RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2392
(1165 letters)
>gnl|CDD|235364 PRK05201, hslU, ATP-dependent protease ATP-binding subunit HslU;
Provisional.
Length = 443
Score = 793 bits (2052), Expect = 0.0
Identities = 285/437 (65%), Positives = 359/437 (82%), Gaps = 6/437 (1%)
Query: 176 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIA 235
EIVSELDKY+IGQ+ AKRAVAIALRNRWRR Q+ L+ E+TPKNILMIGPTGVGKTEIA
Sbjct: 8 EIVSELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIA 67
Query: 236 RRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVRTRAEDAA 295
RRLAKL+NAPFIK+EATKFTEVGYVGRDV++IIRDL++I++K RE + KVR +AE+AA
Sbjct: 68 RRLAKLANAPFIKVEATKFTEVGYVGRDVESIIRDLVEIAVKMVREEKREKVREKAEEAA 127
Query: 296 EDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDTGPHME 355
E+R++D L+P + + + + E + TRQ FRK+LREG LD+KEIEIE+ + P ME
Sbjct: 128 EERILDALLPPAKNNWGEEEEKEEISA--TRQKFRKKLREGELDDKEIEIEVAEAAPMME 185
Query: 356 IMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAIN 415
IM PPGMEEMT Q++ MF +G +KK RK+K++EA K+LI+EEA KL++ +EI+Q+AI
Sbjct: 186 IMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIE 245
Query: 416 NVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHILF 475
VEQNGI+F+DEIDKI R + D+SR GVQRDLLPLVEG+TV+TKYG++KTDHILF
Sbjct: 246 RVEQNGIVFIDEIDKIAARGGSSGP-DVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILF 304
Query: 476 IASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGI 535
IASGAFH++KPSDLIPELQGRFPIRVELD+L+ DF RI+T L KQY+ALLATEG+
Sbjct: 305 IASGAFHVSKPSDLIPELQGRFPIRVELDALTEEDFVRILTEPKASLIKQYQALLATEGV 364
Query: 536 KIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSFNSNNIS---LLVDADY 592
+EF DD I+R+AEIAY +NE+TENIGARRL+T MEKLLE++SF + ++S + +DA Y
Sbjct: 365 TLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKLLEDISFEAPDMSGETVTIDAAY 424
Query: 593 VNSRLGDLSINEDLSRY 609
V+ +LGDL +EDLSRY
Sbjct: 425 VDEKLGDLVKDEDLSRY 441
Score = 720 bits (1861), Expect = 0.0
Identities = 256/386 (66%), Positives = 319/386 (82%), Gaps = 3/386 (0%)
Query: 774 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIA 833
EIVSELDKY+IGQ+ AKRAVAIALRNRWRR Q+ L+ E+TPKNILMIGPTGVGKTEIA
Sbjct: 8 EIVSELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIA 67
Query: 834 RRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVRTRAEDAA 893
RRLAKL+NAPFIK+EATKFTEVGYVGRDV++IIRDL++I++K RE + KVR +AE+AA
Sbjct: 68 RRLAKLANAPFIKVEATKFTEVGYVGRDVESIIRDLVEIAVKMVREEKREKVREKAEEAA 127
Query: 894 EDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDTGPHME 953
E+R++D L+P + + + + E + TRQ FRK+LREG LD+KEIEIE+ + P ME
Sbjct: 128 EERILDALLPPAKNNWGEEEEKEEISA--TRQKFRKKLREGELDDKEIEIEVAEAAPMME 185
Query: 954 IMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAIN 1013
IM PPGMEEMT Q++ MF +G +KK RK+K++EA K+LI+EEA KL++ +EI+Q+AI
Sbjct: 186 IMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIE 245
Query: 1014 NVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHILF 1073
VEQNGI+F+DEIDKI R + D+SR GVQRDLLPLVEG+TV+TKYG++KTDHILF
Sbjct: 246 RVEQNGIVFIDEIDKIAARGGSSGP-DVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILF 304
Query: 1074 IASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGI 1133
IASGAFH++KPSDLIPELQGRFPIRVELD+L+ DF RI+T L KQY+ALLATEG+
Sbjct: 305 IASGAFHVSKPSDLIPELQGRFPIRVELDALTEEDFVRILTEPKASLIKQYQALLATEGV 364
Query: 1134 KIEFVDDGIQRLAEIAYCINERTENI 1159
+EF DD I+R+AEIAY +NE+TENI
Sbjct: 365 TLEFTDDAIRRIAEIAYQVNEKTENI 390
>gnl|CDD|224141 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 685 bits (1770), Expect = 0.0
Identities = 278/438 (63%), Positives = 354/438 (80%), Gaps = 7/438 (1%)
Query: 176 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIA 235
EIVSELD+Y+IGQ+ AK+AVAIALRNRWRR Q+ L+ E+TPKNILMIGPTGVGKTEIA
Sbjct: 8 EIVSELDRYIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIA 67
Query: 236 RRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVRTRAEDAA 295
RRLAKL+ APFIK+EATKFTEVGYVGRDV++IIRDL++I++K RE +I KV+ +AE+ A
Sbjct: 68 RRLAKLAGAPFIKVEATKFTEVGYVGRDVESIIRDLVEIAVKLVREEKIEKVKDKAEELA 127
Query: 296 EDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDTG-PHM 354
E+R++D LVP + ++ E++ TR+ FRK+LREG LD+KEIEIE+ D G P
Sbjct: 128 EERILDALVPPAKNFWGQSENKQESSA--TREKFRKKLREGELDDKEIEIEVADKGPPGF 185
Query: 355 EIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAI 414
EIM PPGMEEMT ++ MF +G +KK RK+K++EA KLLI+EEA+KL++++EI+Q+AI
Sbjct: 186 EIMGPPGMEEMTNNLQDMFGNLGGKKKKKRKLKVKEAKKLLIEEEADKLIDQEEIKQEAI 245
Query: 415 NNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHIL 474
+ EQNGI+F+DEIDKI R D+SR GVQRDLLPLVEG+TV+TKYG +KTDHIL
Sbjct: 246 DAAEQNGIVFIDEIDKIAKRGGSGGP-DVSREGVQRDLLPLVEGSTVSTKYGPVKTDHIL 304
Query: 475 FIASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEG 534
FIASGAFH+AKPSDLIPELQGRFPIRVELD+L+ DF RI+T L KQY+ALL TEG
Sbjct: 305 FIASGAFHVAKPSDLIPELQGRFPIRVELDALTKEDFERILTEPKASLIKQYKALLKTEG 364
Query: 535 IKIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSFN---SNNISLLVDAD 591
+++EF DD I+R+AEIAY +NE+TENIGARRL+T +E+LLE++SF + + +DA+
Sbjct: 365 VELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERLLEDISFEAPDMSGQKVTIDAE 424
Query: 592 YVNSRLGDLSINEDLSRY 609
YV +LGDL NEDLSR+
Sbjct: 425 YVEEKLGDLVANEDLSRF 442
Score = 621 bits (1603), Expect = 0.0
Identities = 252/387 (65%), Positives = 317/387 (81%), Gaps = 4/387 (1%)
Query: 774 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIA 833
EIVSELD+Y+IGQ+ AK+AVAIALRNRWRR Q+ L+ E+TPKNILMIGPTGVGKTEIA
Sbjct: 8 EIVSELDRYIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIA 67
Query: 834 RRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVRTRAEDAA 893
RRLAKL+ APFIK+EATKFTEVGYVGRDV++IIRDL++I++K RE +I KV+ +AE+ A
Sbjct: 68 RRLAKLAGAPFIKVEATKFTEVGYVGRDVESIIRDLVEIAVKLVREEKIEKVKDKAEELA 127
Query: 894 EDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDTG-PHM 952
E+R++D LVP + ++ E++ TR+ FRK+LREG LD+KEIEIE+ D G P
Sbjct: 128 EERILDALVPPAKNFWGQSENKQESSA--TREKFRKKLREGELDDKEIEIEVADKGPPGF 185
Query: 953 EIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAI 1012
EIM PPGMEEMT ++ MF +G +KK RK+K++EA KLLI+EEA+KL++++EI+Q+AI
Sbjct: 186 EIMGPPGMEEMTNNLQDMFGNLGGKKKKKRKLKVKEAKKLLIEEEADKLIDQEEIKQEAI 245
Query: 1013 NNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHIL 1072
+ EQNGI+F+DEIDKI R D+SR GVQRDLLPLVEG+TV+TKYG +KTDHIL
Sbjct: 246 DAAEQNGIVFIDEIDKIAKRGGSGGP-DVSREGVQRDLLPLVEGSTVSTKYGPVKTDHIL 304
Query: 1073 FIASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEG 1132
FIASGAFH+AKPSDLIPELQGRFPIRVELD+L+ DF RI+T L KQY+ALL TEG
Sbjct: 305 FIASGAFHVAKPSDLIPELQGRFPIRVELDALTKEDFERILTEPKASLIKQYKALLKTEG 364
Query: 1133 IKIEFVDDGIQRLAEIAYCINERTENI 1159
+++EF DD I+R+AEIAY +NE+TENI
Sbjct: 365 VELEFTDDAIKRIAEIAYQVNEKTENI 391
>gnl|CDD|213527 TIGR00390, hslU, ATP-dependent protease HslVU, ATPase subunit.
This model represents the ATPase subunit of HslVU, while
the proteasome-related peptidase subunit is HslV.
Residues 54-61 of the model contain a P-loop ATP-binding
motif. Cys-287 of E. coli (position 308 in the seed
alignment), studied in MEDLINE:98389714, is Ser in other
members of the seed alignment [Protein fate, Protein
folding and stabilization].
Length = 441
Score = 574 bits (1481), Expect = 0.0
Identities = 270/438 (61%), Positives = 348/438 (79%), Gaps = 7/438 (1%)
Query: 176 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIA 235
EIV+ELDKY+IGQ+ AK++VAIALRNR+RR Q+ L+ E+TPKNILMIGPTGVGKTEIA
Sbjct: 5 EIVAELDKYIIGQDEAKKSVAIALRNRYRRSQLPEELKDEVTPKNILMIGPTGVGKTEIA 64
Query: 236 RRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVRTRAEDAA 295
RRLAKL+NAPFIK+EATKFTEVGYVGRDV++++RDL+DI++K +E I KVR RAE+ A
Sbjct: 65 RRLAKLANAPFIKVEATKFTEVGYVGRDVESMVRDLVDIAVKLVKEEMIEKVRDRAEERA 124
Query: 296 EDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDTGPHM- 354
E+R++D L+P + + + S R+ FRK+LREG LD+KEIEIE++ P
Sbjct: 125 EERIVDSLLPPAKNQWGNME--EIQEEESVREAFRKKLREGELDDKEIEIEVSAKMPSGI 182
Query: 355 EIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAI 414
EIM+PPGMEEMT ++++F +G +KK RK+KI+EA K LI EEA KL++ +EI+Q+AI
Sbjct: 183 EIMAPPGMEEMTMNLQSLFQNLGPDKKKKRKLKIKEAKKALIAEEAAKLVDPEEIKQEAI 242
Query: 415 NNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHIL 474
+ VEQ+GIIF+DEIDKI + + D+SR GVQRDLLP+VEG+TVNTKYG +KTDHIL
Sbjct: 243 DRVEQSGIIFIDEIDKIAKKGESSGA-DVSREGVQRDLLPIVEGSTVNTKYGSVKTDHIL 301
Query: 475 FIASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEG 534
FIA+GAFHLAKPSDLIPELQGRFPIRVEL +L+I DF RI+T L KQY+ALL TEG
Sbjct: 302 FIAAGAFHLAKPSDLIPELQGRFPIRVELKALTIDDFERILTEPKNSLIKQYQALLKTEG 361
Query: 535 IKIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSFNSNNISL---LVDAD 591
+ I F D+ I+R+AE+AY +N++TENIGARRL+T ME+LLE++SF + + S + AD
Sbjct: 362 VNIAFSDEAIKRIAELAYNVNQKTENIGARRLHTVMERLLEDISFEAPDSSGQKVTITAD 421
Query: 592 YVNSRLGDLSINEDLSRY 609
YVN +LG L +EDLSR+
Sbjct: 422 YVNKKLGILVADEDLSRF 439
Score = 523 bits (1349), Expect = e-176
Identities = 243/387 (62%), Positives = 311/387 (80%), Gaps = 4/387 (1%)
Query: 774 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIA 833
EIV+ELDKY+IGQ+ AK++VAIALRNR+RR Q+ L+ E+TPKNILMIGPTGVGKTEIA
Sbjct: 5 EIVAELDKYIIGQDEAKKSVAIALRNRYRRSQLPEELKDEVTPKNILMIGPTGVGKTEIA 64
Query: 834 RRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVRTRAEDAA 893
RRLAKL+NAPFIK+EATKFTEVGYVGRDV++++RDL+DI++K +E I KVR RAE+ A
Sbjct: 65 RRLAKLANAPFIKVEATKFTEVGYVGRDVESMVRDLVDIAVKLVKEEMIEKVRDRAEERA 124
Query: 894 EDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDTGPHM- 952
E+R++D L+P + + + S R+ FRK+LREG LD+KEIEIE++ P
Sbjct: 125 EERIVDSLLPPAKNQWGNME--EIQEEESVREAFRKKLREGELDDKEIEIEVSAKMPSGI 182
Query: 953 EIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAI 1012
EIM+PPGMEEMT ++++F +G +KK RK+KI+EA K LI EEA KL++ +EI+Q+AI
Sbjct: 183 EIMAPPGMEEMTMNLQSLFQNLGPDKKKKRKLKIKEAKKALIAEEAAKLVDPEEIKQEAI 242
Query: 1013 NNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHIL 1072
+ VEQ+GIIF+DEIDKI + + D+SR GVQRDLLP+VEG+TVNTKYG +KTDHIL
Sbjct: 243 DRVEQSGIIFIDEIDKIAKKGESSGA-DVSREGVQRDLLPIVEGSTVNTKYGSVKTDHIL 301
Query: 1073 FIASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEG 1132
FIA+GAFHLAKPSDLIPELQGRFPIRVEL +L+I DF RI+T L KQY+ALL TEG
Sbjct: 302 FIAAGAFHLAKPSDLIPELQGRFPIRVELKALTIDDFERILTEPKNSLIKQYQALLKTEG 361
Query: 1133 IKIEFVDDGIQRLAEIAYCINERTENI 1159
+ I F D+ I+R+AE+AY +N++TENI
Sbjct: 362 VNIAFSDEAIKRIAELAYNVNQKTENI 388
>gnl|CDD|235477 PRK05456, PRK05456, ATP-dependent protease subunit HslV;
Provisional.
Length = 172
Score = 295 bits (757), Expect = 3e-93
Identities = 105/156 (67%), Positives = 132/156 (84%)
Query: 20 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDF 79
GTTIL+VRR KV++ GDGQVT GN +MK +A+KVR+LY +VLAG AGSTADAFTL +
Sbjct: 1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFER 60
Query: 80 FEANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGI 139
FEA LE+HQGNL+RA+VELAK+WR DR LRRLEAML+ A++E +LII+GNGDV+EPE+GI
Sbjct: 61 FEAKLEEHQGNLLRAAVELAKDWRTDRYLRRLEAMLIVADKEHSLIISGNGDVIEPEDGI 120
Query: 140 GAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIA 175
AIGSGG +A +AA+AL ENT+L +EI +K+L IA
Sbjct: 121 IAIGSGGNYALAAARALLENTDLSAEEIAEKALKIA 156
Score = 295 bits (757), Expect = 3e-93
Identities = 105/156 (67%), Positives = 132/156 (84%)
Query: 618 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDF 677
GTTIL+VRR KV++ GDGQVT GN +MK +A+KVR+LY +VLAG AGSTADAFTL +
Sbjct: 1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFER 60
Query: 678 FEANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGI 737
FEA LE+HQGNL+RA+VELAK+WR DR LRRLEAML+ A++E +LII+GNGDV+EPE+GI
Sbjct: 61 FEAKLEEHQGNLLRAAVELAKDWRTDRYLRRLEAMLIVADKEHSLIISGNGDVIEPEDGI 120
Query: 738 GAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIA 773
AIGSGG +A +AA+AL ENT+L +EI +K+L IA
Sbjct: 121 IAIGSGGNYALAAARALLENTDLSAEEIAEKALKIA 156
>gnl|CDD|211862 TIGR03692, ATP_dep_HslV, ATP-dependent protease HslVU, peptidase
subunit. The ATP-dependent protease HslVU, a complex of
hexameric HslU active as a protein-unfolding ATPase and
dodecameric HslV, the catalytic threonine protease
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 171
Score = 269 bits (690), Expect = 9e-84
Identities = 99/155 (63%), Positives = 128/155 (82%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TTIL+VRR KV + GDGQVT GN +MK +A+KVR+LY +VLAG AGSTADAFTL + F
Sbjct: 1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERF 60
Query: 81 EANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGIG 140
EA LE++QGNL RA+VELAK+WR DR LRRLEAML+ A++ET+L+I+G GDV+EP++GI
Sbjct: 61 EAKLEEYQGNLTRAAVELAKDWRTDRYLRRLEAMLIVADKETSLLISGTGDVIEPDDGIA 120
Query: 141 AIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIA 175
AIGSGG +A +AA+AL NT+L +EI +++L IA
Sbjct: 121 AIGSGGNYALAAARALLRNTDLSAEEIAREALKIA 155
Score = 269 bits (690), Expect = 9e-84
Identities = 99/155 (63%), Positives = 128/155 (82%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TTIL+VRR KV + GDGQVT GN +MK +A+KVR+LY +VLAG AGSTADAFTL + F
Sbjct: 1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERF 60
Query: 679 EANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGIG 738
EA LE++QGNL RA+VELAK+WR DR LRRLEAML+ A++ET+L+I+G GDV+EP++GI
Sbjct: 61 EAKLEEYQGNLTRAAVELAKDWRTDRYLRRLEAMLIVADKETSLLISGTGDVIEPDDGIA 120
Query: 739 AIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIA 773
AIGSGG +A +AA+AL NT+L +EI +++L IA
Sbjct: 121 AIGSGGNYALAAARALLRNTDLSAEEIAREALKIA 155
>gnl|CDD|238894 cd01913, protease_HslV, Protease HslV and the ATPase/chaperone HslU
are part of an ATP-dependent proteolytic system that is
the prokaryotic homolog of the proteasome. HslV is a
dimer of hexamers (a dodecamer) that forms a central
proteolytic chamber with active sites on the interior
walls of the cavity. HslV shares significant sequence
and structural similarity with the proteasomal
beta-subunit and both are members of the Ntn-family of
hydrolases. HslV has a nucleophilic threonine residue
at its N-terminus that is exposed after processing of
the propeptide and is directly involved in active site
catalysis.
