99.9 1.4E-24 3E-29 236.4 15.1 169 88-261 1-193 (775)
5 COG2802 Uncharacterized protei 99.8 3.8E-20 8.2E-25 173.1 13.4 178 81-261 6-199 (221)
6 KOG1400 Predicted ATP-dependen 99.8 7.2E-21 1.6E-25 186.4 8.8 144 48-197 27-175 (371)
7 smart00464 LON Found in ATP-de 98.9 3.1E-09 6.7E-14 86.7 7.3 85 87-261 2-88 (92)
8 KOG2004 Mitochondrial ATP-depe 98.5 1.2E-07 2.6E-12 101.8 6.3 181 81-265 63-288 (906)
9 KOG4159 Predicted E3 ubiquitin 98.3 4.3E-07 9.4E-12 92.8 3.4 172 83-260 173-360 (398)
10 PF10562 CaM_bdg_C0: Calmoduli 67.3 4.1 8.9E-05 27.0 1.7 15 364-378 15-29 (29)
11 KOG0493 Transcription factor E 25.3 21 0.00045 35.4 -0.4 10 348-357 210-219 (342)
12 COG0447 MenB Dihydroxynaphthoi 20.5 43 0.00094 32.6 0.7 25 346-370 38-62 (282)
No 1
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=99.94 E-value=1.2e-26 Score=252.43 Aligned_cols=174 Identities=22% Similarity=0.235 Sum_probs=153.6
Q ss_pred ceeeEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEEEEeeecCCC---CCcCcccCeeEEEEEEEEEE
Q 016906 83 AILTLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIGVVRVFREPD---NGRITFATIGTTAEIRQYRR 159 (380)
Q Consensus 83 ~~~~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~IgLv~q~kd~~---p~~~dly~IGTlAeI~qv~r 159 (380)
.+.+||+|||+|+|||||+++||+|+++++++||+.|+.++ +.||+|++ ++.. ++.+++|.|||+|+|.++.+
T Consensus 7 ~~~~LPLfPLr~~VLFPg~~lPL~Ife~R~i~~Ve~al~~~---~~~gvv~~-k~~~~~~p~~~dLy~VGtla~I~~~~~ 82 (784)
T PRK10787 7 ERIEIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHD---KKIMLVAQ-KEASTDEPGVNDLFTVGTVASILQMLK 82 (784)
T ss_pred CCceEEEEECCCceeCCCceeeeecCCHHHHHHHHHHHhcC---CEEEEEEe-cCCCCCCCCcccccCccEEEEEEEeeE
Confidence 34689999999999999999999999999999999999887 89999998 5543 45578999999999999999
Q ss_pred CCCCcEEEEEEEeEEEEEeeeeeccCCcceEEEEEecCC--------cccccHHHHHHHHHhhcCCCcc--ccccccCC-
Q 016906 160 LEDGSLNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQED--------LPLRTPRDVFETLGCVSNLSQS--LSHTLPSN- 228 (380)
Q Consensus 160 lpdG~lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E~--------al~r~l~e~f~e~a~l~~~~~~--~~~~~~~~- 228 (380)
++||.++|+++|.+||+|.+ +.+.+||+.|+|+.++++ ++.+.+++.|.+|+.+++..+. +..+...+
T Consensus 83 l~DG~~~Ilv~Gl~RfrI~~-~~~~~py~~A~Ve~l~~~~~~~~e~~al~~~ll~~~~~~~~l~~~~~~e~~~~~~~~dd 161 (784)
T PRK10787 83 LPDGTVKVLVEGLQRARISA-LSDNGEHFSAKAEYLESPTIDEREQEVLVRTAISQFEGYIKLNKKIPPEVLTSLNSIDD 161 (784)
T ss_pred CCCCeEEEEEEEEEEEEEEE-EEcCCCCEEEEEEEecCCCCCchHHHHHHHHHHHHHHHHHHhcccCCHHHHhhhhcccc
Confidence 99999999999999999998 788999999999999763 2566789999999999887766 33333333
Q ss_pred -ccchhhhccCCCCCCccchhhcccCCHHhhhhh
Q 016906 229 -SSSRGYGIRDNDSDATSEESFESELSPTERRIH 261 (380)
Q Consensus 229 -~~l~D~ia~~l~~~~~~kQ~iLe~~dv~eRl~~ 261 (380)
..++|.+|++++++.++||+|||+.|+.+|+..
T Consensus 162 p~~Lad~iA~~Lpl~~~eKQ~LLE~~d~~eRLe~ 195 (784)
T PRK10787 162 PARLADTIAAHMPLKLADKQSVLEMSDVNERLEY 195 (784)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHhcCCCHHHHHHH
Confidence 679999999999999999999999999999964
No 2
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=1.2e-26 Score=244.80 Aligned_cols=172 Identities=23% Similarity=0.275 Sum_probs=156.6
Q ss_pred eEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEEEEeeecCCC---CCcCcccCeeEEEEEEEEEECCC
Q 016906 86 TLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIGVVRVFREPD---NGRITFATIGTTAEIRQYRRLED 162 (380)
Q Consensus 86 ~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~IgLv~q~kd~~---p~~~dly~IGTlAeI~qv~rlpd 162 (380)
+||++|+|++||||+|++||.|+|+++++|++.||.++ .+.|++++| ++.+ |..+++|.+||+|+|.|+.++||
T Consensus 9 ~lpvlplr~~vvfP~m~~pl~vgr~~si~ale~a~~~~--~k~i~l~~q-k~~~~d~p~~~dly~vGt~a~I~q~~~lpd 85 (782)
T COG0466 9 ELPVLPLRDVVVFPGMVIPLFVGREKSIKALEEAMKND--QKYILLVTQ-KDASTDEPTEDDLYEVGTLAKILQILKLPD 85 (782)
T ss_pred cceeEEecCceeCCCceeeEEcCChhHHHHHHHHHhCC--CCEEEEEEe-cccccCCCChhhhhhcchheeeeeeeeCCC
Confidence 79999999999999999999999999999999999985 378999999 6543 67789999999999999999999
Q ss_pred CcEEEEEEEeEEEEEeeeeeccCCcceEEEEEecCC---------cccccHHHHHHHHHhhcCCCcc--ccccccCC--c
Q 016906 163 GSLNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQED---------LPLRTPRDVFETLGCVSNLSQS--LSHTLPSN--S 229 (380)
Q Consensus 163 G~lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E~---------al~r~l~e~f~e~a~l~~~~~~--~~~~~~~~--~ 229 (380)
|+++|+++|.+|++|.+ +...++++.|+++.+++. ++.+.+.+.|++|++++++.+. +..+..++ +
T Consensus 86 g~~kvlveg~~R~~I~~-~~~~~~~~~a~~~~i~~~~~~~~~~~~al~~~i~~~~~~~~~l~~~~~~e~l~~~~~i~~~~ 164 (782)
T COG0466 86 GTVKVLVEGLQRVRISK-LSDEEEFFEAEIELLPDEPIDEEREIEALVRSILSEFEEYAKLNKKIPPEELQSLNSIDDPG 164 (782)
T ss_pred CcEEEEEEeeeeEEEEe-eccCCCceEEEEEecCCCcccchhHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHhcccchH
Confidence 99999999999999998 899999999999998753 3688999999999999998776 55555555 8
Q ss_pred cchhhhccCCCCCCccchhhcccCCHHhhhhh
Q 016906 230 SSRGYGIRDNDSDATSEESFESELSPTERRIH 261 (380)
Q Consensus 230 ~l~D~ia~~l~~~~~~kQ~iLe~~dv~eRl~~ 261 (380)
+++|++|++++++.+++|++||++|+.+|+..
T Consensus 165 klad~iaa~l~~~~~~kQ~iLe~~~v~~Rlek 196 (782)
T COG0466 165 KLADTIAAHLPLKLEEKQEILETLDVKERLEK 196 (782)
T ss_pred HHHHHHHHhCCCCHHHHHHHHHhCCHHHHHHH
Confidence 89999999999999999999999999999964
No 3
>PF02190 LON: ATP-dependent protease La (LON) domain; InterPro: IPR003111 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This signature defines the N-terminal domain of the archael, bacterial and eukaryotic lon proteases, which are ATP-dependent serine peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SF). In the eukaryotes the majority of the proteins are located in the mitochondrial matrix [, ]. In yeast, Pim1, is located in the mitochondrial matrix, is required for mitochondrial function, is constitutively expressed but is increased after thermal stress, suggesting that Pim1 may play a role in the heat shock response [].; GO: 0004176 ATP-dependent peptidase activity, 0006508 proteolysis; PDB: 3LJC_A 2ANE_G 1ZBO_A 3M65_A.