Length = 171
Score = 260 bits (668), Expect = 1e-80
Identities = 97/155 (62%), Positives = 129/155 (83%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TTIL+VR+ KV + GDGQVT GN +MK +A+KVR+LY +V+AG AGSTADAFTL + F
Sbjct: 1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERF 60
Query: 81 EANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGIG 140
EA LE++ GNL+RA+VELAK+WR DR LRRLEAML+ A++E TL+I+GNGDV+EP++GI
Sbjct: 61 EAKLEQYPGNLLRAAVELAKDWRTDRYLRRLEAMLIVADKEHTLLISGNGDVIEPDDGIA 120
Query: 141 AIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIA 175
AIGSGG +A +AA+AL ++T+L +EI +K+L IA
Sbjct: 121 AIGSGGNYALAAARALLDHTDLSAEEIARKALKIA 155
Score = 260 bits (668), Expect = 1e-80
Identities = 97/155 (62%), Positives = 129/155 (83%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TTIL+VR+ KV + GDGQVT GN +MK +A+KVR+LY +V+AG AGSTADAFTL + F
Sbjct: 1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERF 60
Query: 679 EANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGIG 738
EA LE++ GNL+RA+VELAK+WR DR LRRLEAML+ A++E TL+I+GNGDV+EP++GI
Sbjct: 61 EAKLEQYPGNLLRAAVELAKDWRTDRYLRRLEAMLIVADKEHTLLISGNGDVIEPDDGIA 120
Query: 739 AIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIA 773
AIGSGG +A +AA+AL ++T+L +EI +K+L IA
Sbjct: 121 AIGSGGNYALAAARALLDHTDLSAEEIARKALKIA 155
>gnl|CDD|227692 COG5405, HslV, ATP-dependent protease HslVU (ClpYQ), peptidase
subunit [Posttranslational modification, protein
turnover, chaperones].
Length = 178
Score = 251 bits (643), Expect = 3e-77
Identities = 103/168 (61%), Positives = 129/168 (76%), Gaps = 3/168 (1%)
Query: 17 KFQGTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTL 76
F TTI++VR+ KV + GDGQVT GN +MK +A+KVR+LY +VLAG AGSTADAFTL
Sbjct: 1 TFHMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTL 60
Query: 77 LDFFEANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPE 136
+ FEA LE++QG+L RA+VELAK+WR D+ LR+LEAMLL A++ LIITGNGDV+EPE
Sbjct: 61 FERFEAKLEQYQGDLFRAAVELAKDWRTDKYLRKLEAMLLVADKTHILIITGNGDVIEPE 120
Query: 137 NGIGAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKY 184
+ I AIGSGG +A SAA+AL ENTEL EI +KSL IA ++ Y
Sbjct: 121 DDIIAIGSGGNYALSAARALMENTELSAREIAEKSLKIA---GDICIY 165
Score = 251 bits (643), Expect = 3e-77
Identities = 103/168 (61%), Positives = 129/168 (76%), Gaps = 3/168 (1%)
Query: 615 KFQGTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTL 674
F TTI++VR+ KV + GDGQVT GN +MK +A+KVR+LY +VLAG AGSTADAFTL
Sbjct: 1 TFHMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTL 60
Query: 675 LDFFEANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPE 734
+ FEA LE++QG+L RA+VELAK+WR D+ LR+LEAMLL A++ LIITGNGDV+EPE
Sbjct: 61 FERFEAKLEQYQGDLFRAAVELAKDWRTDKYLRKLEAMLLVADKTHILIITGNGDVIEPE 120
Query: 735 NGIGAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKY 782
+ I AIGSGG +A SAA+AL ENTEL EI +KSL IA ++ Y
Sbjct: 121 DDIIAIGSGGNYALSAARALMENTELSAREIAEKSLKIA---GDICIY 165
>gnl|CDD|235422 PRK05342, clpX, ATP-dependent protease ATP-binding subunit ClpX;
Provisional.
Length = 412
Score = 119 bits (301), Expect = 2e-28
Identities = 74/262 (28%), Positives = 117/262 (44%), Gaps = 69/262 (26%)
Query: 402 KLLNEDEIQQKAINNVE--QNGIIFLDEIDKITTRSSQNNNT-DISRAGVQRDLLPLVEG 458
KLL Q A +VE Q GI+++DEIDKI +S + T D+S GVQ+ LL ++EG
Sbjct: 160 KLL------QAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEG 213
Query: 459 TTVN-----------TKYGIIKTDHILFIASGAF-------------------------- 481
T + ++ + T +ILFI GAF
Sbjct: 214 TVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKK 273
Query: 482 ---------HLAKPSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYE 527
+P DL IPE GR P+ L+ L RI+T L KQY+
Sbjct: 274 EKRTEGELLKQVEPEDLIKFGLIPEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQ 333
Query: 528 ALLATEGIKIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSF---NSNNI 584
L +G+++EF D+ ++ +A+ A ER GAR L + +E++L +V F + ++
Sbjct: 334 KLFEMDGVELEFTDEALEAIAKKAI---ER--KTGARGLRSILEEILLDVMFELPSREDV 388
Query: 585 S-LLVDADYVNSRLGDLSINED 605
+++ + V + L I +
Sbjct: 389 EKVVITKEVVEGKAKPLLIYRE 410
Score = 110 bits (278), Expect = 1e-25
Identities = 44/100 (44%), Positives = 65/100 (65%), Gaps = 2/100 (2%)
Query: 175 AEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ--EITPKNILMIGPTGVGKT 232
EI + LD+YVIGQ RAK+ +++A+ N ++R + E+ NIL+IGPTG GKT
Sbjct: 63 KEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKT 122
Query: 233 EIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 272
+A+ LA++ + PF +AT TE GYVG DV+ I+ L+
Sbjct: 123 LLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLL 162
Score = 110 bits (278), Expect = 1e-25
Identities = 44/100 (44%), Positives = 65/100 (65%), Gaps = 2/100 (2%)
Query: 773 AEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ--EITPKNILMIGPTGVGKT 830
EI + LD+YVIGQ RAK+ +++A+ N ++R + E+ NIL+IGPTG GKT
Sbjct: 63 KEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKT 122
Query: 831 EIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 870
+A+ LA++ + PF +AT TE GYVG DV+ I+ L+
Sbjct: 123 LLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLL 162
Score = 107 bits (271), Expect = 1e-24
Identities = 61/204 (29%), Positives = 90/204 (44%), Gaps = 60/204 (29%)
Query: 1000 KLLNEDEIQQKAINNVE--QNGIIFLDEIDKITTRSSQNNNT-DISRAGVQRDLLPLVEG 1056
KLL Q A +VE Q GI+++DEIDKI +S + T D+S GVQ+ LL ++EG
Sbjct: 160 KLL------QAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEG 213
Query: 1057 TTVN-----------TKYGIIKTDHILFIASGAF-------------------------- 1079
T + ++ + T +ILFI GAF
Sbjct: 214 TVASVPPQGGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKK 273
Query: 1080 ---------HLAKPSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYE 1125
+P DL IPE GR P+ L+ L RI+T L KQY+
Sbjct: 274 EKRTEGELLKQVEPEDLIKFGLIPEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQ 333
Query: 1126 ALLATEGIKIEFVDDGIQRLAEIA 1149
L +G+++EF D+ ++ +A+ A
Sbjct: 334 KLFEMDGVELEFTDEALEAIAKKA 357
>gnl|CDD|224140 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 104 bits (262), Expect = 1e-23
Identities = 71/245 (28%), Positives = 114/245 (46%), Gaps = 65/245 (26%)
Query: 411 QKAINNVE--QNGIIFLDEIDKITTRSSQNNNT--DISRAGVQRDLLPLVEGTTVNT--- 463
Q A +VE + GII++DEIDKI R S+N + D+S GVQ+ LL ++EGT +
Sbjct: 152 QAADYDVERAERGIIYIDEIDKIA-RKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQ 210
Query: 464 ---KYGI-----IKTDHILFIASGAF---------------------------------H 482
K+ + T +ILFI GAF
Sbjct: 211 GGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGEL 270
Query: 483 LAK--PSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGI 535
L + P DL IPE GR P+ L+ L +I+T L KQY+ L +G+
Sbjct: 271 LKQVEPEDLVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGV 330
Query: 536 KIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSF---NSNNIS-LLVDAD 591
++EF ++ ++ +A+ A I +T GAR L + +E+LL +V F + ++ +++ +
Sbjct: 331 ELEFTEEALKAIAKKA--IERKT---GARGLRSIIEELLLDVMFELPSLEDVEKVVITEE 385
Query: 592 YVNSR 596
V+
Sbjct: 386 VVDGN 390
Score = 102 bits (256), Expect = 7e-23
Identities = 47/117 (40%), Positives = 73/117 (62%), Gaps = 1/117 (0%)
Query: 157 QENTELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ-E 215
+E E + ++ + + EI + LD+YVIGQ +AK+ +++A+ N ++R E
Sbjct: 35 EELKEALDEKELSELPTPKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVE 94
Query: 216 ITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 272
++ NIL+IGPTG GKT +A+ LAK+ N PF +AT TE GYVG DV+ I+ L+
Sbjct: 95 LSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLL 151
Score = 102 bits (256), Expect = 7e-23
Identities = 47/117 (40%), Positives = 73/117 (62%), Gaps = 1/117 (0%)
Query: 755 QENTELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ-E 813
+E E + ++ + + EI + LD+YVIGQ +AK+ +++A+ N ++R E
Sbjct: 35 EELKEALDEKELSELPTPKEIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVE 94
Query: 814 ITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 870
++ NIL+IGPTG GKT +A+ LAK+ N PF +AT TE GYVG DV+ I+ L+
Sbjct: 95 LSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLL 151
Score = 93.1 bits (232), Expect = 9e-20
Identities = 59/196 (30%), Positives = 89/196 (45%), Gaps = 56/196 (28%)
Query: 1009 QKAINNVE--QNGIIFLDEIDKITTRSSQNNNT--DISRAGVQRDLLPLVEGTTVNT--- 1061
Q A +VE + GII++DEIDKI R S+N + D+S GVQ+ LL ++EGT +
Sbjct: 152 QAADYDVERAERGIIYIDEIDKI-ARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQ 210
Query: 1062 ---KYGI-----IKTDHILFIASGAF---------------------------------H 1080
K+ + T +ILFI GAF
Sbjct: 211 GGRKHPQQEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGEL 270
Query: 1081 LAK--PSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGI 1133
L + P DL IPE GR P+ L+ L +I+T L KQY+ L +G+
Sbjct: 271 LKQVEPEDLVKFGLIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGV 330
Query: 1134 KIEFVDDGIQRLAEIA 1149
++EF ++ ++ +A+ A
Sbjct: 331 ELEFTEEALKAIAKKA 346
>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily). This Pfam entry
includes some of the AAA proteins not detected by the
pfam00004 model.
Length = 168
Score = 97.6 bits (244), Expect = 3e-23
Identities = 34/155 (21%), Positives = 51/155 (32%), Gaps = 54/155 (34%)
Query: 383 TRKIKIREAIKLLIDEEANKLLNEDEIQQKAINNVEQNG------------IIFLDEIDK 430
R + + + + + ++ E+ G I+ +DEI+K
Sbjct: 31 ERALIRIDMSEYMEE----HSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSIVLIDEIEK 86
Query: 431 ITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGI-IKTDHILFIASGAFHLAKPSD- 488
GVQ DLL ++EG T+ K G + + LFI +G F K SD
Sbjct: 87 AH-------------PGVQNDLLQILEGGTLTDKQGRKVDFRNTLFIMTGNFGSEKISDA 133
Query: 489 -----------------------LIPELQGRFPIR 500
IPE GR PI
Sbjct: 134 SRLGDSPDYELLKELVMDLLKKGFIPEFLGRLPII 168
Score = 97.6 bits (244), Expect = 3e-23
Identities = 34/155 (21%), Positives = 51/155 (32%), Gaps = 54/155 (34%)
Query: 981 TRKIKIREAIKLLIDEEANKLLNEDEIQQKAINNVEQNG------------IIFLDEIDK 1028
R + + + + + ++ E+ G I+ +DEI+K
Sbjct: 31 ERALIRIDMSEYMEE----HSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSIVLIDEIEK 86
Query: 1029 ITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGI-IKTDHILFIASGAFHLAKPSD- 1086
GVQ DLL ++EG T+ K G + + LFI +G F K SD
Sbjct: 87 AH-------------PGVQNDLLQILEGGTLTDKQGRKVDFRNTLFIMTGNFGSEKISDA 133
Query: 1087 -----------------------LIPELQGRFPIR 1098
IPE GR PI
Sbjct: 134 SRLGDSPDYELLKELVMDLLKKGFIPEFLGRLPII 168
Score = 49.5 bits (119), Expect = 1e-06
Identities = 17/40 (42%), Positives = 27/40 (67%), Gaps = 3/40 (7%)
Query: 220 NILMIGPTGVGKTEIARRLAKLSNA---PFIKIEATKFTE 256
+ L +GPTGVGKTE+A+ LA+L I+I+ +++ E
Sbjct: 5 SFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYME 44
Score = 49.5 bits (119), Expect = 1e-06
Identities = 17/40 (42%), Positives = 27/40 (67%), Gaps = 3/40 (7%)
Query: 818 NILMIGPTGVGKTEIARRLAKLSNA---PFIKIEATKFTE 854
+ L +GPTGVGKTE+A+ LA+L I+I+ +++ E
Sbjct: 5 SFLFLGPTGVGKTELAKALAELLFGDERALIRIDMSEYME 44
>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV. This
group contains the eukaryotic proteosome alpha and beta
subunits and the prokaryotic protease hslV subunit.
Proteasomes are large multimeric self-compartmentalizing
proteases, involved in the clearance of misfolded
proteins, the breakdown of regulatory proteins, and the
processing of proteins such as the preparation of
peptides for immune presentation. Two main proteasomal
types are distinguished by their different tertiary
structures: the eukaryotic/archeal 20S proteasome and
the prokaryotic proteasome-like heat shock protein
encoded by heat shock locus V, hslV. The proteasome
core particle is a highly conserved cylindrical
structure made up of non-identical subunits that have
their active sites on the inner walls of a large central
cavity. The proteasome subunits of bacteria, archaea,
and eukaryotes all share a conserved Ntn (N terminal
nucleophile) hydrolase fold and a catalytic mechanism
involving an N-terminal nucleophilic threonine that is
exposed by post-translational processing of an inactive
propeptide.