Probab=99.92 E-value=8.5e-25 Score=197.73 Aligned_cols=173 Identities=21% Similarity=0.277 Sum_probs=119.8
Q ss_pred eEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEEEEee-ecCCC---CCcCcccCeeEEEEEEEEEECC
Q 016906 86 TLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIGVVRV-FREPD---NGRITFATIGTTAEIRQYRRLE 161 (380)
Q Consensus 86 ~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~IgLv~q-~kd~~---p~~~dly~IGTlAeI~qv~rlp 161 (380)
+||+||+++.|+|||+++||.|+++++++|+++++.++. ..||+++. ..... ++.+++|.|||+|+|.++.+++
T Consensus 1 ~lPv~pl~~~vlfPg~~~~i~i~~~~~~~~l~~~~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~G~~~~I~~~~~~~ 78 (205)
T PF02190_consen 1 ELPVFPLRNQVLFPGQTLPIHIFEPRYIALLKRALDNNN--PYFGIFLVKSNKDDSDEPSIDDLYSVGTLARIIRVEELP 78 (205)
T ss_dssp EEEEEEESSS---TTBEEEEEE-SHHHHHHHHHHHTTTS--E-EEEEEE-EBSSTSSSS-GGGB-SEEEEEEEEEEEEST
T ss_pred CEEEEEeCCcccCCCeeEEEEECCHHHHHHHHHHHhcCC--CceeEEeecccCCcccCCcccccccceEEEEEEEEEecC
Confidence 589999999999999999999999999999999998761 24888776 22111 5578899999999999999999
Q ss_pred CCcEEEEEEEeEEEEEeeee---eccCCcceEEEEEecC--Cc----ccccHHHHHH----HHH---hhcCCC-cc--cc
Q 016906 162 DGSLNVVTRGQQRFRLRRRW---IDVEGVPCGEIQIIQE--DL----PLRTPRDVFE----TLG---CVSNLS-QS--LS 222 (380)
Q Consensus 162 dG~lrVlveG~qRfrI~~~~---~~~dg~l~AeVeil~E--~a----l~r~l~e~f~----e~a---~l~~~~-~~--~~ 222 (380)
+|.+.|.++|.+||+|.+ + .+.+||+.|+|+++++ .. ....+...+. .+. ...+.. +. ..
T Consensus 79 dg~~~v~~~g~~R~ki~~-~~~~~~~~~~~~a~v~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (205)
T PF02190_consen 79 DGTYKVLVQGLQRFKILK-INNETQEDPYLVAEVEPLEDVEPPESDELDEEIKALLRELIKKIKEAYENLKELLPWDLLL 157 (205)
T ss_dssp TS-EEEEEEEEEEEEEEE-EEE--ECSSCEEEEEEEE-----GCGHHHHHHHHHHHHHHHHHHH---HHHCCC-CHHHHH
T ss_pred CCCEEEEEEEEEEEEEEE-EecccccCCceEEEEEEecccCccchhhhHHHHHHHHHHHHHHHHHHHHhhhcccchhhhh
Confidence 999999999999999998 7 5699999999999965 21 1111222222 222 222333 22 22
Q ss_pred ccccCC--ccchhhhccCCCCCCccchhhcccCCHHhhhhh
Q 016906 223 HTLPSN--SSSRGYGIRDNDSDATSEESFESELSPTERRIH 261 (380)
Q Consensus 223 ~~~~~~--~~l~D~ia~~l~~~~~~kQ~iLe~~dv~eRl~~ 261 (380)
.+...+ ..|+|.+|+.++++..+||++|++.|+.+|+..