Length = 182
Score = 93.3 bits (233), Expect = 1e-21
Identities = 40/171 (23%), Positives = 71/171 (41%), Gaps = 21/171 (12%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TTI+ ++ + V L D +VT G ++ ++ +K+ K+ + + AG ADA TL++
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDH-IGCAFAGLAADAQTLVERL 59
Query: 81 EANLEKHQ------GNLMRASVELAKEWRNDR-TLRRLEAMLLTANRETT-----LIITG 128
+ ++ + + LA +LR L LL A + +
Sbjct: 60 RKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDP 119
Query: 129 NGDVLEPENGIGAIGSGGIFAQSAAKALQENTELMPDE----IIKKSLVIA 175
+G +E AIGSG +A + L + M E + K+L A
Sbjct: 120 SGSYIEY--KATAIGSGSQYALGILEKLYKPD--MTLEEAIELALKALKSA 166
Score = 93.3 bits (233), Expect = 1e-21
Identities = 40/171 (23%), Positives = 71/171 (41%), Gaps = 21/171 (12%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TTI+ ++ + V L D +VT G ++ ++ +K+ K+ + + AG ADA TL++
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDH-IGCAFAGLAADAQTLVERL 59
Query: 679 EANLEKHQ------GNLMRASVELAKEWRNDR-TLRRLEAMLLTANRETT-----LIITG 726
+ ++ + + LA +LR L LL A + +
Sbjct: 60 RKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDP 119
Query: 727 NGDVLEPENGIGAIGSGGIFAQSAAKALQENTELMPDE----IIKKSLVIA 773
+G +E AIGSG +A + L + M E + K+L A
Sbjct: 120 SGSYIEY--KATAIGSGSQYALGILEKLYKPD--MTLEEAIELALKALKSA 166
>gnl|CDD|232949 TIGR00382, clpX, endopeptidase Clp ATP-binding regulatory subunit
(clpX). A member of the ATP-dependent proteases, ClpX
has ATP-dependent chaperone activity and is required for
specific ATP-dependent proteolytic activities expressed
by ClpPX. The gene is also found to be involved in
stress tolerance in Bacillus subtilis and is essential
for the efficient acquisition of genes specifying type
IA and IB restriction [Protein fate, Protein folding and
stabilization, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 413
Score = 95.6 bits (238), Expect = 1e-20
Identities = 69/221 (31%), Positives = 101/221 (45%), Gaps = 57/221 (25%)
Query: 411 QKAINNVE--QNGIIFLDEIDKITTRSSQNNNT-DISRAGVQRDLLPLVEGTTVNT---- 463
Q A +VE Q GII++DEIDKI+ +S + T D+S GVQ+ LL ++EGT N
Sbjct: 171 QAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQG 230
Query: 464 -------KYGIIKTDHILFIASGAF---------------------------------HL 483
++ I T +ILFI GAF
Sbjct: 231 GRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQ 290
Query: 484 AKPSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGIKIE 538
+P DL IPE GR P+ L+ L I+T L KQY+AL + ++++
Sbjct: 291 VEPEDLVKFGLIPEFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELD 350
Query: 539 FVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSF 579
F ++ ++ +A+ A ER GAR L + +E LL +V F
Sbjct: 351 FEEEALKAIAKKAL---ER--KTGARGLRSIVEGLLLDVMF 386
Score = 90.6 bits (225), Expect = 6e-19
Identities = 44/101 (43%), Positives = 66/101 (65%), Gaps = 4/101 (3%)
Query: 176 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ----EITPKNILMIGPTGVGK 231
EI + LD+YVIGQ +AK+ +++A+ N ++R + E++ NIL+IGPTG GK
Sbjct: 70 EIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGK 129
Query: 232 TEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 272
T +A+ LA++ N PF +AT TE GYVG DV+ I+ L+
Sbjct: 130 TLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLL 170
Score = 90.6 bits (225), Expect = 6e-19
Identities = 44/101 (43%), Positives = 66/101 (65%), Gaps = 4/101 (3%)
Query: 774 EIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ----EITPKNILMIGPTGVGK 829
EI + LD+YVIGQ +AK+ +++A+ N ++R + E++ NIL+IGPTG GK
Sbjct: 70 EIKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGK 129
Query: 830 TEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 870
T +A+ LA++ N PF +AT TE GYVG DV+ I+ L+
Sbjct: 130 TLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLL 170
Score = 89.1 bits (221), Expect = 2e-18
Identities = 58/193 (30%), Positives = 87/193 (45%), Gaps = 52/193 (26%)
Query: 1009 QKAINNVE--QNGIIFLDEIDKITTRSSQNNNT-DISRAGVQRDLLPLVEGTTVNT---- 1061
Q A +VE Q GII++DEIDKI+ +S + T D+S GVQ+ LL ++EGT N
Sbjct: 171 QAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQG 230
Query: 1062 -------KYGIIKTDHILFIASGAF---------------------------------HL 1081
++ I T +ILFI GAF
Sbjct: 231 GRKHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQ 290
Query: 1082 AKPSD-----LIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGIKIE 1136
+P D LIPE GR P+ L+ L I+T L KQY+AL + ++++
Sbjct: 291 VEPEDLVKFGLIPEFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELD 350
Query: 1137 FVDDGIQRLAEIA 1149
F ++ ++ +A+ A
Sbjct: 351 FEEEALKAIAKKA 363
>gnl|CDD|215805 pfam00227, Proteasome, Proteasome subunit. The proteasome is a
multisubunit structure that degrades proteins. Protein
degradation is an essential component of regulation
because proteins can become misfolded, damaged, or
unnecessary. Proteasomes and their homologues vary
greatly in complexity: from HslV (heat shock locus v),
which is encoded by 1 gene in bacteria, to the
eukaryotic 20S proteasome, which is encoded by more than
14 genes. Recently evidence of two novel groups of
bacterial proteasomes was proposed. The first is Anbu,
which is sparsely distributed among cyanobacteria and
proteobacteria. The second is call beta-proteobacteria
proteasome homologue (BPH).
Length = 188
Score = 83.4 bits (207), Expect = 3e-18
Identities = 36/153 (23%), Positives = 64/153 (41%), Gaps = 17/153 (11%)
Query: 18 FQGTTILSVRRGNKVSLGGDGQVTFGN-VIMKNSAKKVRKLYQNQVLAGIAGSTADAFTL 76
GTTI+ ++ + V L D + T G+ ++ K++ +K+ K+ + + AG ADA TL
Sbjct: 2 KTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDH-IGMAFAGLAADAQTL 60
Query: 77 LDFFEANLEKHQ---GNLM----------RASVELAKEWRNDRTLRRLEAMLLTANRETT 123
+D+ A + ++ G + + R + L A
Sbjct: 61 VDYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHL 120
Query: 124 LIITGNGDVLEPENGIGAIGSGGIFAQSAAKAL 156
I +G V+E + AIGSG +A + L
Sbjct: 121 YSIDPSGSVIEYK--ATAIGSGSQYAYGFLEKL 151
Score = 83.4 bits (207), Expect = 3e-18
Identities = 36/153 (23%), Positives = 64/153 (41%), Gaps = 17/153 (11%)
Query: 616 FQGTTILSVRRGNKVSLGGDGQVTFGN-VIMKNSAKKVRKLYQNQVLAGIAGSTADAFTL 674
GTTI+ ++ + V L D + T G+ ++ K++ +K+ K+ + + AG ADA TL
Sbjct: 2 KTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDH-IGMAFAGLAADAQTL 60
Query: 675 LDFFEANLEKHQ---GNLM----------RASVELAKEWRNDRTLRRLEAMLLTANRETT 721
+D+ A + ++ G + + R + L A
Sbjct: 61 VDYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHL 120
Query: 722 LIITGNGDVLEPENGIGAIGSGGIFAQSAAKAL 754
I +G V+E + AIGSG +A + L
Sbjct: 121 YSIDPSGSVIEYK--ATAIGSGSQYAYGFLEKL 151
>gnl|CDD|238884 cd01901, Ntn_hydrolase, The Ntn hydrolases (N-terminal nucleophile)
are a diverse superfamily of of enzymes that are
activated autocatalytically via an N-terminally lcated
nucleophilic amino acid. N-terminal nucleophile (NTN-)
hydrolase superfamily, which contains a four-layered
alpha, beta, beta, alpha core structure. This family of
hydrolases includes penicillin acylase, the 20S
proteasome alpha and beta subunits, and glutamate
synthase. The mechanism of activation of these proteins
is conserved, although they differ in their substrate
specificities. All known members catalyze the hydrolysis
of amide bonds in either proteins or small molecules,
and each one of them is synthesized as a preprotein. For
each, an autocatalytic endoproteolytic process generates
a new N-terminal residue. This mature N-terminal residue
is central to catalysis and acts as both a polarizing
base and a nucleophile during the reaction. The
N-terminal amino group acts as the proton acceptor and
activates either the nucleophilic hydroxyl in a Ser or
Thr residue or the nucleophilic thiol in a Cys residue.
The position of the N-terminal nucleophile in the active
site and the mechanism of catalysis are conserved in
this family, despite considerable variation in the
protein sequences.
Length = 164
Score = 76.7 bits (189), Expect = 4e-16
Identities = 33/149 (22%), Positives = 60/149 (40%), Gaps = 12/149 (8%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
+T ++++ V L D +++ G + + K+ K + G+AG ADA TL+
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDG-IAWGLAGLAADAQTLVRRL 59
Query: 81 EANLEKHQGNLMR------ASVELAKEWRNDRTLRRLEAMLLTANRETT----LIITGNG 130
L+ ++ + ELAK + R L+ A + I +G
Sbjct: 60 REALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSG 119
Query: 131 DVLEPENGIGAIGSGGIFAQSAAKALQEN 159
V+E + A GS A+S + L +
Sbjct: 120 PVIENPGAV-ATGSRSQRAKSLLEKLYKP 147
Score = 76.7 bits (189), Expect = 4e-16
Identities = 33/149 (22%), Positives = 60/149 (40%), Gaps = 12/149 (8%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
+T ++++ V L D +++ G + + K+ K + G+AG ADA TL+
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDG-IAWGLAGLAADAQTLVRRL 59
Query: 679 EANLEKHQGNLMR------ASVELAKEWRNDRTLRRLEAMLLTANRETT----LIITGNG 728
L+ ++ + ELAK + R L+ A + I +G
Sbjct: 60 REALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSG 119
Query: 729 DVLEPENGIGAIGSGGIFAQSAAKALQEN 757
V+E + A GS A+S + L +
Sbjct: 120 PVIENPGAV-ATGSRSQRAKSLLEKLYKP 147
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase fold.
The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons, ATPase
subunits of proteases, helicases, or nucleic-acid
stimulated ATPases. The AAA+ proteins contain several
distinct features in addition to the conserved
alpha-beta-alpha core domain structure and the Walker A
and B motifs of the P-loop NTPases.
Length = 151
Score = 53.7 bits (129), Expect = 4e-08
Identities = 33/129 (25%), Positives = 53/129 (41%), Gaps = 23/129 (17%)
Query: 186 IGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLS--- 242
+GQ A A+ AL PKN+L+ GP G GKT +AR +A
Sbjct: 1 VGQEEAIEALREALELP--------------PPKNLLLYGPPGTGKTTLARAIANELFRP 46
Query: 243 NAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREF-----EINKVRTRAEDAAED 297
APF+ + A+ E V + L+ ++ + EI+ + A++A
Sbjct: 47 GAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALL- 105
Query: 298 RVIDILVPS 306
RV++ L
Sbjct: 106 RVLETLNDL 114
Score = 53.7 bits (129), Expect = 4e-08
Identities = 33/129 (25%), Positives = 53/129 (41%), Gaps = 23/129 (17%)
Query: 784 IGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLS--- 840
+GQ A A+ AL PKN+L+ GP G GKT +AR +A
Sbjct: 1 VGQEEAIEALREALELP--------------PPKNLLLYGPPGTGKTTLARAIANELFRP 46
Query: 841 NAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREF-----EINKVRTRAEDAAED 895
APF+ + A+ E V + L+ ++ + EI+ + A++A
Sbjct: 47 GAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALL- 105
Query: 896 RVIDILVPS 904
RV++ L
Sbjct: 106 RVLETLNDL 114
Score = 41.0 bits (96), Expect = 9e-04
Identities = 21/110 (19%), Positives = 36/110 (32%), Gaps = 19/110 (17%)
Query: 396 IDEEANKLLNEDEIQQKAINNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPL 455
A + + + G++F+DEID + G Q LL +
Sbjct: 61 GLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL-------------SRGAQNALLRV 107
Query: 456 VEGTTVNTKYGIIKTDHILFIASGAFHLAKPSDLIPELQGRFPIRVELDS 505
+E I +++ I + L DL L R IR+ +
Sbjct: 108 LET----LNDLRIDRENVRVIGATNRPL--LGDLDRALYDRLDIRIVIPL 151
Score = 41.0 bits (96), Expect = 9e-04
Identities = 21/110 (19%), Positives = 36/110 (32%), Gaps = 19/110 (17%)
Query: 994 IDEEANKLLNEDEIQQKAINNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPL 1053
A + + + G++F+DEID + G Q LL +
Sbjct: 61 GLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL-------------SRGAQNALLRV 107
Query: 1054 VEGTTVNTKYGIIKTDHILFIASGAFHLAKPSDLIPELQGRFPIRVELDS 1103
+E I +++ I + L DL L R IR+ +
Sbjct: 108 LET----LNDLRIDRENVRVIGATNRPL--LGDLDRALYDRLDIRIVIPL 151
>gnl|CDD|223786 COG0714, COG0714, MoxR-like ATPases [General function prediction
only].
Length = 329
Score = 54.7 bits (132), Expect = 1e-07
Identities = 31/125 (24%), Positives = 49/125 (39%), Gaps = 24/125 (19%)
Query: 160 TELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPK 219
+ P E + + L +I SEL+K V+G +AL
Sbjct: 3 EIMAPLERVAEIL--GKIRSELEKVVVGDEEVIELALLALLAG----------------G 44
Query: 220 NILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQT 279
++L+ GP GVGKT +AR LA+ PF++I+ T D + + +
Sbjct: 45 HVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPS------DLLGTYAYAALLLEP 98
Query: 280 REFEI 284
EF
Sbjct: 99 GEFRF 103
Score = 54.7 bits (132), Expect = 1e-07
Identities = 31/125 (24%), Positives = 49/125 (39%), Gaps = 24/125 (19%)
Query: 758 TELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPK 817
+ P E + + L +I SEL+K V+G +AL
Sbjct: 3 EIMAPLERVAEIL--GKIRSELEKVVVGDEEVIELALLALLAG----------------G 44
Query: 818 NILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQT 877
++L+ GP GVGKT +AR LA+ PF++I+ T D + + +
Sbjct: 45 HVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPS------DLLGTYAYAALLLEP 98
Query: 878 REFEI 882
EF
Sbjct: 99 GEFRF 103
>gnl|CDD|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 49.4 bits (118), Expect = 8e-06
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 19/95 (20%)
Query: 185 VIGQNRAKRAVAIALR-----NRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLA 239
VIGQ AKR + + R+ + PKN+L GP G GKT +A+ LA
Sbjct: 123 VIGQEEAKRKCRLIMEYLENPERFG----------DWAPKNVLFYGPPGTGKTMMAKALA 172
Query: 240 KLSNAPFIKIEATKFTEVG-YVGRDVDTIIRDLID 273
+ P + ++AT+ +G +VG D I +L +
Sbjct: 173 NEAKVPLLLVKATEL--IGEHVG-DGARRIHELYE 204
Score = 49.4 bits (118), Expect = 8e-06
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 19/95 (20%)
Query: 783 VIGQNRAKRAVAIALR-----NRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLA 837
VIGQ AKR + + R+ + PKN+L GP G GKT +A+ LA
Sbjct: 123 VIGQEEAKRKCRLIMEYLENPERFG----------DWAPKNVLFYGPPGTGKTMMAKALA 172
Query: 838 KLSNAPFIKIEATKFTEVG-YVGRDVDTIIRDLID 871
+ P + ++AT+ +G +VG D I +L +
Sbjct: 173 NEAKVPLLLVKATEL--IGEHVG-DGARRIHELYE 204
>gnl|CDD|198154 smart01086, ClpB_D2-small, C-terminal, D2-small domain, of ClpB
protein. This is the C-terminal domain of ClpB protein,
referred to as the D2-small domain, and is a mixed
alpha-beta structure. Compared with the D1-small domain
(included in AAA) it lacks the long coiled-coil
insertion, and instead of helix C4 contains a
beta-strand (e3) that is part of a three stranded
beta-pleated sheet. In Thermophilus the whole protein
forms a hexamer with the D1-small and D2-small domains
located on the outside of the hexamer, with the long
coiled-coil being exposed on the surface. The D2-small
domain is essential for oligomerisation, forming a tight
interface with the D2-large domain of a neighbouring
subunit and thereby providing enough binding energy to
stabilise the functional assembly. The domain is
associated with two Clp_N at the N-terminus as well as
AAA and AAA_2.
Length = 90
Score = 43.6 bits (104), Expect = 3e-05
Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 15/78 (19%)
Query: 506 LSISDFTRIMTSTNVCLTKQYEAL---LATEGIKIEFVDDGIQRLAEIAYCINERTENIG 562
L D RI + AL LA +GI +EF D+ + LAE Y G
Sbjct: 1 LDKEDLVRI-------VDLPLNALQKRLAEKGITLEFTDEALDWLAEKGY-----DPKYG 48
Query: 563 ARRLYTAMEKLLEEVSFN 580
AR L +++ LE+
Sbjct: 49 ARPLRRIIQRELEDPLAE 66
Score = 28.6 bits (65), Expect = 5.1
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 10/50 (20%)
Query: 1104 LSISDFTRIMTSTNVCLTKQYEAL---LATEGIKIEFVDDGIQRLAEIAY 1150
L D RI + AL LA +GI +EF D+ + LAE Y
Sbjct: 1 LDKEDLVRI-------VDLPLNALQKRLAEKGITLEFTDEALDWLAEKGY 43
>gnl|CDD|215649 pfam00004, AAA, ATPase family associated with various cellular
activities (AAA). AAA family proteins often perform
chaperone-like functions that assist in the assembly,
operation, or disassembly of protein complexes.
Length = 131
Score = 44.1 bits (105), Expect = 4e-05
Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 9/92 (9%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTR 280
+L+ GP G GKT +A+ +AK APFI+I ++ YVG + + +R+L + + K
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSK-YVG-ESEKRLRELFEAAKKLAP 58
Query: 281 ------EFE-INKVRTRAEDAAEDRVIDILVP 305
E + + R D+ RV++ L+
Sbjct: 59 CVIFIDEIDALAGSRGSGGDSESRRVVNQLLT 90
Score = 44.1 bits (105), Expect = 4e-05
Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 9/92 (9%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTR 878
+L+ GP G GKT +A+ +AK APFI+I ++ YVG + + +R+L + + K
Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSK-YVG-ESEKRLRELFEAAKKLAP 58
Query: 879 ------EFE-INKVRTRAEDAAEDRVIDILVP 903
E + + R D+ RV++ L+
Sbjct: 59 CVIFIDEIDALAGSRGSGGDSESRRVVNQLLT 90
Score = 41.0 bits (97), Expect = 5e-04
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 14/84 (16%)
Query: 422 IIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHILFIASGAF 481
+IF+DEID + +++ R V LL ++G T + ++ IA+
Sbjct: 60 VIFIDEIDALAGSRGSGGDSESRR--VVNQLLTELDGFTSS-------LSKVIVIAAT-- 108
Query: 482 HLAKPSDLIPEL-QGRFPIRVELD 504
+P L P L +GRF +E
Sbjct: 109 --NRPDKLDPALLRGRFDRIIEFP 130
Score = 41.0 bits (97), Expect = 5e-04
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 14/84 (16%)
Query: 1020 IIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHILFIASGAF 1079
+IF+DEID + +++ R V LL ++G T + ++ IA+
Sbjct: 60 VIFIDEIDALAGSRGSGGDSESRR--VVNQLLTELDGFTSS-------LSKVIVIAAT-- 108
Query: 1080 HLAKPSDLIPEL-QGRFPIRVELD 1102
+P L P L +GRF +E
Sbjct: 109 --NRPDKLDPALLRGRFDRIIEFP 130
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling inter-
mediates into the (bacterio)chlorophyll branch in
response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 45.6 bits (109), Expect = 5e-05
Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 16/54 (29%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRL 238
V GQ +AKRA+ IA N+LMIGP G GKT +A+RL
Sbjct: 5 VKGQEQAKRALEIAAAGG----------------HNLLMIGPPGSGKTMLAKRL 42
Score = 45.6 bits (109), Expect = 5e-05
Identities = 22/54 (40%), Positives = 27/54 (50%), Gaps = 16/54 (29%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRL 836
V GQ +AKRA+ IA N+LMIGP G GKT +A+RL
Sbjct: 5 VKGQEQAKRALEIAAAGG----------------HNLLMIGPPGSGKTMLAKRL 42
>gnl|CDD|221983 pfam13207, AAA_17, AAA domain.
Length = 114
Score = 42.7 bits (100), Expect = 1e-04
Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRD--------VDTIIRDLI 272
IL+ GP G GK+ +A++LA+ P I ++ E D ++ +++
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPVISLDDLLREEGLAELDDGELDDIDIDLELLEEIL 61
Query: 273 DISIKQTREFEINKVRTRAEDAAE-DRVIDILVP 305
D KQ + + T E D V+ + +P
Sbjct: 62 DELAKQEWVIDGVRESTLELRLEEADLVVFLDLP 95
Score = 42.7 bits (100), Expect = 1e-04
Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRD--------VDTIIRDLI 870
IL+ GP G GK+ +A++LA+ P I ++ E D ++ +++
Sbjct: 2 ILITGPPGSGKSTLAKKLAEKLGIPVISLDDLLREEGLAELDDGELDDIDIDLELLEEIL 61
Query: 871 DISIKQTREFEINKVRTRAEDAAE-DRVIDILVP 903
D KQ + + T E D V+ + +P
Sbjct: 62 DELAKQEWVIDGVRESTLELRLEEADLVVFLDLP 95
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 44.6 bits (106), Expect = 1e-04
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 609 YDSGMEKFQGTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGST 668
Y K GTT + ++ + V L D + T G +I ++ +K+ K+ + + IAG
Sbjct: 21 YALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDH-IGMAIAGLA 79
Query: 669 ADAFTLLDFFEANLEKHQ 686
ADA L+ + A + ++
Sbjct: 80 ADAQVLVRYARAEAQLYR 97
Score = 44.2 bits (105), Expect = 2e-04
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 20 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDF 79
GTT + ++ + V L D + T G +I ++ +K+ K+ + + IAG ADA L+ +
Sbjct: 30 GTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDH-IGMAIAGLAADAQVLVRY 88
Query: 80 FEANLEKHQ 88
A + ++
Sbjct: 89 ARAEAQLYR 97
>gnl|CDD|182791 PRK10865, PRK10865, protein disaggregation chaperone; Provisional.
Length = 857
Score = 46.0 bits (109), Expect = 1e-04
Identities = 34/88 (38%), Positives = 49/88 (55%), Gaps = 8/88 (9%)
Query: 180 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLA 239
EL VIGQN A AV+ A+R R ++ P + I + L +GPTGVGKTE+ + LA
Sbjct: 565 ELHHRVIGQNEAVEAVSNAIRRS--RAGLSDP-NRPI--GSFLFLGPTGVGKTELCKALA 619
Query: 240 KL---SNAPFIKIEATKFTEVGYVGRDV 264
S+ ++I+ ++F E V R V
Sbjct: 620 NFMFDSDDAMVRIDMSEFMEKHSVSRLV 647
Score = 46.0 bits (109), Expect = 1e-04
Identities = 34/88 (38%), Positives = 49/88 (55%), Gaps = 8/88 (9%)
Query: 778 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLA 837
EL VIGQN A AV+ A+R R ++ P + I + L +GPTGVGKTE+ + LA
Sbjct: 565 ELHHRVIGQNEAVEAVSNAIRRS--RAGLSDP-NRPI--GSFLFLGPTGVGKTELCKALA 619
Query: 838 KL---SNAPFIKIEATKFTEVGYVGRDV 862
S+ ++I+ ++F E V R V
Sbjct: 620 NFMFDSDDAMVRIDMSEFMEKHSVSRLV 647
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 44.6 bits (105), Expect = 3e-04
Identities = 30/80 (37%), Positives = 43/80 (53%), Gaps = 9/80 (11%)
Query: 185 VIGQNRAKRAVAIA---LRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 241
V G + AK VA LR R Q++ G + PK +LM+GP G GKT +A+ +A
Sbjct: 154 VAGCDEAKEEVAELVEYLREPSRFQKLGGKI-----PKGVLMVGPPGTGKTLLAKAIAGE 208
Query: 242 SNAPFIKIEATKFTEVGYVG 261
+ PF I + F E+ +VG
Sbjct: 209 AKVPFFTISGSDFVEM-FVG 227
Score = 44.6 bits (105), Expect = 3e-04
Identities = 30/80 (37%), Positives = 43/80 (53%), Gaps = 9/80 (11%)
Query: 783 VIGQNRAKRAVAIA---LRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 839
V G + AK VA LR R Q++ G + PK +LM+GP G GKT +A+ +A
Sbjct: 154 VAGCDEAKEEVAELVEYLREPSRFQKLGGKI-----PKGVLMVGPPGTGKTLLAKAIAGE 208
Query: 840 SNAPFIKIEATKFTEVGYVG 859
+ PF I + F E+ +VG
Sbjct: 209 AKVPFFTISGSDFVEM-FVG 227
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 44.6 bits (106), Expect = 3e-04
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 18/96 (18%)
Query: 180 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPK-NILMIGPTGVGKTEIARRL 238
L + GQ+ A + A+ ++ L P + L +GPTGVGKTE+A++L
Sbjct: 450 NLKAKIFGQDEAIDQLVSAI------KRSRAGLGDPNKPVGSFLFVGPTGVGKTELAKQL 503
Query: 239 AKLSNAPFIKIEATKFTE-----------VGYVGRD 263
A+ ++ + +++ E GYVG +
Sbjct: 504 AEELGVHLLRFDMSEYMEKHTVSRLIGSPPGYVGFE 539
Score = 44.6 bits (106), Expect = 3e-04
Identities = 25/96 (26%), Positives = 44/96 (45%), Gaps = 18/96 (18%)
Query: 778 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPK-NILMIGPTGVGKTEIARRL 836
L + GQ+ A + A+ ++ L P + L +GPTGVGKTE+A++L
Sbjct: 450 NLKAKIFGQDEAIDQLVSAI------KRSRAGLGDPNKPVGSFLFVGPTGVGKTELAKQL 503
Query: 837 AKLSNAPFIKIEATKFTE-----------VGYVGRD 861
A+ ++ + +++ E GYVG +
Sbjct: 504 AEELGVHLLRFDMSEYMEKHTVSRLIGSPPGYVGFE 539
Score = 30.8 bits (70), Expect = 6.2
Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 9/76 (11%)
Query: 491 PELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGIKIEFVDDGIQRLAEI 550
PE + R + + LS +I+ + + L + I++E DD + LAE
Sbjct: 633 PEFRNRLDAIIHFNDLSEEMAEKIVKK----FLDELQDQLNEKNIELELTDDAKKYLAEK 688
Query: 551 AYCINERTENIGARRL 566
Y E GAR L
Sbjct: 689 GY-----DEEFGARPL 699
>gnl|CDD|223679 COG0606, COG0606, Predicted ATPase with chaperone activity
[Posttranslational modification, protein turnover,
chaperones].
Length = 490
Score = 44.1 bits (105), Expect = 4e-04
Identities = 28/77 (36%), Positives = 34/77 (44%), Gaps = 17/77 (22%)
Query: 166 EIIKKSLVIAEIVSELD-KYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMI 224
I S VI D K V GQ +AKRA+ IA G N+L++
Sbjct: 161 PIPIPSEVIESFSLAPDFKDVKGQEQAKRALEIA---------AAGG-------HNLLLV 204
Query: 225 GPTGVGKTEIARRLAKL 241
GP G GKT +A RL L
Sbjct: 205 GPPGTGKTMLASRLPGL 221
Score = 44.1 bits (105), Expect = 4e-04
Identities = 28/77 (36%), Positives = 34/77 (44%), Gaps = 17/77 (22%)
Query: 764 EIIKKSLVIAEIVSELD-KYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMI 822
I S VI D K V GQ +AKRA+ IA G N+L++
Sbjct: 161 PIPIPSEVIESFSLAPDFKDVKGQEQAKRALEIA---------AAGG-------HNLLLV 204
Query: 823 GPTGVGKTEIARRLAKL 839
GP G GKT +A RL L
Sbjct: 205 GPPGTGKTMLASRLPGL 221
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 43.8 bits (104), Expect = 7e-04
Identities = 32/99 (32%), Positives = 49/99 (49%), Gaps = 21/99 (21%)
Query: 180 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITP-KNILMIGPTGVGKTEIARRL 238
L + V+GQ+ A AV+ A+R R R L P + L +GPTGVGKTE+A+ L
Sbjct: 562 VLHERVVGQDEAVEAVSDAIR-RSR-----AGLSDPNRPIGSFLFLGPTGVGKTELAKAL 615
Query: 239 AKL---SNAPFIKIEATKFTEV-----------GYVGRD 263
A+ ++I+ +++ E GYVG +
Sbjct: 616 AEFLFDDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYE 654
Score = 43.8 bits (104), Expect = 7e-04
Identities = 32/99 (32%), Positives = 49/99 (49%), Gaps = 21/99 (21%)
Query: 778 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITP-KNILMIGPTGVGKTEIARRL 836
L + V+GQ+ A AV+ A+R R R L P + L +GPTGVGKTE+A+ L
Sbjct: 562 VLHERVVGQDEAVEAVSDAIR-RSR-----AGLSDPNRPIGSFLFLGPTGVGKTELAKAL 615
Query: 837 AKL---SNAPFIKIEATKFTEV-----------GYVGRD 861
A+ ++I+ +++ E GYVG +
Sbjct: 616 AEFLFDDEDAMVRIDMSEYMEKHSVARLIGAPPGYVGYE 654
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This Pfam
entry includes some of the AAA proteins not detected by
the pfam00004 model.
Length = 135
Score = 40.7 bits (96), Expect = 7e-04
Identities = 17/38 (44%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 220 NILMIGPTGVGKTEIARRLAK-LSNAPFIKIEATKFTE 256
+L++GP G GK+E+A RLA LSN P ++ T+ T
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTT 38
Score = 40.7 bits (96), Expect = 7e-04
Identities = 17/38 (44%), Positives = 25/38 (65%), Gaps = 1/38 (2%)
Query: 818 NILMIGPTGVGKTEIARRLAK-LSNAPFIKIEATKFTE 854
+L++GP G GK+E+A RLA LSN P ++ T+ T
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTT 38
>gnl|CDD|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA. This
model represents the AAA family ATPase, EccA, of the
actinobacterial flavor of type VII secretion systems.
Species such as Mycobacterium tuberculosis have several
instances of this system per genome, designated EccA1,
EccA2, etc [Protein fate, Protein and peptide secretion
and trafficking].
Length = 557
Score = 43.3 bits (102), Expect = 7e-04
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 6/76 (7%)
Query: 169 KKSLVIAEIVSELDKYVIGQNRAKRAVAI---ALRNRWRRQQITGPLQQEITPKNILMIG 225
+K+ ++AE +EL + IG R KR VA + R + P+ Q T ++L G
Sbjct: 263 RKAKLLAEAEAELAEQ-IGLERVKRQVAALKSSTAMALARAERGLPVAQ--TSNHMLFAG 319
Query: 226 PTGVGKTEIARRLAKL 241
P G GKT IAR +AK+
Sbjct: 320 PPGTGKTTIARVVAKI 335
Score = 43.3 bits (102), Expect = 7e-04
Identities = 28/76 (36%), Positives = 41/76 (53%), Gaps = 6/76 (7%)
Query: 767 KKSLVIAEIVSELDKYVIGQNRAKRAVAI---ALRNRWRRQQITGPLQQEITPKNILMIG 823
+K+ ++AE +EL + IG R KR VA + R + P+ Q T ++L G
Sbjct: 263 RKAKLLAEAEAELAEQ-IGLERVKRQVAALKSSTAMALARAERGLPVAQ--TSNHMLFAG 319
Query: 824 PTGVGKTEIARRLAKL 839
P G GKT IAR +AK+
Sbjct: 320 PPGTGKTTIARVVAKI 335
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 43.1 bits (102), Expect = 8e-04
Identities = 59/226 (26%), Positives = 87/226 (38%), Gaps = 56/226 (24%)
Query: 73 AFTLLDFFEANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDV 132
A LLD + + L A+ EL KE R L+ + + + ET +
Sbjct: 390 AIDLLDEAGSRVRLINSRLPPAARELDKELR--EILKDKDEAIREQDFETA------KQL 441
Query: 133 LEPENGIGAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVS------------- 179
+ E + A I A +K +E L + ++ IAEIVS
Sbjct: 442 RDREMEVRA----QIAAIIQSKKTEEEKRLEVPVVTEED--IAEIVSAWTGIPVNKLTKS 495
Query: 180 ----------ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGV 229
L K +IGQ+ A AV+ A+R R R G + L GPTGV
Sbjct: 496 ESEKLLHMEETLHKRIIGQDEAVVAVSKAIR-RAR----VGLKNPNRPIASFLFSGPTGV 550
Query: 230 GKTEIARRLAKL---SNAPFIKIEATKFTE-----------VGYVG 261
GKTE+ + LA S I+++ +++ E GYVG
Sbjct: 551 GKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVG 596
Score = 43.1 bits (102), Expect = 8e-04
Identities = 59/226 (26%), Positives = 87/226 (38%), Gaps = 56/226 (24%)
Query: 671 AFTLLDFFEANLEKHQGNLMRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDV 730
A LLD + + L A+ EL KE R L+ + + + ET +
Sbjct: 390 AIDLLDEAGSRVRLINSRLPPAARELDKELR--EILKDKDEAIREQDFETA------KQL 441
Query: 731 LEPENGIGAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVS------------- 777
+ E + A I A +K +E L + ++ IAEIVS
Sbjct: 442 RDREMEVRA----QIAAIIQSKKTEEEKRLEVPVVTEED--IAEIVSAWTGIPVNKLTKS 495
Query: 778 ----------ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGV 827
L K +IGQ+ A AV+ A+R R R G + L GPTGV
Sbjct: 496 ESEKLLHMEETLHKRIIGQDEAVVAVSKAIR-RAR----VGLKNPNRPIASFLFSGPTGV 550
Query: 828 GKTEIARRLAKL---SNAPFIKIEATKFTE-----------VGYVG 859
GKTE+ + LA S I+++ +++ E GYVG
Sbjct: 551 GKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVG 596
>gnl|CDD|234654 PRK00131, aroK, shikimate kinase; Reviewed.