T Consensus 158 ~~~~~~~~~~l~~~~~~~l~~~~~ek~~lL~~~~~~~Rl~~ 198 (205)
T PF02190_consen 158 KINNPDNPPELADFVASLLPLSPEEKQELLETDDLKERLKL 198 (205)
T ss_dssp HTTTHHHHHHHHHHHHHHS---HHHHHHHHC--SHHHHHHH
T ss_pred hhhccCCHHHHHHHHHHhCCCCHHHHHHHHcCCCHHHHHHH
Confidence 222222 559999999999999999999999999999975
No 4
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=99.92 E-value=1.4e-24 Score=236.44 Aligned_cols=169 Identities=19% Similarity=0.214 Sum_probs=145.8
Q ss_pred EEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEE-EEeeecCCC---CCcCcccCeeEEEEEEEEEECCC-
Q 016906 88 PLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIG-VVRVFREPD---NGRITFATIGTTAEIRQYRRLED- 162 (380)
Q Consensus 88 PllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~Ig-Lv~q~kd~~---p~~~dly~IGTlAeI~qv~rlpd- 162 (380)
|+|||+++|||||+++||+|++++|++||++|+.++ +.|+ ++++ ++.+ |+.+++|.|||+|+|.++.+++|
T Consensus 1 Pl~PLr~~VLfPg~~lpL~Ife~r~i~mV~~al~~~---~~~~~vv~~-k~~~~~~p~~~~ly~VGt~a~I~~~~~~~d~ 76 (775)
T TIGR00763 1 PLLPLRRRPLFPGMIKPIDVGREKSIKLIKEALRLK---QPYLGLFLQ-KDDDNEEPEEDDIYSVGVVAQILEMLPLPSS 76 (775)
T ss_pred CeEcCCCCccCCCcceeEecCCHHHHHHHHHHHhcC---CcEEEEEEe-cCcccCCCCcccccCCceEEEEEEeccCCCC
Confidence 899999999999999999999999999999999876 6677 7776 6543 45678999999999999999555
Q ss_pred --CcEEEEEEEeEEEEEeeeeeccCCcceEEEEEecCC----------cccccHHHHHHHHHhhcC--CCcc--cccccc
Q 016906 163 --GSLNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQED----------LPLRTPRDVFETLGCVSN--LSQS--LSHTLP 226 (380)
Q Consensus 163 --G~lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E~----------al~r~l~e~f~e~a~l~~--~~~~--~~~~~~ 226 (380)
|.++|+|+|.+||+|.+ +.+.+||+.|+|+.++++ ++.+.+++.|.+|+.+++ ..+. +..+..
T Consensus 77 ~dG~~~Ilv~G~~R~rI~~-~~~~~p~~~A~V~~l~~~~~~~~~~e~~al~~~l~~~~~el~~l~~l~~~~~e~~~~~~~ 155 (775)
T TIGR00763 77 GTATYKVVVEGLRRIRIKE-LSDKGGYLVVRVDNLKEEPFDKDDEEIKALTREIKETFRELISLSKLFREQPALLSALED 155 (775)
T ss_pred CCCeEEEEEEEEEEEEEEE-EecCCCcEEEEEEEecCcCCCCCcHHHHHHHHHHHHHHHHHHHhCccccCCHHHHHHHhc
Confidence 99999999999999998 889999999999999752 256788899999999887 4444 333333
Q ss_pred CC--ccchhhhccCCCCC-CccchhhcccCCHHhhhhh
Q 016906 227 SN--SSSRGYGIRDNDSD-ATSEESFESELSPTERRIH 261 (380)
Q Consensus 227 ~~--~~l~D~ia~~l~~~-~~~kQ~iLe~~dv~eRl~~ 261 (380)
.+ ..++|.+|++++++ .++||++||+.|+.+|+..
T Consensus 156 ~~dp~~Lad~ia~~L~l~~~~eKQ~LLE~~d~~~RL~~ 193 (775)
T TIGR00763 156 IDEPGRLADFVAASLQLKEKDELQEVLETVNIEKRLKK 193 (775)
T ss_pred cCCHHHHHHHHHHhcCCCcHHHHHHHHhcCCHHHHHHH
Confidence 33 77999999999999 9999999999999999963
No 5
>COG2802 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]
Probab=99.83 E-value=3.8e-20 Score=173.11 Aligned_cols=178 Identities=21% Similarity=0.257 Sum_probs=136.8
Q ss_pred CCceeeEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEEEEeeecCCC---CCcCcccCeeEEEEEEEE
Q 016906 81 GGAILTLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIGVVRVFREPD---NGRITFATIGTTAEIRQY 157 (380)
Q Consensus 81 ~g~~~~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~IgLv~q~kd~~---p~~~dly~IGTlAeI~qv 157 (380)
+..+..||+|||++.|+|||..+||+||+++|..|++.|++.+ +.||+|...++.+ +....+..|||+|+|+++
T Consensus 6 ~~~p~~LplFPL~~~vLlPg~~LpL~IFEpRY~~Mv~~~~~~~---r~fGvv~i~~~~~~~~~~~~~ls~VGcla~I~~~ 82 (221)
T COG2802 6 DDLPLELPLFPLPGAVLLPGGLLPLNIFEPRYLAMVRTCLAEG---RRFGVVLIDRGREVGGGLPPELSDVGCLARITEF 82 (221)
T ss_pred CCccceeeccccccccccCCCCCchhhccHHHHHHHHHHHhcC---CceeEEEecccccccCCCcchhhccceeEEEeEe
Confidence 3457789999999999999999999999999999999999976 8999998744332 234578899999999999
Q ss_pred EECCCCcEEEEEEEeEEEEEeeeeeccCCcceEEEEEecCCc---c-----cccHHHHHHHHHhhcCCCcc-ccccccCC
Q 016906 158 RRLEDGSLNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQEDL---P-----LRTPRDVFETLGCVSNLSQS-LSHTLPSN 228 (380)
Q Consensus 158 ~rlpdG~lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E~a---l-----~r~l~e~f~e~a~l~~~~~~-~~~~~~~~ 228 (380)
..++||.+.|.++|.+||||.+...+.+||..|.++..++.. . -+-+.+.+............ ........