Length = 175
Score = 40.2 bits (95), Expect = 0.002
Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 15/61 (24%)
Query: 216 ITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIS 275
+ NI++IG G GK+ I R LAK FI D D +I S
Sbjct: 2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFI---------------DTDHLIEARAGKS 46
Query: 276 I 276
I
Sbjct: 47 I 47
Score = 40.2 bits (95), Expect = 0.002
Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 15/61 (24%)
Query: 814 ITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIS 873
+ NI++IG G GK+ I R LAK FI D D +I S
Sbjct: 2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDFI---------------DTDHLIEARAGKS 46
Query: 874 I 874
I
Sbjct: 47 I 47
>gnl|CDD|238260 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is a
important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP.
Length = 154
Score = 39.8 bits (94), Expect = 0.002
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 220 NILMIGPTGVGKTEIARRLAKLSNAPFI 247
NI++IG G GKT + R LAK PF+
Sbjct: 1 NIVLIGMMGAGKTTVGRLLAKALGLPFV 28
Score = 39.8 bits (94), Expect = 0.002
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 818 NILMIGPTGVGKTEIARRLAKLSNAPFI 845
NI++IG G GKT + R LAK PF+
Sbjct: 1 NIVLIGMMGAGKTTVGRLLAKALGLPFV 28
>gnl|CDD|223616 COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ
chaperones [Posttranslational modification, protein
turnover, chaperones].
Length = 786
Score = 41.5 bits (98), Expect = 0.003
Identities = 26/63 (41%), Positives = 35/63 (55%), Gaps = 7/63 (11%)
Query: 179 SELDKYVIGQNRAKRAVAIAL-RNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARR 237
L K VIGQ+ A AV+ A+ R R P+ + L +GPTGVGKTE+A+
Sbjct: 487 RRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIG------SFLFLGPTGVGKTELAKA 540
Query: 238 LAK 240
LA+
Sbjct: 541 LAE 543
Score = 41.5 bits (98), Expect = 0.003
Identities = 26/63 (41%), Positives = 35/63 (55%), Gaps = 7/63 (11%)
Query: 777 SELDKYVIGQNRAKRAVAIAL-RNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARR 835
L K VIGQ+ A AV+ A+ R R P+ + L +GPTGVGKTE+A+
Sbjct: 487 RRLKKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIG------SFLFLGPTGVGKTELAKA 540
Query: 836 LAK 838
LA+
Sbjct: 541 LAE 543
>gnl|CDD|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH.
HflB(FtsH) is a pleiotropic protein required for correct
cell division in bacteria. It has ATP-dependent zinc
metalloprotease activity. It was formerly designated
cell division protein FtsH [Cellular processes, Cell
division, Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 495
Score = 41.1 bits (97), Expect = 0.003
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVG 261
PK +L++GP G GKT +A+ +A + PF I + F E+ +VG
Sbjct: 88 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM-FVG 130
Score = 41.1 bits (97), Expect = 0.003
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVG 859
PK +L++GP G GKT +A+ +A + PF I + F E+ +VG
Sbjct: 88 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM-FVG 130
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 39.3 bits (93), Expect = 0.003
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 249
T +L+ G +G GK AR + +LS + PF+ +
Sbjct: 21 TDATVLITGESGTGKELFARAIHQLSPRADGPFVAV 56
Score = 39.3 bits (93), Expect = 0.003
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 847
T +L+ G +G GK AR + +LS + PF+ +
Sbjct: 21 TDATVLITGESGTGKELFARAIHQLSPRADGPFVAV 56
>gnl|CDD|225165 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 40.7 bits (96), Expect = 0.004
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 223 MI--GPTGVGKTEIARRLAKLSNAPFIKIEATKFT 255
MI GP G GKT +AR +A +NA F + A
Sbjct: 51 MILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSG 85
Score = 40.7 bits (96), Expect = 0.004
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 821 MI--GPTGVGKTEIARRLAKLSNAPFIKIEATKFT 853
MI GP G GKT +AR +A +NA F + A
Sbjct: 51 MILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSG 85
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 38.5 bits (89), Expect = 0.004
Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 3/75 (4%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLSNAP---FIKIEATKFTEVGYVGRDVDTIIRDLID 273
+ IL++GP G GKT +AR LA+ P I I+ E + +
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 274 ISIKQTREFEINKVR 288
S + + R
Sbjct: 61 GSGELRLRLALALAR 75
Score = 38.5 bits (89), Expect = 0.004
Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 3/75 (4%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLSNAP---FIKIEATKFTEVGYVGRDVDTIIRDLID 871
+ IL++GP G GKT +AR LA+ P I I+ E + +
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60
Query: 872 ISIKQTREFEINKVR 886
S + + R
Sbjct: 61 GSGELRLRLALALAR 75
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 40.6 bits (95), Expect = 0.005
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 19/87 (21%)
Query: 158 ENTELMP--DEIIKKSLVIAEIVSELD-KYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ 214
E +E +P KS++ + +LD K + GQ AKRA+ IA G
Sbjct: 164 EGSEKLPPRTNTKPKSIINKSYIIDLDLKDIKGQQHAKRALEIA---------AAGG--- 211
Query: 215 EITPKNILMIGPTGVGKTEIARRLAKL 241
N+L+ GP G GKT +A RL +
Sbjct: 212 ----HNLLLFGPPGSGKTMLASRLQGI 234
Score = 40.6 bits (95), Expect = 0.005
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 19/87 (21%)
Query: 756 ENTELMP--DEIIKKSLVIAEIVSELD-KYVIGQNRAKRAVAIALRNRWRRQQITGPLQQ 812
E +E +P KS++ + +LD K + GQ AKRA+ IA G
Sbjct: 164 EGSEKLPPRTNTKPKSIINKSYIIDLDLKDIKGQQHAKRALEIA---------AAGG--- 211
Query: 813 EITPKNILMIGPTGVGKTEIARRLAKL 839
N+L+ GP G GKT +A RL +
Sbjct: 212 ----HNLLLFGPPGSGKTMLASRLQGI 234
>gnl|CDD|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex,
archaeal, beta subunit. This protein family describes
the archaeal proteasome beta subunit, homologous to
both the alpha subunit and to the alpha and beta
subunits of eukaryotic proteasome subunits. This family
is universal in the first 29 complete archaeal genomes
but occasionally is duplicated [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 185
Score = 38.7 bits (91), Expect = 0.006
Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 20 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDF 79
GTT + ++ + V L D + + GN + +AKKV ++ + + IAGS DA +L+
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQI-DDYIAMTIAGSVGDAQSLVRI 59
Query: 80 FEANLE 85
+A +
Sbjct: 60 LKAEAK 65
Score = 38.7 bits (91), Expect = 0.006
Identities = 20/66 (30%), Positives = 36/66 (54%), Gaps = 1/66 (1%)
Query: 618 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDF 677
GTT + ++ + V L D + + GN + +AKKV ++ + + IAGS DA +L+
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQI-DDYIAMTIAGSVGDAQSLVRI 59
Query: 678 FEANLE 683
+A +
Sbjct: 60 LKAEAK 65
>gnl|CDD|223775 COG0703, AroK, Shikimate kinase [Amino acid transport and
metabolism].
Length = 172
Score = 38.3 bits (90), Expect = 0.007
Identities = 16/31 (51%), Positives = 19/31 (61%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLSNAPFI 247
NI++IG G GK+ I R LAK N PFI
Sbjct: 1 RNMNIVLIGFMGAGKSTIGRALAKALNLPFI 31
Score = 38.3 bits (90), Expect = 0.007
Identities = 16/31 (51%), Positives = 19/31 (61%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLSNAPFI 845
NI++IG G GK+ I R LAK N PFI
Sbjct: 1 RNMNIVLIGFMGAGKSTIGRALAKALNLPFI 31
>gnl|CDD|224142 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 39.7 bits (93), Expect = 0.008
Identities = 31/109 (28%), Positives = 47/109 (43%), Gaps = 24/109 (22%)
Query: 147 IFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQ 206
IF S A ++ E TEL + + +E + +L IG++ + + + R+
Sbjct: 46 IFLPSEAFSMSELTELQALLPQARPYLKSEALDDL----IGESPSLQEL---------RE 92
Query: 207 QIT--GPLQQEITPKNILMIGPTGVGKTEIARRLAKLS----NAPFIKI 249
QI P +L+IG TG GK AR + LS APFI
Sbjct: 93 QIKAYAPSG-----LPVLIIGETGTGKELFARLIHALSARRAEAPFIAF 136
Score = 39.7 bits (93), Expect = 0.008
Identities = 31/109 (28%), Positives = 47/109 (43%), Gaps = 24/109 (22%)
Query: 745 IFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQ 804
IF S A ++ E TEL + + +E + +L IG++ + + + R+
Sbjct: 46 IFLPSEAFSMSELTELQALLPQARPYLKSEALDDL----IGESPSLQEL---------RE 92
Query: 805 QIT--GPLQQEITPKNILMIGPTGVGKTEIARRLAKLS----NAPFIKI 847
QI P +L+IG TG GK AR + LS APFI
Sbjct: 93 QIKAYAPSG-----LPVLIIGETGTGKELFARLIHALSARRAEAPFIAF 136
>gnl|CDD|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type.
Members of this family are the beta subunit of the 20S
proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In
Streptomyces, maturation during proteasome assembly was
shown to remove a 53-amino acid propeptide. Most of the
length of the propeptide is not included in this model
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 219
Score = 38.9 bits (91), Expect = 0.008
Identities = 45/162 (27%), Positives = 68/162 (41%), Gaps = 38/162 (23%)
Query: 20 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLY--QNQVLAGIAGSTADAFTLL 77
GTTI+++ V + GD + T GN+I +++ V K+Y GIAG+ A L+
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQGNMI---ASRDVEKVYPTDEYSAVGIAGTAGLAIELV 58
Query: 78 DFFEANL---EKHQGNLMRASVELAKEWRNDRTLRRLEAML---LTANRETTLII----- 126
F+ L EK +G + D RL AM+ L A + ++
Sbjct: 59 RLFQVELEHYEKIEGVPLTL----------DGKANRLAAMVRGNLPAAMQGLAVVPLLAG 108
Query: 127 ----TGNGDVLE--------PENGIGAIGSGGIFAQSAAKAL 156
G G + E G A+GSG +FA+ A K L
Sbjct: 109 YDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKL 150
Score = 38.9 bits (91), Expect = 0.008
Identities = 45/162 (27%), Positives = 68/162 (41%), Gaps = 38/162 (23%)
Query: 618 GTTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLY--QNQVLAGIAGSTADAFTLL 675
GTTI+++ V + GD + T GN+I +++ V K+Y GIAG+ A L+
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQGNMI---ASRDVEKVYPTDEYSAVGIAGTAGLAIELV 58
Query: 676 DFFEANL---EKHQGNLMRASVELAKEWRNDRTLRRLEAML---LTANRETTLII----- 724
F+ L EK +G + D RL AM+ L A + ++
Sbjct: 59 RLFQVELEHYEKIEGVPLTL----------DGKANRLAAMVRGNLPAAMQGLAVVPLLAG 108
Query: 725 ----TGNGDVLE--------PENGIGAIGSGGIFAQSAAKAL 754
G G + E G A+GSG +FA+ A K L
Sbjct: 109 YDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKL 150
>gnl|CDD|214386 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 40.0 bits (94), Expect = 0.009
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTE 256
PK +L++GP G GKT +A+ +A + PF I ++F E
Sbjct: 216 PKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVE 254
Score = 40.0 bits (94), Expect = 0.009
Identities = 16/39 (41%), Positives = 25/39 (64%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTE 854
PK +L++GP G GKT +A+ +A + PF I ++F E
Sbjct: 216 PKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVE 254
>gnl|CDD|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 subunit.
The 20S proteasome, multisubunit proteolytic complex,
is the central enzyme of nonlysosomal protein
degradation in both the cytosol and nucleus. It is
composed of 28 subunits arranged as four homoheptameric
rings that stack on top of one another forming an
elongated alpha-beta-beta-alpha cylinder with a central
cavity. The proteasome alpha and beta subunits are
members of the N-terminal nucleophile (Ntn)-hydrolase
superfamily. Their N-terminal threonine residues are
exposed as a nucleophile in peptide bond hydrolysis.
Mammals have 7 alpha and 7 beta proteasome subunits
while archaea have one of each.
Length = 189
Score = 38.3 bits (90), Expect = 0.009
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TTI+ V + V LG D + T G ++ + +K+ + N G AG+ AD + +
Sbjct: 1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCG-AGTAADTEAVTNMI 59
Query: 81 EANLEKHQGNLMR 93
+NLE H+ N R
Sbjct: 60 SSNLELHRLNTGR 72
Score = 38.3 bits (90), Expect = 0.009
Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 1/73 (1%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TTI+ V + V LG D + T G ++ + +K+ + N G AG+ AD + +
Sbjct: 1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCG-AGTAADTEAVTNMI 59
Query: 679 EANLEKHQGNLMR 691
+NLE H+ N R
Sbjct: 60 SSNLELHRLNTGR 72
>gnl|CDD|237355 PRK13342, PRK13342, recombination factor protein RarA; Reviewed.
Length = 413
Score = 39.3 bits (93), Expect = 0.010
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 223 MI--GPTGVGKTEIARRLAKLSNAPFIKIEAT 252
MI GP G GKT +AR +A ++APF + A
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEALSAV 70
Score = 39.3 bits (93), Expect = 0.010
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 821 MI--GPTGVGKTEIARRLAKLSNAPFIKIEAT 850
MI GP G GKT +AR +A ++APF + A
Sbjct: 39 MILWGPPGTGKTTLARIIAGATDAPFEALSAV 70
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 39.0 bits (92), Expect = 0.014
Identities = 15/32 (46%), Positives = 23/32 (71%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 249
PK +L+ GP G GKT +A+ +A +NA FI++
Sbjct: 165 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRV 196
Score = 39.0 bits (92), Expect = 0.014
Identities = 15/32 (46%), Positives = 23/32 (71%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 847
PK +L+ GP G GKT +A+ +A +NA FI++
Sbjct: 165 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRV 196
>gnl|CDD|214396 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 39.5 bits (92), Expect = 0.014
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 211 PLQQEITP-KNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTE---VGYVGRDVDT 266
L+ ++P + IL+IG G G++ + + LA S PFI + KF + G++ D+D
Sbjct: 1622 SLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDI 1681
Query: 267 IIRDLIDIS 275
D ID S
Sbjct: 1682 DDSDDIDDS 1690
Score = 39.5 bits (92), Expect = 0.014
Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 809 PLQQEITP-KNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTE---VGYVGRDVDT 864
L+ ++P + IL+IG G G++ + + LA S PFI + KF + G++ D+D
Sbjct: 1622 SLRLALSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDI 1681
Query: 865 IIRDLIDIS 873
D ID S
Sbjct: 1682 DDSDDIDDS 1690
>gnl|CDD|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family. Many
proteins may score above the trusted cutoff because an
internal.
Length = 364
Score = 38.6 bits (90), Expect = 0.014
Identities = 15/37 (40%), Positives = 25/37 (67%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKF 254
PK +L+ GP G GKT +A+ +A +NA FI++ ++
Sbjct: 156 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSEL 192
Score = 38.6 bits (90), Expect = 0.014
Identities = 15/37 (40%), Positives = 25/37 (67%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKF 852
PK +L+ GP G GKT +A+ +A +NA FI++ ++
Sbjct: 156 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSEL 192
>gnl|CDD|238979 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits.
Length = 150
Score = 36.8 bits (86), Expect = 0.020
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFI 247
I+++G +G GK+ + + LA+ APFI
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFI 28
Score = 36.8 bits (86), Expect = 0.020
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFI 845
I+++G +G GK+ + + LA+ APFI
Sbjct: 2 IVVMGVSGSGKSTVGKALAERLGAPFI 28
>gnl|CDD|223540 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 38.3 bits (89), Expect = 0.024
Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 166 EIIKKSLVIAEIVSELDKY----VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNI 221
E +KK L ++ E + + G AK + A+ +R ++ L PK +
Sbjct: 221 EALKKVLPSRGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRP-PKGV 279
Query: 222 LMIGPTGVGKTEIARRLAKLSNAPFIKI 249
L+ GP G GKT +A+ +A S + FI +
Sbjct: 280 LLYGPPGTGKTLLAKAVALESRSRFISV 307
Score = 38.3 bits (89), Expect = 0.024
Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 764 EIIKKSLVIAEIVSELDKY----VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNI 819
E +KK L ++ E + + G AK + A+ +R ++ L PK +
Sbjct: 221 EALKKVLPSRGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRP-PKGV 279
Query: 820 LMIGPTGVGKTEIARRLAKLSNAPFIKI 847
L+ GP G GKT +A+ +A S + FI +
Sbjct: 280 LLYGPPGTGKTLLAKAVALESRSRFISV 307
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 38.0 bits (89), Expect = 0.026
Identities = 18/54 (33%), Positives = 35/54 (64%), Gaps = 2/54 (3%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDL 271
PK +L+ GP G GKT +A+ +A ++A FI++ ++ + Y+G + ++R+L
Sbjct: 185 PKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQ-KYIG-EGARLVREL 236
Score = 38.0 bits (89), Expect = 0.026
Identities = 18/54 (33%), Positives = 35/54 (64%), Gaps = 2/54 (3%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDL 869
PK +L+ GP G GKT +A+ +A ++A FI++ ++ + Y+G + ++R+L
Sbjct: 185 PKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQ-KYIG-EGARLVREL 236
>gnl|CDD|238893 cd01912, proteasome_beta, proteasome beta subunit. The 20S
proteasome, multisubunit proteolytic complex, is the
central enzyme of nonlysosomal protein degradation in
both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 189
Score = 36.7 bits (86), Expect = 0.029
Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TTI+ ++ + V L D + + G+++ + K+ K+ + +L G AGS AD L
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKI-SDNILLGTAGSAADTQALTRLL 59
Query: 81 EANLEKHQ 88
+ NL ++
Sbjct: 60 KRNLRLYE 67
Score = 36.7 bits (86), Expect = 0.029
Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TTI+ ++ + V L D + + G+++ + K+ K+ + +L G AGS AD L
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKI-SDNILLGTAGSAADTQALTRLL 59
Query: 679 EANLEKHQ 686
+ NL ++
Sbjct: 60 KRNLRLYE 67
>gnl|CDD|223401 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 37.2 bits (87), Expect = 0.037
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 216 ITPKNILMIGPTGVGKTEIARRLAKLSNAPFI 247
PK I++ GPT GKT +A LAK I
Sbjct: 1 KKPKLIVIAGPTASGKTALAIALAKRLGGEII 32
Score = 37.2 bits (87), Expect = 0.037
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 814 ITPKNILMIGPTGVGKTEIARRLAKLSNAPFI 845
PK I++ GPT GKT +A LAK I
Sbjct: 1 KKPKLIVIAGPTASGKTALAIALAKRLGGEII 32
>gnl|CDD|236828 PRK11034, clpA, ATP-dependent Clp protease ATP-binding subunit;
Provisional.
Length = 758
Score = 37.9 bits (88), Expect = 0.037
Identities = 52/219 (23%), Positives = 81/219 (36%), Gaps = 81/219 (36%)
Query: 92 MRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGIGAIGSGGIFAQS 151
+RA+VELA ++ NDR L P+ I I G
Sbjct: 378 VRAAVELAVKYINDRHL--------------------------PDKAIDVIDEAG----- 406
Query: 152 AAKALQENTELMPDEIIKKSLVIAEI--------------VSELDK------------YV 185
LMP KK++ +A+I VS+ D+ V
Sbjct: 407 ------ARARLMPVSKRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLV 460
Query: 186 IGQNRAKRAVAIALRNRWRRQQITGPLQQEITP-KNILMIGPTGVGKTEIARRLAKLSNA 244
GQ++A A+ A++ L E P + L GPTGVGKTE+ +L+K
Sbjct: 461 FGQDKAIEALTEAIK------MSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI 514
Query: 245 PFIKIEATKFTE-----------VGYVGRDVDTIIRDLI 272
++ + +++ E GYVG D ++ D +
Sbjct: 515 ELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAV 553
Score = 37.9 bits (88), Expect = 0.037
Identities = 52/219 (23%), Positives = 81/219 (36%), Gaps = 81/219 (36%)
Query: 690 MRASVELAKEWRNDRTLRRLEAMLLTANRETTLIITGNGDVLEPENGIGAIGSGGIFAQS 749
+RA+VELA ++ NDR L P+ I I G
Sbjct: 378 VRAAVELAVKYINDRHL--------------------------PDKAIDVIDEAG----- 406
Query: 750 AAKALQENTELMPDEIIKKSLVIAEI--------------VSELDK------------YV 783
LMP KK++ +A+I VS+ D+ V
Sbjct: 407 ------ARARLMPVSKRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLV 460
Query: 784 IGQNRAKRAVAIALRNRWRRQQITGPLQQEITP-KNILMIGPTGVGKTEIARRLAKLSNA 842
GQ++A A+ A++ L E P + L GPTGVGKTE+ +L+K
Sbjct: 461 FGQDKAIEALTEAIK------MSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI 514
Query: 843 PFIKIEATKFTE-----------VGYVGRDVDTIIRDLI 870
++ + +++ E GYVG D ++ D +
Sbjct: 515 ELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAV 553
>gnl|CDD|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta
subunit. The 20S proteasome, multisubunit proteolytic
complex, is the central enzyme for non-lysosomal
protein degradation in both the cytosol and the
nucleus. It is composed of 28 subunits arranged as four
homoheptameric rings that stack on top of one another
forming an elongated alpha-beta-beta-alpha cylinder
with a central cavity. The proteasome alpha and beta
subunits are both members of the N-terminal nucleophile
(Ntn)-hydrolase superfamily. Their N-terminal threonine
residues are exposed as a nucleophile in peptide bond
hydrolysis. Mammals have 7 alpha and 7 beta proteasome
subunits while archaea have one of each.
Length = 188
Score = 36.1 bits (84), Expect = 0.050
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TT + + + V L D + + GN I + KK+ ++ +++ IAGS DA +L+
Sbjct: 1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQI-DDKIAMTIAGSVGDAQSLVRIL 59
Query: 81 EANLE 85
+A
Sbjct: 60 KAEAR 64
Score = 36.1 bits (84), Expect = 0.050
Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TT + + + V L D + + GN I + KK+ ++ +++ IAGS DA +L+
Sbjct: 1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQI-DDKIAMTIAGSVGDAQSLVRIL 59
Query: 679 EANLE 683
+A
Sbjct: 60 KAEAR 64
>gnl|CDD|184411 PRK13946, PRK13946, shikimate kinase; Provisional.
Length = 184
Score = 35.7 bits (83), Expect = 0.059
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLSNAPFI 247
+ ++++G G GK+ + RRLA + PF+
Sbjct: 11 RTVVLVGLMGAGKSTVGRRLATMLGLPFL 39
Score = 35.7 bits (83), Expect = 0.059
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLSNAPFI 845
+ ++++G G GK+ + RRLA + PF+
Sbjct: 11 RTVVLVGLMGAGKSTVGRRLATMLGLPFL 39
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 36.8 bits (85), Expect = 0.067
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 10/82 (12%)
Query: 168 IKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPT 227
+KK L A+ + + D Y G R K + L + R +I GP+ + ++GP
Sbjct: 309 VKKDLRQAQEILDTDHY--GLERVKDRILEYLAVQSRVNKIKGPI--------LCLVGPP 358
Query: 228 GVGKTEIARRLAKLSNAPFIKI 249
GVGKT + + +AK + ++++
Sbjct: 359 GVGKTSLGQSIAKATGRKYVRM 380
Score = 36.8 bits (85), Expect = 0.067
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 10/82 (12%)
Query: 766 IKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPT 825
+KK L A+ + + D Y G R K + L + R +I GP+ + ++GP
Sbjct: 309 VKKDLRQAQEILDTDHY--GLERVKDRILEYLAVQSRVNKIKGPI--------LCLVGPP 358
Query: 826 GVGKTEIARRLAKLSNAPFIKI 847
GVGKT + + +AK + ++++
Sbjct: 359 GVGKTSLGQSIAKATGRKYVRM 380
>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 154
Score = 34.9 bits (80), Expect = 0.094
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 5/89 (5%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISI 276
P ++L+ GP+G GKT + R L + K + + + + ++R L+
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYAFSQALRELLRQLLR--- 79
Query: 277 KQTREFEINKVRTRAEDAAEDRVIDILVP 305
E+ +R A +I+ L
Sbjct: 80 --ELAAELLLLREALLAALGAELIEGLQD 106
Score = 34.9 bits (80), Expect = 0.094
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 5/89 (5%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISI 874
P ++L+ GP+G GKT + R L + K + + + + ++R L+
Sbjct: 23 GPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERNPPYAFSQALRELLRQLLR--- 79
Query: 875 KQTREFEINKVRTRAEDAAEDRVIDILVP 903
E+ +R A +I+ L
Sbjct: 80 --ELAAELLLLREALLAALGAELIEGLQD 106
>gnl|CDD|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like
protein; Provisional.
Length = 398
Score = 36.3 bits (84), Expect = 0.100
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 7/53 (13%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVG------RDV 264
P+ +L+ GP G GKT +A+ +A + A FI++ ++F + Y+G RDV
Sbjct: 179 PRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ-KYLGEGPRMVRDV 230
Score = 36.3 bits (84), Expect = 0.100
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 7/53 (13%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVG------RDV 862
P+ +L+ GP G GKT +A+ +A + A FI++ ++F + Y+G RDV
Sbjct: 179 PRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ-KYLGEGPRMVRDV 230
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 34.2 bits (79), Expect = 0.11
Identities = 22/89 (24%), Positives = 36/89 (40%), Gaps = 8/89 (8%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAK-LSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIS 275
++ G +G GKT + RRLA+ L N + +EA + R I+R L
Sbjct: 3 GAGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRK---ILRALGLPL 59
Query: 276 IKQTREFEINKVRTRAEDAAEDRVIDILV 304
T ++ DA + R +L+
Sbjct: 60 SGGTTA----ELLEAILDALKRRGRPLLI 84
Score = 34.2 bits (79), Expect = 0.11
Identities = 22/89 (24%), Positives = 36/89 (40%), Gaps = 8/89 (8%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAK-LSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIS 873
++ G +G GKT + RRLA+ L N + +EA + R I+R L
Sbjct: 3 GAGIGVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRK---ILRALGLPL 59
Query: 874 IKQTREFEINKVRTRAEDAAEDRVIDILV 902
T ++ DA + R +L+
Sbjct: 60 SGGTTA----ELLEAILDALKRRGRPLLI 84
>gnl|CDD|233328 TIGR01243, CDC48, AAA family ATPase, CDC48 subfamily. This
subfamily of the AAA family ATPases includes two members
each from three archaeal species. It also includes yeast
CDC48 (cell division control protein 48) and the human
ortholog, transitional endoplasmic reticulum ATPase
(valosin-containing protein). These proteins in
eukaryotes are involved in the budding and transfer of
membrane from the transitional endoplasmic reticulum to
the Golgi apparatus.
Length = 733
Score = 36.0 bits (83), Expect = 0.15
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 249
PK +L+ GP G GKT +A+ +A + A FI I
Sbjct: 212 PKGVLLYGPPGTGKTLLAKAVANEAGAYFISI 243
Score = 36.0 bits (83), Expect = 0.15
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 847
PK +L+ GP G GKT +A+ +A + A FI I
Sbjct: 212 PKGVLLYGPPGTGKTLLAKAVANEAGAYFISI 243
Score = 33.7 bits (77), Expect = 0.77
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 249
PK +L+ GP G GKT +A+ +A S A FI +
Sbjct: 487 PKGVLLFGPPGTGKTLLAKAVATESGANFIAV 518
Score = 33.7 bits (77), Expect = 0.77
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 847
PK +L+ GP G GKT +A+ +A S A FI +
Sbjct: 487 PKGVLLFGPPGTGKTLLAKAVATESGANFIAV 518
>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
subunit McrB; Provisional.
Length = 459
Score = 35.4 bits (81), Expect = 0.16
Identities = 17/30 (56%), Positives = 22/30 (73%)
Query: 212 LQQEITPKNILMIGPTGVGKTEIARRLAKL 241
L++ KNI++ GP GVGKT +ARRLA L
Sbjct: 188 LKRLTIKKNIILQGPPGVGKTFVARRLAYL 217
Score = 35.4 bits (81), Expect = 0.16
Identities = 17/30 (56%), Positives = 22/30 (73%)
Query: 810 LQQEITPKNILMIGPTGVGKTEIARRLAKL 839
L++ KNI++ GP GVGKT +ARRLA L
Sbjct: 188 LKRLTIKKNIILQGPPGVGKTFVARRLAYL 217
>gnl|CDD|235570 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 424
Score = 35.3 bits (82), Expect = 0.18
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 14/80 (17%)
Query: 163 MPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNIL 222
+ EI +K + +++ E + A R + L N I ++ + ++
Sbjct: 175 LSPEIAEK---LLKLLLE--HMPPRERTAWRYLLELLAN-----MIPVRVEDILKQGGVV 224
Query: 223 M-IGPTGVGKTEIARRLAKL 241
+GPTGVGKT LAKL
Sbjct: 225 ALVGPTGVGKTTT---LAKL 241
Score = 35.3 bits (82), Expect = 0.18
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 14/80 (17%)
Query: 761 MPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNIL 820
+ EI +K + +++ E + A R + L N I ++ + ++
Sbjct: 175 LSPEIAEK---LLKLLLE--HMPPRERTAWRYLLELLAN-----MIPVRVEDILKQGGVV 224
Query: 821 M-IGPTGVGKTEIARRLAKL 839
+GPTGVGKT LAKL
Sbjct: 225 ALVGPTGVGKTTT---LAKL 241
>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain. This entry
represents the GTPase domain of the 54 kDa SRP54
component, a GTP-binding protein that interacts with the
signal sequence when it emerges from the ribosome. SRP54
of the signal recognition particle has a three-domain
structure: an N-terminal helical bundle domain, a GTPase
domain, and the M-domain that binds the 7s RNA and also
binds the signal sequence. The extreme C-terminal region
is glycine-rich and lower in complexity and poorly
conserved between species. The GTPase domain is
evolutionary related to P-loop NTPase domains found in a
variety of other proteins.
Length = 197
Score = 34.3 bits (80), Expect = 0.23
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 218 PKNILMIGPTGVGKT----EIARRLAK 240
P IL++GP GVGKT ++A RL
Sbjct: 1 PGVILLVGPNGVGKTTTIAKLAARLKL 27
Score = 34.3 bits (80), Expect = 0.23
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 816 PKNILMIGPTGVGKT----EIARRLAK 838
P IL++GP GVGKT ++A RL
Sbjct: 1 PGVILLVGPNGVGKTTTIAKLAARLKL 27
>gnl|CDD|234053 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family.
Members of this protein family resemble the widely
distributed ATP-dependent protease La, also called Lon
and LonA. It resembles even more closely LonB, which is
a LonA paralog found in genomes if and only if the
species is capable of endospore formation (as in
Bacillus subtilis, Clostridium tetani, and select other
members of the Firmicutes) and expressed specifically in
the forespore compartment. Members of this family are
restricted to a subset of spore-forming species, and are
very likely to participate in the program of endospore
formation. We propose the designation LonC [Protein
fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 615
Score = 35.2 bits (81), Expect = 0.23
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 20/77 (25%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIAR----RLAK 240
++GQ RA +A+ ++ P P++I++ GP GVGKT AR K
Sbjct: 156 IVGQERAIKALL---------AKVASPF-----PQHIILYGPPGVGKTTAARLALEEAKK 201
Query: 241 LSNAPFIKIEATKFTEV 257
L + PF E F EV
Sbjct: 202 LKHTPF--AEDAPFVEV 216
Score = 35.2 bits (81), Expect = 0.23
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 20/77 (25%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIAR----RLAK 838
++GQ RA +A+ ++ P P++I++ GP GVGKT AR K
Sbjct: 156 IVGQERAIKALL---------AKVASPF-----PQHIILYGPPGVGKTTAARLALEEAKK 201
Query: 839 LSNAPFIKIEATKFTEV 855
L + PF E F EV
Sbjct: 202 LKHTPF--AEDAPFVEV 216
>gnl|CDD|233119 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 [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 775
Score = 35.3 bits (82), Expect = 0.24
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 181 LDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAK 240
LD+ G + K + L + R ++ GP+ + ++GP GVGKT + + +AK
Sbjct: 318 LDEDHYGLKKVKERILEYLAVQKLRGKMKGPI--------LCLVGPPGVGKTSLGKSIAK 369
Query: 241 LSNAPFIKI 249
N F++
Sbjct: 370 ALNRKFVRF 378
Score = 35.3 bits (82), Expect = 0.24
Identities = 19/69 (27%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 779 LDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAK 838
LD+ G + K + L + R ++ GP+ + ++GP GVGKT + + +AK
Sbjct: 318 LDEDHYGLKKVKERILEYLAVQKLRGKMKGPI--------LCLVGPPGVGKTSLGKSIAK 369
Query: 839 LSNAPFIKI 847
N F++
Sbjct: 370 ALNRKFVRF 378
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 34.6 bits (80), Expect = 0.25
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 173 VIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKT 232
+ E++ +L + + + A R + AL + P+ + I ++GPTGVGKT
Sbjct: 153 LARELLEKLPEDLDAE-DAWRWLREALEGMLPVKPEEDPILER--GGVIALVGPTGVGKT 209
Query: 233 EIARRLAKL 241
LAKL
Sbjct: 210 TT---LAKL 215
Score = 34.6 bits (80), Expect = 0.25
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 6/69 (8%)
Query: 771 VIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKT 830
+ E++ +L + + + A R + AL + P+ + I ++GPTGVGKT
Sbjct: 153 LARELLEKLPEDLDAE-DAWRWLREALEGMLPVKPEEDPILER--GGVIALVGPTGVGKT 209
Query: 831 EIARRLAKL 839
LAKL
Sbjct: 210 TT---LAKL 215
>gnl|CDD|184412 PRK13947, PRK13947, shikimate kinase; Provisional.