T Consensus 83 ~~~~DGr~~I~~~G~~RFRv~~~~~~~~pyr~~~~~~~~D~~~~~~~a~evdr~~~~~l~~~~r~~~~~~~l~~d~~~~~ 162 (221)
T COG2802 83 EELGDGRYLILVRGGQRFRVLEELADDDPYRRARVPFWPDLPSDPDGAEEVDRRLDALLMRAARAYLQRLELLADWESYE 162 (221)
T ss_pred eEcCCCcEEEEEEeEEEEEEEEEecccCcceeeccccCCCCccCcchHHHHHHHHHHHHHHHHHHHhhhcchhhhhcccc
Confidence 999999999999999999999955669999999999887642 1 11111112222222222222 11122211
Q ss_pred ----ccchhhhccCCCCCCccchhhcccCCHHhhhhh
Q 016906 229 ----SSSRGYGIRDNDSDATSEESFESELSPTERRIH 261 (380)
Q Consensus 229 ----~~l~D~ia~~l~~~~~~kQ~iLe~~dv~eRl~~ 261 (380)
..+++.++.-+|++...||.+++..+...|+..
T Consensus 163 ~~~~~~l~n~L~~llp~~~~~k~~ll~a~d~~~r~~~ 199 (221)
T COG2802 163 RASNADLANRLYMLLPFDPAEKQALLEAPDLPTRAER 199 (221)
T ss_pred cccHHHHHHHHHHhCCCChhHHHHHHhccchHHHHHH
Confidence 557788899999999999999999999999853
No 6
>KOG1400 consensus Predicted ATP-dependent protease PIL, contains LON domain [General function prediction only]
Probab=99.83 E-value=7.2e-21 Score=186.43 Aligned_cols=144 Identities=26% Similarity=0.315 Sum_probs=108.8
Q ss_pred CCCCCcccCccccccccccCc-cccccCccccccCCceeeEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCC
Q 016906 48 DSSNQLTFDTCLASLHTYLGD-VEDTHNRMAFLEGGAILTLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVP 126 (380)
Q Consensus 48 ~~~~~~~fd~sLp~~H~YLG~-~ed~~gr~~~le~g~~~~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~ 126 (380)
+..++.+|||+||..|+|||+ .++..+ .+++++|.+..+|++++-++|+|||++||+.+..|+..++++...... +.
T Consensus 27 ~l~de~~~n~al~d~~~~~ged~ee~~~-~~~ldd~t~~~~p~~~~~~~v~~PgqtLPl~~i~~~~~s~~r~lvs~a-r~ 104 (371)
T KOG1400|consen 27 ALEDENVFNTALPDYHLYLGEDREEYEN-EARLDDDTTNWIPICGQVMAVLFPGQTLPLKFIDPQERSIVRRLVSSA-RD 104 (371)
T ss_pred cccchhcccccCcccccccccchhhhhc-eeeecCCceeeecccCceeeEecCcccCcchhcCHHHHHHHHHHHHhh-cC
Confidence 344488999999999999998 555565 599999999999999999999999999999999997777777666552 11
Q ss_pred cEEEEEeeecCCCCCcCcccCeeEEEEEEEEEECCC--C--cEEEEEEEeEEEEEeeeeeccCCcceEEEEEecC
Q 016906 127 YTIGVVRVFREPDNGRITFATIGTTAEIRQYRRLED--G--SLNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQE 197 (380)
Q Consensus 127 ~~IgLv~q~kd~~p~~~dly~IGTlAeI~qv~rlpd--G--~lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E 197 (380)
+.|.+.+. .+. .+....-+|+++|.+...-.| | ..+|++.|++|+++++..++..|.-.|+|+++|+
T Consensus 105 ~~F~vl~r-~~v---~~re~~r~tt~evd~~R~p~d~Fgn~l~~~~~~G~y~~~vl~lR~qs~g~~e~~~qL~P~ 175 (371)
T KOG1400|consen 105 NGFVVLFR-SDV---PERESLRYTTTEVDAYRVPQDNFGNALSMVKAMGRYRCKVLKLRTQSLGRGEAEVQLLPD 175 (371)
T ss_pred CceEEEec-ccc---hHHhhccccceeccccccchhhhhhhhhhhhhhcccccceeeecccCCCcccceEEeccc
Confidence 55666654 221 234455688888875332222 3 3567788999999998446777888899998884
No 7
>smart00464 LON Found in ATP-dependent protease La (LON). N-terminal domain of the ATP-dependent protease La (LON), present also in other bacterial ORFs.