Length = 171
Score = 33.5 bits (77), Expect = 0.27
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 16/77 (20%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 278
KNI++IG G GKT + +R+A + FI D D I + +++ +
Sbjct: 2 KNIVLIGFMGTGKTTVGKRVATTLSFGFI---------------DTDKEIEKMTGMTVAE 46
Query: 279 TREFEINKVRTRAEDAA 295
E + +VR R+E+
Sbjct: 47 IFE-KDGEVRFRSEEKL 62
Score = 33.5 bits (77), Expect = 0.27
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 16/77 (20%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 876
KNI++IG G GKT + +R+A + FI D D I + +++ +
Sbjct: 2 KNIVLIGFMGTGKTTVGKRVATTLSFGFI---------------DTDKEIEKMTGMTVAE 46
Query: 877 TREFEINKVRTRAEDAA 893
E + +VR R+E+
Sbjct: 47 IFE-KDGEVRFRSEEKL 62
>gnl|CDD|222036 pfam13304, AAA_21, AAA domain.
Length = 256
Score = 34.3 bits (78), Expect = 0.31
Identities = 29/218 (13%), Positives = 76/218 (34%), Gaps = 10/218 (4%)
Query: 222 LMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTRE 281
++IGP G GK+ + + LA L + + + VG ++ + E
Sbjct: 3 VIIGPNGSGKSNLLKALALLLLLLSLGLTLDRGLNVGIKLLPFLLDENEIEIPLEFEIEE 62
Query: 282 FEINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNK 341
F I+ +R R + I + + + + F E + S + K+ L
Sbjct: 63 FLIDGIRYRYGFELDKEDILEELLYEYRKGEELLFERERSKESFEKSPEKKRELRGLREV 122
Query: 342 EIEIELNDTGPHMEIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEAN 401
+ + L+ + + + + + ++ + + + + + + L D
Sbjct: 123 LLLLNLSLSSFLLLASLEILLSILLPFSFILGNLRNLRNIELKLLDLVKRLFLESDLLRL 182
Query: 402 KLLNEDEI---QQK-------AINNVEQNGIIFLDEID 429
L I ++ ++ + + ++ +DE +
Sbjct: 183 LKLLIKGISDGTKRLLALLLALLSALPKGSLLLIDEPE 220
Score = 34.3 bits (78), Expect = 0.31
Identities = 29/218 (13%), Positives = 76/218 (34%), Gaps = 10/218 (4%)
Query: 820 LMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTRE 879
++IGP G GK+ + + LA L + + + VG ++ + E
Sbjct: 3 VIIGPNGSGKSNLLKALALLLLLLSLGLTLDRGLNVGIKLLPFLLDENEIEIPLEFEIEE 62
Query: 880 FEINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNK 939
F I+ +R R + I + + + + F E + S + K+ L
Sbjct: 63 FLIDGIRYRYGFELDKEDILEELLYEYRKGEELLFERERSKESFEKSPEKKRELRGLREV 122
Query: 940 EIEIELNDTGPHMEIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEAN 999
+ + L+ + + + + + ++ + + + + + + L D
Sbjct: 123 LLLLNLSLSSFLLLASLEILLSILLPFSFILGNLRNLRNIELKLLDLVKRLFLESDLLRL 182
Query: 1000 KLLNEDEI---QQK-------AINNVEQNGIIFLDEID 1027
L I ++ ++ + + ++ +DE +
Sbjct: 183 LKLLIKGISDGTKRLLALLLALLSALPKGSLLLIDEPE 220
>gnl|CDD|234172 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
Members of this protein family are homologs of ClpB, an
ATPase associated with chaperone-related functions.
These ClpB homologs, designated ClpV1, are a key
component of the bacterial pathogenicity-associated type
VI secretion system [Protein fate, Protein and peptide
secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 852
Score = 34.5 bits (80), Expect = 0.36
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 11/81 (13%)
Query: 162 LMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNI 221
++ DEI + + L + VIGQ+ A A+A +R R + P + P +
Sbjct: 549 MVRDEIEA----VLSLPDRLAERVIGQDHALEAIAERIRTA--RAGLEDPRK----PLGV 598
Query: 222 -LMIGPTGVGKTEIARRLAKL 241
L++GP+GVGKTE A LA+L
Sbjct: 599 FLLVGPSGVGKTETALALAEL 619
Score = 34.5 bits (80), Expect = 0.36
Identities = 28/81 (34%), Positives = 43/81 (53%), Gaps = 11/81 (13%)
Query: 760 LMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNI 819
++ DEI + + L + VIGQ+ A A+A +R R + P + P +
Sbjct: 549 MVRDEIEA----VLSLPDRLAERVIGQDHALEAIAERIRTA--RAGLEDPRK----PLGV 598
Query: 820 -LMIGPTGVGKTEIARRLAKL 839
L++GP+GVGKTE A LA+L
Sbjct: 599 FLLVGPSGVGKTETALALAEL 619
>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular
activities (AAA). This Pfam entry includes some of the
AAA proteins not detected by the pfam00004 model.
Length = 131
Score = 32.5 bits (75), Expect = 0.38
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 13/68 (19%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISI--KQ 278
+L+ G G+ KT +AR LA+ F +I+ FT D + D+ + ++
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRIQ---FTP--------DLLPSDITGTEVYDQK 50
Query: 279 TREFEINK 286
TREFE
Sbjct: 51 TREFEFRP 58
Score = 32.5 bits (75), Expect = 0.38
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 13/68 (19%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISI--KQ 876
+L+ G G+ KT +AR LA+ F +I+ FT D + D+ + ++
Sbjct: 2 VLLEGVPGLAKTLLARTLARSLGLDFRRIQ---FTP--------DLLPSDITGTEVYDQK 50
Query: 877 TREFEINK 884
TREFE
Sbjct: 51 TREFEFRP 58
>gnl|CDD|234626 PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase;
Reviewed.
Length = 307
Score = 34.0 bits (79), Expect = 0.44
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 218 PKNILMIGPTGVGKTEIARRLAK 240
PK I+++GPT GKT +A LAK
Sbjct: 4 PKVIVIVGPTASGKTALAIELAK 26
Score = 34.0 bits (79), Expect = 0.44
Identities = 13/23 (56%), Positives = 17/23 (73%)
Query: 816 PKNILMIGPTGVGKTEIARRLAK 838
PK I+++GPT GKT +A LAK
Sbjct: 4 PKVIVIVGPTASGKTALAIELAK 26
>gnl|CDD|235335 PRK05057, aroK, shikimate kinase I; Reviewed.
Length = 172
Score = 33.1 bits (76), Expect = 0.47
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLSNAPFI 247
+NI ++GP G GK+ I R+LA+ N F
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
Score = 33.1 bits (76), Expect = 0.47
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLSNAPFI 845
+NI ++GP G GK+ I R+LA+ N F
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>gnl|CDD|223541 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 596
Score = 34.2 bits (79), Expect = 0.49
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGR 262
PK +L++GP G GKT +A+ +A + PF I + F E+ +VG
Sbjct: 183 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM-FVGV 226
Score = 34.2 bits (79), Expect = 0.49
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGR 860
PK +L++GP G GKT +A+ +A + PF I + F E+ +VG
Sbjct: 183 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEM-FVGV 226
>gnl|CDD|222000 pfam13238, AAA_18, AAA domain.
Length = 128
Score = 32.0 bits (73), Expect = 0.52
Identities = 14/72 (19%), Positives = 26/72 (36%), Gaps = 6/72 (8%)
Query: 221 ILMIGPTGVGKTEIARRLAKL------SNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDI 274
IL+ G G GKT +A+ LA+ A + E+ + +D +
Sbjct: 1 ILITGTPGSGKTTLAKELAERLGDVLRDLAKENGLVLELDEEITDESKRLDEDKLAKLLD 60
Query: 275 SIKQTREFEINK 286
+++ E
Sbjct: 61 KLEKIIEELAEG 72
Score = 32.0 bits (73), Expect = 0.52
Identities = 14/72 (19%), Positives = 26/72 (36%), Gaps = 6/72 (8%)
Query: 819 ILMIGPTGVGKTEIARRLAKL------SNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDI 872
IL+ G G GKT +A+ LA+ A + E+ + +D +
Sbjct: 1 ILITGTPGSGKTTLAKELAERLGDVLRDLAKENGLVLELDEEITDESKRLDEDKLAKLLD 60
Query: 873 SIKQTREFEINK 884
+++ E
Sbjct: 61 KLEKIIEELAEG 72
>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 34.1 bits (79), Expect = 0.56
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 204 RRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 249
+++ GP+ + ++GP GVGKT + + +AK F++I
Sbjct: 344 LTKKLKGPI--------LCLVGPPGVGKTSLGKSIAKALGRKFVRI 381
Score = 34.1 bits (79), Expect = 0.56
Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 802 RRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 847
+++ GP+ + ++GP GVGKT + + +AK F++I
Sbjct: 344 LTKKLKGPI--------LCLVGPPGVGKTSLGKSIAKALGRKFVRI 381
>gnl|CDD|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 188
Score = 33.0 bits (76), Expect = 0.58
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 6/86 (6%)
Query: 21 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 80
TTI++V V LG D + + G+ + K+ +L+ +GS AD + D+
Sbjct: 1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCC-RSGSAADTQAIADYV 59
Query: 81 EANLEKH-----QGNLMRASVELAKE 101
L+ H + L++ + L K
Sbjct: 60 RYYLDMHSIELGEPPLVKTAASLFKN 85
Score = 33.0 bits (76), Expect = 0.58
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 6/86 (6%)
Query: 619 TTILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFF 678
TTI++V V LG D + + G+ + K+ +L+ +GS AD + D+
Sbjct: 1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCC-RSGSAADTQAIADYV 59
Query: 679 EANLEKH-----QGNLMRASVELAKE 699
L+ H + L++ + L K
Sbjct: 60 RYYLDMHSIELGEPPLVKTAASLFKN 85
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 33.6 bits (78), Expect = 0.60
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 17/63 (26%)
Query: 180 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPK--NILMIGPTGVGKTEIARR 237
E +IGQ RA A+ L I NI ++G G G+T + RR
Sbjct: 5 EPLDGIIGQERAVEALEFGL---------------GIRHPGYNIFVLGEPGTGRTTLVRR 49
Query: 238 LAK 240
+
Sbjct: 50 YLE 52
Score = 33.6 bits (78), Expect = 0.60
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 17/63 (26%)
Query: 778 ELDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPK--NILMIGPTGVGKTEIARR 835
E +IGQ RA A+ L I NI ++G G G+T + RR
Sbjct: 5 EPLDGIIGQERAVEALEFGL---------------GIRHPGYNIFVLGEPGTGRTTLVRR 49
Query: 836 LAK 838
+
Sbjct: 50 YLE 52
>gnl|CDD|223637 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 32.6 bits (75), Expect = 0.68
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 219 KNILMIGPTGVGKTEIARRLAK 240
IL++GP G GK+ +A++LAK
Sbjct: 1 MRILILGPPGAGKSTLAKKLAK 22
Score = 32.6 bits (75), Expect = 0.68
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 817 KNILMIGPTGVGKTEIARRLAK 838
IL++GP G GK+ +A++LAK
Sbjct: 1 MRILILGPPGAGKSTLAKKLAK 22
>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown
domain fusion protein; Reviewed.
Length = 725
Score = 33.5 bits (77), Expect = 0.80
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 220 NILMIGPTGVGKTEIARRLAKLSNAPFIKIEAT 252
++++ GP GVGKT +AR +A + A F + A
Sbjct: 54 SLILYGPPGVGKTTLARIIANHTRAHFSSLNAV 86
Score = 33.5 bits (77), Expect = 0.80
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 818 NILMIGPTGVGKTEIARRLAKLSNAPFIKIEAT 850
++++ GP GVGKT +AR +A + A F + A
Sbjct: 54 SLILYGPPGVGKTTLARIIANHTRAHFSSLNAV 86
>gnl|CDD|182120 PRK09862, PRK09862, putative ATP-dependent protease; Provisional.
Length = 506
Score = 33.4 bits (76), Expect = 0.84
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 22/60 (36%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITP---KNILMIGPTGVGKTEIARRLAKL 241
VIGQ + KR + EIT N+L+IGP G GKT +A R+ L
Sbjct: 193 VIGQEQGKRGL-------------------EITAAGGHNLLLIGPPGTGKTMLASRINGL 233
Score = 33.4 bits (76), Expect = 0.84
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 22/60 (36%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITP---KNILMIGPTGVGKTEIARRLAKL 839
VIGQ + KR + EIT N+L+IGP G GKT +A R+ L
Sbjct: 193 VIGQEQGKRGL-------------------EITAAGGHNLLLIGPPGTGKTMLASRINGL 233
>gnl|CDD|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 33.1 bits (76), Expect = 0.87
Identities = 27/106 (25%), Positives = 51/106 (48%), Gaps = 24/106 (22%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL--S 242
++GQ A+ A + ++ ++ ++ G + IL++GP G GKT +A +A+
Sbjct: 41 LVGQEEAREAAGVIVK-MIKQGKMAG--------RGILIVGPPGTGKTALAMGIARELGE 91
Query: 243 NAPFIKIEATKF-------TEVGYVGRDVDTIIRDLIDISIKQTRE 281
+ PF+ I ++ TE + +R I + IK+TRE
Sbjct: 92 DVPFVAISGSEIYSLEVKKTEA------LTQALRRAIGVRIKETRE 131
Score = 33.1 bits (76), Expect = 0.87
Identities = 27/106 (25%), Positives = 51/106 (48%), Gaps = 24/106 (22%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL--S 840
++GQ A+ A + ++ ++ ++ G + IL++GP G GKT +A +A+
Sbjct: 41 LVGQEEAREAAGVIVK-MIKQGKMAG--------RGILIVGPPGTGKTALAMGIARELGE 91
Query: 841 NAPFIKIEATKF-------TEVGYVGRDVDTIIRDLIDISIKQTRE 879
+ PF+ I ++ TE + +R I + IK+TRE
Sbjct: 92 DVPFVAISGSEIYSLEVKKTEA------LTQALRRAIGVRIKETRE 131
>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 484
Score = 33.0 bits (75), Expect = 0.93
Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
Query: 210 GPLQQEITPKNI----LMIGPTGVGKTEIARRLAKLSN 243
G LQ + I + GP GVGKT IAR LAK N
Sbjct: 28 GALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN 65
Score = 33.0 bits (75), Expect = 0.93
Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 4/38 (10%)
Query: 808 GPLQQEITPKNI----LMIGPTGVGKTEIARRLAKLSN 841
G LQ + I + GP GVGKT IAR LAK N
Sbjct: 28 GALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN 65
>gnl|CDD|225114 COG2204, AtoC, Response regulator containing CheY-like receiver,
AAA-type ATPase, and DNA-binding domains [Signal
transduction mechanisms].
Length = 464
Score = 33.1 bits (76), Expect = 1.1
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 249
+ ++L+ G +G GK +AR + + S PFI +
Sbjct: 163 SDASVLITGESGTGKELVARAIHQASPRAKGPFIAV 198
Score = 33.1 bits (76), Expect = 1.1
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 847
+ ++L+ G +G GK +AR + + S PFI +
Sbjct: 163 SDASVLITGESGTGKELVARAIHQASPRAKGPFIAV 198
>gnl|CDD|238899 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the phosphorylation
state of the phosphocarrier protein HPr and regulates
the utilization of carbon sources by gram-positive
bacteria. It catalyzes both the ATP-dependent
phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter reaction
uses inorganic phosphate as substrate and produces
pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK)
and the C-terminal catalytic domain of HprK/P are
structurally similar with conserved active site residues
suggesting these two phosphotransferases have related
functions. The HprK/P N-terminal domain is structurally
similar to the N-terminal domains of the MurE and MurF
amino acid ligases.