Probab=98.92 E-value=3.1e-09 Score=86.65 Aligned_cols=85 Identities=20% Similarity=0.217 Sum_probs=72.1
Q ss_pred EEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCc--EEEEEeeecCCCCCcCcccCeeEEEEEEEEEECCCCc
Q 016906 87 LPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPY--TIGVVRVFREPDNGRITFATIGTTAEIRQYRRLEDGS 164 (380)
Q Consensus 87 LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~--~IgLv~q~kd~~p~~~dly~IGTlAeI~qv~rlpdG~ 164 (380)
+|++|+++.|+|||+++||.++++++++++++++.++ . .++++.+ ++.+.+
T Consensus 2 lpviPl~~~vlfP~~~~pl~v~~~~~i~~i~~~~~~~---~~~~i~~~~~-~~~~~~----------------------- 54 (92)
T smart00464 2 LPLLPIRRRPLFPGFVLPIPVKRPKSVAAIKEALRRS---QPYVIVFLLQ-DDPTET----------------------- 54 (92)
T ss_pred ceEEEcCCCccCCCceEEEEeCCHHHHHHHHHHHhcC---CCeEEEEEEc-cCCCCC-----------------------
Confidence 7999999999999999999999999999999999876 4 5666665 332211
Q ss_pred EEEEEEEeEEEEEeeeeeccCCcceEEEEEecCCcccccHHHHHHHHHhhcCCCccccccccCCccchhhhccCCCCCCc
Q 016906 165 LNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQEDLPLRTPRDVFETLGCVSNLSQSLSHTLPSNSSSRGYGIRDNDSDAT 244 (380)
Q Consensus 165 lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E~al~r~l~e~f~e~a~l~~~~~~~~~~~~~~~~l~D~ia~~l~~~~~ 244 (380)
...+++.+|+.++++.+
T Consensus 55 ---------------------------------------------------------------~~~~~~~~a~~~~~~~~ 71 (92)
T smart00464 55 ---------------------------------------------------------------PEPLSDTIAALMPLELH 71 (92)
T ss_pred ---------------------------------------------------------------chhhhHHHhhcccccHH
Confidence 24577889999999999
Q ss_pred cchhhcccCCHHhhhhh
Q 016906 245 SEESFESELSPTERRIH 261 (380)
Q Consensus 245 ~kQ~iLe~~dv~eRl~~ 261 (380)
+||++||+.|+.+|+..
T Consensus 72 ~~q~lL~~~~~~~Rl~~ 88 (92)
T smart00464 72 EKQELLELEGTNKRLEK 88 (92)
T ss_pred HHHHHHhcccHHHHHHH
Confidence 99999999999999964
No 8
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=1.2e-07 Score=101.79 Aligned_cols=181 Identities=12% Similarity=0.132 Sum_probs=128.5
Q ss_pred CCceeeEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEEEEeeecCCC-C-----CcCc----------
Q 016906 81 GGAILTLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIGVVRVFREPD-N-----GRIT---------- 144 (380)
Q Consensus 81 ~g~~~~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~IgLv~q~kd~~-p-----~~~d---------- 144 (380)
+..+.+||+||++.-+||||..+++.|..++.+++|++-+... ..++|++.. ||.. . ...+
T Consensus 63 ~~~~~~l~~Lpi~~~pL~PGf~~~i~v~~~~~~~~i~~~l~~~--qpyiG~fl~-kdd~~~~~~~t~~~~vyi~~~~~~~ 139 (906)
T KOG2004|consen 63 PDVPPRLPALPITRGPLFPGFYKRIEVKSPKVLALIREKLRRQ--QPYIGAFLL-KDDSSGDSVITSINEVYILEVFPGK 139 (906)
T ss_pred cccCcccceeeccCCCcCCCceeEEEecCHHHHHHHHHHHHhc--Ccccceeee-ccCCCCCcceeeccccceeeeecCC
Confidence 3445689999999999999999999999999999999988764 258998886 5432 1 0111
Q ss_pred ------c--cCeeEEE---EEEEEEECCCCcEEEEEEEeEEEEEeeeeeccC--CcceEEEEEecCC---------cccc
Q 016906 145 ------F--ATIGTTA---EIRQYRRLEDGSLNVVTRGQQRFRLRRRWIDVE--GVPCGEIQIIQED---------LPLR 202 (380)
Q Consensus 145 ------l--y~IGTlA---eI~qv~rlpdG~lrVlveG~qRfrI~~~~~~~d--g~l~AeVeil~E~---------al~r 202 (380)
+ ++.+.++ .|..-.+...+.+.+.+.|..|++|.+ ...+. +.+..+|+.+.+. ++..
T Consensus 140 ~~~~~~l~~hRr~~~~~~~~~~~g~~~~~~~~~~~~~~~~r~~i~e-~~~e~~~~vl~v~v~~v~~e~~~~~~~~ka~~~ 218 (906)
T KOG2004|consen 140 DKLRMVLYPHRRIRITELAPISEGKEDAEVEYSLLVTGLSRLNITE-MKEEKEAEVLSVEVENVKDEPFKKDEEIKALTS 218 (906)
T ss_pred cchhhhhhhhhheeeeeeccccccccccccceeecccccccccchh-hhccccCCceeeeeecccCCccCcchHHHHHHH
Confidence 1 2333333 333222223456788889999999987 44442 4566666666532 3456
Q ss_pred cHHHHHHHHHhhcCCCcc-ccc---cccCC--ccchhhhccCCCCCCccchhhcccCCHHhhhh-hhhcc
Q 016906 203 TPRDVFETLGCVSNLSQS-LSH---TLPSN--SSSRGYGIRDNDSDATSEESFESELSPTERRI-HQSVI 265 (380)
Q Consensus 203 ~l~e~f~e~a~l~~~~~~-~~~---~~~~~--~~l~D~ia~~l~~~~~~kQ~iLe~~dv~eRl~-~~~~~ 265 (380)
.+...+.+++++++...+ +.. .+... .+|+|+.|+-.-.+..+.|++|+++|+.+|+. ...++
T Consensus 219 ei~~t~rdii~~n~l~r~~v~~~~~~~~~~~~~~LaD~~aai~~~~~~elq~vL~~~di~~Rl~~al~ll 288 (906)
T KOG2004|consen 219 EILKTLRDIIAVNSLFREQVATLSQLIVEDNPIKLADFGAAISGAEFHELQEVLEETDIEKRLEKALELL 288 (906)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHhcccChhHHHHHHHHHhccCHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 677777888888877766 332 22222 88999999999999999999999999999995 44444
No 9
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=4.3e-07 Score=92.83 Aligned_cols=172 Identities=22% Similarity=0.249 Sum_probs=119.8
Q ss_pred ceeeEEEEeeCCceecCCCceeeEecChhHHHHHHHHHhcCCCCcEEEEEeeecCCCCCcCcccCeeEEEEEEEEEECCC
Q 016906 83 AILTLPLFYLDGVVLFPEATLPLRVIKPNFIAAAERALSQVDVPYTIGVVRVFREPDNGRITFATIGTTAEIRQYRRLED 162 (380)
Q Consensus 83 ~~~~LPllpLrg~VLFPG~~lpL~V~rprsi~aVe~Am~~dd~~~~IgLv~q~kd~~p~~~dly~IGTlAeI~qv~rlpd 162 (380)
.....|+|++. +..||+...|++++++++..|+++++..++ +.|+++.. +...+....+.||++.+|.++..+.|
T Consensus 173 ~e~~~p~f~v~-~~~~p~v~cpl~vfe~~y~lm~~r~~~~~~--~rf~i~~s--d~~~~~~~~~e~g~i~ei~~v~~l~d 247 (398)
T KOG4159|consen 173 RECESPLFPVC-TLAFPEVPCPLQVFEPRYRLMIRRLLETGD--KRFGICLS--DSSKGSGQAAEIGCILEIRKVESLGD 247 (398)
T ss_pred ccccCCccccc-ccccccccCcHHHccchHHHHHHHHHhhcc--eeeeeecc--cccCCcchhhhccchhhhcccccccc
Confidence 34568999964 899999999999999999999999998853 78998875 22222223678999999999999999
Q ss_pred CcEEEEEEEeEEEEEeeeeeccCCcceEEEEEecCCc--------ccccHHHHHHHHHhhcCCCcc------cccccc--
Q 016906 163 GSLNVVTRGQQRFRLRRRWIDVEGVPCGEIQIIQEDL--------PLRTPRDVFETLGCVSNLSQS------LSHTLP-- 226 (380)
Q Consensus 163 G~lrVlveG~qRfrI~~~~~~~dg~l~AeVeil~E~a--------l~r~l~e~f~e~a~l~~~~~~------~~~~~~-- 226 (380)
|...+...|..||++.. +.+.++|..|+|+.+++.. ...+......+.+........ ...+..
T Consensus 248 grsv~~~~gk~r~r~~~-~~~~d~y~~~~ve~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~ 326 (398)
T KOG4159|consen 248 GRSVVDSIGKSRFRVLL-FSQTDGYPVADVEYLEDRPAVKVEGHDEPETLVELMKEVVKKECLWFESVADPMKGRLLVHF 326 (398)
T ss_pred cchhhhhhcCcceeeee-ecCCCcceeeeeeeeeCcHHhhhccchhchhHHHHHHHHHHhhhhhhhccchhhhhhhhhcc
Confidence 99999999999999998 8999999999999998731 111122222222211111111 000100
Q ss_pred CCccchhhhccCCCCCCccchhhcccCCHHhhhh
Q 016906 227 SNSSSRGYGIRDNDSDATSEESFESELSPTERRI 260 (380)
Q Consensus 227 ~~~~l~D~ia~~l~~~~~~kQ~iLe~~dv~eRl~ 260 (380)
....+.++-.+-+.......+.+++.+++..|+-
T Consensus 327 ~~~p~le~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (398)
T KOG4159|consen 327 GCMPFLEINFECLESGPAWCWWKTALLPSEARLK 360 (398)
T ss_pred cccccchhchhhhccchHHHHHHHhcCCcHHHHH
Confidence 0133334444455556666788888888888885
No 10
>PF10562 CaM_bdg_C0: Calmodulin-binding domain C0 of NMDA receptor NR1 subunit; InterPro: IPR018882 This is a very short highly conserved domain that is C-terminal to the cytosolic transmembrane region IV of the NMDA-receptor 1. It has been shown to bind Calmodulin-Calcium with high affinity. The ionotropic N-methyl-D-aspartate receptor (NMDAR) is a major source of calcium flux into neurons in the brain and plays a critical role in learning, memory, neural development, and synaptic plasticity. Calmodulin (CaM) regulates NMDARs by binding tightly to the C0 and C1 regions of their NR1 subunit. The conserved tryptophan is considered to be the anchor residue [].
Probab=67.31 E-value=4.1 Score=26.97 Aligned_cols=15 Identities=27% Similarity=0.031 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHhhh
Q 016906 364 CLAQRAAGSLTLLFV 378 (380)
Q Consensus 364 ~la~raa~~~~~~~~ 378 (380)
.||+-|||-||-+|.
T Consensus 15 elAr~a~dkWR~~ie 29 (29)
T PF10562_consen 15 ELARHAADKWRGNIE 29 (29)
T ss_pred HHHHHHHHHHHhhcC
Confidence 699999999998763
No 11
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=25.28 E-value=21 Score=35.38 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=8.4
Q ss_pred ccccchhhHH
Q 016906 348 SRAFLPHWVY 357 (380)
Q Consensus 348 ~~~~wp~w~y 357 (380)
+-+.||.|||
T Consensus 210 ~p~mwPAWVy 219 (342)
T KOG0493|consen 210 QPSMWPAWVY 219 (342)
T ss_pred Cccccceeee
Confidence 3389999999
No 12
>COG0447 MenB Dihydroxynaphthoic acid synthase [Coenzyme metabolism]
Probab=20.47 E-value=43 Score=32.60 Aligned_cols=25 Identities=28% Similarity=0.375 Sum_probs=21.1
Q ss_pred ccccccchhhHHhhcchhHHHHHHH
Q 016906 346 RTSRAFLPHWVYRMYDSYCLAQRAA 370 (380)
Q Consensus 346 ~~~~~~wp~w~y~myd~y~la~raa 370 (380)
..--+|=|+=|++|||+++.||.-.
T Consensus 38 evrNAfrP~TV~Em~~Af~~Ar~d~ 62 (282)
T COG0447 38 EVRNAFRPKTVDEMIDAFADARDDP 62 (282)
T ss_pred hhhccCCCccHHHHHHHHHhhhcCC
Confidence 4456899999999999999998643
Done!