Length = 149
Score = 31.4 bits (72), Expect = 1.1
Identities = 30/99 (30%), Positives = 46/99 (46%), Gaps = 12/99 (12%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVG--YVGRDVDTIIRDLIDIS--- 275
+L+ GP+G+GK+E+A L K + + G VGR + ++ LI+I
Sbjct: 17 VLITGPSGIGKSELALELIK-RGHRLVADDRVVVKREGGRLVGRAPE-ALKGLIEIRGLG 74
Query: 276 -IKQTREFEINKVRTRAEDAAEDRVIDILVPSKEKSNLD 313
I R + I VR R D VI+ L +E+ N D
Sbjct: 75 IIDVPRLYGIEAVRDRKVI---DLVIE-LEEWEEEKNFD 109
Score = 31.4 bits (72), Expect = 1.1
Identities = 30/99 (30%), Positives = 46/99 (46%), Gaps = 12/99 (12%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVG--YVGRDVDTIIRDLIDIS--- 873
+L+ GP+G+GK+E+A L K + + G VGR + ++ LI+I
Sbjct: 17 VLITGPSGIGKSELALELIK-RGHRLVADDRVVVKREGGRLVGRAPE-ALKGLIEIRGLG 74
Query: 874 -IKQTREFEINKVRTRAEDAAEDRVIDILVPSKEKSNLD 911
I R + I VR R D VI+ L +E+ N D
Sbjct: 75 IIDVPRLYGIEAVRDRKVI---DLVIE-LEEWEEEKNFD 109
>gnl|CDD|237040 PRK12289, PRK12289, GTPase RsgA; Reviewed.
Length = 352
Score = 32.3 bits (74), Expect = 1.7
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 193 RAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRL 238
+ + I++ + + L+ +IT ++ GP+GVGK+ + RL
Sbjct: 151 QPLFISVETGIGLEALLEQLRNKIT----VVAGPSGVGKSSLINRL 192
Score = 32.3 bits (74), Expect = 1.7
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 791 RAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRL 836
+ + I++ + + L+ +IT ++ GP+GVGK+ + RL
Sbjct: 151 QPLFISVETGIGLEALLEQLRNKIT----VVAGPSGVGKSSLINRL 192
>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
Length = 259
Score = 32.0 bits (73), Expect = 1.7
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 220 NILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFT 255
NI+++GP+GVGKT +A L + IK +FT
Sbjct: 104 NIVLLGPSGVGKTHLAIALGYEAVRAGIK---VRFT 136
Score = 32.0 bits (73), Expect = 1.7
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 818 NILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFT 853
NI+++GP+GVGKT +A L + IK +FT
Sbjct: 104 NIVLLGPSGVGKTHLAIALGYEAVRAGIK---VRFT 136
>gnl|CDD|236936 PRK11608, pspF, phage shock protein operon transcriptional
activator; Provisional.
Length = 326
Score = 31.9 bits (73), Expect = 1.7
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLSN---APFIKI 249
K +L+IG G GK IA RL LS+ PFI +
Sbjct: 30 KPVLIIGERGTGKELIASRLHYLSSRWQGPFISL 63
Score = 31.9 bits (73), Expect = 1.7
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLSN---APFIKI 847
K +L+IG G GK IA RL LS+ PFI +
Sbjct: 30 KPVLIIGERGTGKELIASRLHYLSSRWQGPFISL 63
>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 388
Score = 32.2 bits (73), Expect = 1.8
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 209 TGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 241
+G + + + +++GPTGVGKT +LA +
Sbjct: 165 SGSIIDNLKKRVFILVGPTGVGKTTTIAKLAAI 197
Score = 32.2 bits (73), Expect = 1.8
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 807 TGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 839
+G + + + +++GPTGVGKT +LA +
Sbjct: 165 SGSIIDNLKKRVFILVGPTGVGKTTTIAKLAAI 197
>gnl|CDD|222307 pfam13671, AAA_33, AAA domain. This family of domains contain only
a P-loop motif, that is characteristic of the AAA
superfamily. Many of the proteins in this family are
just short fragments so there is no Walker B motif.
Length = 143
Score = 30.7 bits (70), Expect = 1.8
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFI 247
ILM+G G GK+ ARRL + A +
Sbjct: 2 ILMVGLPGSGKSTFARRLLRELGAVVL 28
Score = 30.7 bits (70), Expect = 1.8
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFI 845
ILM+G G GK+ ARRL + A +
Sbjct: 2 ILMVGLPGSGKSTFARRLLRELGAVVL 28
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. All
proteins in this family for which functions are known
are 5'-3' DNA helicases that, as part of a complex with
RuvA homologs serve as a 5'-3' Holliday junction
helicase. RuvA specifically binds Holliday junctions as
a sandwich of two tetramers and maintains the
configuration of the junction. It forms a complex with
two hexameric rings of RuvB, the subunit that contains
helicase activity. The complex drives ATP-dependent
branch migration of the Holliday junction recombination
intermediate. The endonuclease RuvC resolves junctions
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 305
Score = 31.9 bits (73), Expect = 2.0
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 10/60 (16%)
Query: 181 LDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAK 240
L ++ IGQ + K + + + RQ+ ++L+ GP G+GKT +A +A
Sbjct: 3 LAEF-IGQEKVKEQLQLFIEAAKMRQE---------ALDHLLLYGPPGLGKTTLAHIIAN 52
Score = 31.9 bits (73), Expect = 2.0
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 10/60 (16%)
Query: 779 LDKYVIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAK 838
L ++ IGQ + K + + + RQ+ ++L+ GP G+GKT +A +A
Sbjct: 3 LAEF-IGQEKVKEQLQLFIEAAKMRQE---------ALDHLLLYGPPGLGKTTLAHIIAN 52
>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin. This family consists of several
bacterial zeta toxin proteins. Zeta toxin is thought to
be part of a postregulational killing system in
bacteria. It relies on antitoxin/toxin systems that
secure stable inheritance of low and medium copy number
plasmids during cell division and kill cells that have
lost the plasmid.
Length = 191
Score = 31.1 bits (71), Expect = 2.0
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 207 QITGPLQQEITPKNILMIGPTGVGKTEIARR-LAKLSNAPFIKIEATKF 254
+ QE P +L+ G G GKTE+AR L +L ++I+ +
Sbjct: 2 LFSDKPPQE-RPVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDEL 49
Score = 31.1 bits (71), Expect = 2.0
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 805 QITGPLQQEITPKNILMIGPTGVGKTEIARR-LAKLSNAPFIKIEATKF 852
+ QE P +L+ G G GKTE+AR L +L ++I+ +
Sbjct: 2 LFSDKPPQE-RPVAVLLGGQPGAGKTELARALLEELGGGNVVRIDPDEL 49
>gnl|CDD|110677 pfam01695, IstB_IS21, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 31.1 bits (71), Expect = 2.4
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 220 NILMIGPTGVGKTEIARRLA 239
N+L++GP GVGKT +A L
Sbjct: 49 NLLLLGPPGVGKTHLACALG 68
Score = 31.1 bits (71), Expect = 2.4
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 818 NILMIGPTGVGKTEIARRLA 837
N+L++GP GVGKT +A L
Sbjct: 49 NLLLLGPPGVGKTHLACALG 68
>gnl|CDD|233355 TIGR01313, therm_gnt_kin, carbohydrate kinase, thermoresistant
glucokinase family. This model represents a subfamily
of proteins that includes thermoresistant and
thermosensitve isozymes of gluconate kinase
(gluconokinase) in E. coli and other related proteins;
members of this family are often named by similarity to
the thermostable isozyme. These proteins show homology
to shikimate kinases and adenylate kinases but not to
gluconate kinases from the FGGY family of carbohydrate
kinases.
Length = 163
Score = 30.8 bits (70), Expect = 2.6
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFI 247
+++G G GK+ IA LA A FI
Sbjct: 1 FVLMGVAGSGKSTIASALAHRLGAKFI 27
Score = 30.8 bits (70), Expect = 2.6
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFI 845
+++G G GK+ IA LA A FI
Sbjct: 1 FVLMGVAGSGKSTIASALAHRLGAKFI 27
>gnl|CDD|178754 PLN03215, PLN03215, ascorbic acid mannose pathway regulator 1;
Provisional.
Length = 373
Score = 31.5 bits (71), Expect = 2.7
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 13/93 (13%)
Query: 422 IIFLDEIDKITTRSSQNNNTDISRAG--VQRDLLPLVEGTTVNTKYGIIKTDHILFIASG 479
+I + I+ T + + + ISR G + R V ++ +K +IK+D + + SG
Sbjct: 53 LILFNPINPSETLTD--DRSYISRPGAFLSRAAFFRVTLSSSPSKGWLIKSD--MDVNSG 108
Query: 480 AFHLAKPSDLIPELQGRFPIRVELDSLSISDFT 512
FHL P R P+R +S+ + +FT
Sbjct: 109 RFHLLNP-------LSRLPLRHSSESVDLLEFT 134
Score = 31.5 bits (71), Expect = 2.7
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 13/93 (13%)
Query: 1020 IIFLDEIDKITTRSSQNNNTDISRAG--VQRDLLPLVEGTTVNTKYGIIKTDHILFIASG 1077
+I + I+ T + + + ISR G + R V ++ +K +IK+D + + SG
Sbjct: 53 LILFNPINPSETLTD--DRSYISRPGAFLSRAAFFRVTLSSSPSKGWLIKSD--MDVNSG 108
Query: 1078 AFHLAKPSDLIPELQGRFPIRVELDSLSISDFT 1110
FHL P R P+R +S+ + +FT
Sbjct: 109 RFHLLNP-------LSRLPLRHSSESVDLLEFT 134
>gnl|CDD|234063 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation
protein. Members of this protein family are found
exclusively in the archaea. This set of DNA binding
proteins shows homology to the origin recognition
complex subunit 1/cell division control protein 6 family
in eukaryotes. Several members may be found in genome
and interact with each other [DNA metabolism, DNA
replication, recombination, and repair].
Length = 365
Score = 31.5 bits (72), Expect = 2.7
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAK 240
P N+ + G TG GKT + + + K
Sbjct: 39 RPSNVFIYGKTGTGKTAVTKYVMK 62
Score = 31.5 bits (72), Expect = 2.7
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAK 838
P N+ + G TG GKT + + + K
Sbjct: 39 RPSNVFIYGKTGTGKTAVTKYVMK 62
>gnl|CDD|132613 TIGR03574, selen_PSTK, L-seryl-tRNA(Sec) kinase, archaeal. Members
of this protein are L-seryl-tRNA(Sec) kinase. This
enzyme is part of a two-step pathway in Eukaryota and
Archaea for performing selenocysteine biosynthesis by
changing serine misacylated on selenocysteine-tRNA to
selenocysteine. This enzyme performs the first step,
phosphorylation of the OH group of the serine side
chain. This family represents archaeal proteins with
this activity [Protein synthesis, tRNA aminoacylation].
Length = 249
Score = 31.3 bits (71), Expect = 2.8
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 270 DLIDISIKQTREFEINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENN-NISTRQI 328
DL D++I T++ + N++ E+ E + + +K TD N N + TRQI
Sbjct: 142 DLPDLTIDTTKKIDYNEI---LEEILEISENKLKIEKPKKPKRRTDENILNKIDKRTRQI 198
Query: 329 FRKRLREGALDNKEI 343
+ ++ G LD + I
Sbjct: 199 VGELIKTGKLDKELI 213
Score = 31.3 bits (71), Expect = 2.8
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 868 DLIDISIKQTREFEINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENN-NISTRQI 926
DL D++I T++ + N++ E+ E + + +K TD N N + TRQI
Sbjct: 142 DLPDLTIDTTKKIDYNEI---LEEILEISENKLKIEKPKKPKRRTDENILNKIDKRTRQI 198
Query: 927 FRKRLREGALDNKEI 941
+ ++ G LD + I
Sbjct: 199 VGELIKTGKLDKELI 213
>gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of
this protein are LonB, a paralog of the ATP-dependent
protease La (LonA, TIGR00763). LonB proteins are found
strictly, and almost universally, in endospore-forming
bacteria. This protease was shown, in Bacillus subtilis,
to be expressed specifically in the forespore, during
sporulation, under control of sigma(F). The lonB gene,
despite location immediately upstream of lonA, was shown
to be monocistronic. LonB appears able to act on
sigma(H) for post-translation control, but lonB mutation
did not produce an obvious sporulation defect under the
conditions tested. Note that additional paralogs of LonA
and LonB occur in the Clostridium lineage and this model
selects only one per species as the protein that
corresponds to LonB in B. subtilis [Protein fate,
Degradation of proteins, peptides, and glycopeptides,
Cellular processes, Sporulation and germination].
Length = 531
Score = 31.7 bits (72), Expect = 2.9
Identities = 28/86 (32%), Positives = 41/86 (47%), Gaps = 26/86 (30%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIAR---RLAKL 241
+IGQ +A+ AL GP P+++++ GP GVGKT AR AK
Sbjct: 67 IIGQEEGIKALKAAL---------CGP-----NPQHVIIYGPPGVGKTAAARLVLEEAKK 112
Query: 242 S-------NAPFIKIEAT--KFTEVG 258
+ A F++I+AT +F E G
Sbjct: 113 NPASPFKEGAAFVEIDATTARFDERG 138
Score = 31.7 bits (72), Expect = 2.9
Identities = 28/86 (32%), Positives = 41/86 (47%), Gaps = 26/86 (30%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIAR---RLAKL 839
+IGQ +A+ AL GP P+++++ GP GVGKT AR AK
Sbjct: 67 IIGQEEGIKALKAAL---------CGP-----NPQHVIIYGPPGVGKTAAARLVLEEAKK 112
Query: 840 S-------NAPFIKIEAT--KFTEVG 856
+ A F++I+AT +F E G
Sbjct: 113 NPASPFKEGAAFVEIDATTARFDERG 138
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 31.7 bits (72), Expect = 2.9
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 13/59 (22%)
Query: 198 ALRNRWRRQ---------QITGPLQQEITPKNI----LMIGPTGVGKTEIARRLAKLSN 243
L +WR Q + L+ I + L GP GVGKT AR LAK N
Sbjct: 5 VLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63
Score = 31.7 bits (72), Expect = 2.9
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 13/59 (22%)
Query: 796 ALRNRWRRQ---------QITGPLQQEITPKNI----LMIGPTGVGKTEIARRLAKLSN 841
L +WR Q + L+ I + L GP GVGKT AR LAK N
Sbjct: 5 VLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN 63
>gnl|CDD|216360 pfam01202, SKI, Shikimate kinase.
Length = 158
Score = 30.2 bits (69), Expect = 3.3
Identities = 16/51 (31%), Positives = 19/51 (37%), Gaps = 15/51 (29%)
Query: 228 GVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 278
G GK+ I R LAK PFI D D I +SI +
Sbjct: 2 GAGKSTIGRLLAKALGLPFI---------------DTDQEIEKRTGMSIAE 37
Score = 30.2 bits (69), Expect = 3.3
Identities = 16/51 (31%), Positives = 19/51 (37%), Gaps = 15/51 (29%)
Query: 826 GVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 876
G GK+ I R LAK PFI D D I +SI +
Sbjct: 2 GAGKSTIGRLLAKALGLPFI---------------DTDQEIEKRTGMSIAE 37
>gnl|CDD|240262 PTZ00088, PTZ00088, adenylate kinase 1; Provisional.
Length = 229
Score = 30.9 bits (70), Expect = 3.5
Identities = 25/85 (29%), Positives = 35/85 (41%), Gaps = 17/85 (20%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIK 277
P I++ G GVGK A L+K N I ++ I+R+ +I K
Sbjct: 6 PLKIVLFGAPGVGKGTFAEILSKKENLKHI---------------NMGNILRE--EIKAK 48
Query: 278 QTREFEINKVRTRAEDAAEDRVIDI 302
T EI KV T ++ VI I
Sbjct: 49 TTIGKEIQKVVTSGNLVPDNLVIAI 73
Score = 30.9 bits (70), Expect = 3.5
Identities = 25/85 (29%), Positives = 35/85 (41%), Gaps = 17/85 (20%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIK 875
P I++ G GVGK A L+K N I ++ I+R+ +I K
Sbjct: 6 PLKIVLFGAPGVGKGTFAEILSKKENLKHI---------------NMGNILRE--EIKAK 48
Query: 876 QTREFEINKVRTRAEDAAEDRVIDI 900
T EI KV T ++ VI I
Sbjct: 49 TTIGKEIQKVVTSGNLVPDNLVIAI 73
>gnl|CDD|239334 cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown
subfamily; uncharacterized proteins containing a CXXC
motif with similarity to thioredoxin (TRX)-fold arsenic
reductases, ArsC. Proteins containing a redox active
CXXC motif like TRX and glutaredoxin (GRX) function as
protein disulfide oxidoreductases, altering the redox
state of target proteins via the reversible oxidation of
the active site dithiol. ArsC catalyzes the reduction of
arsenate [As(V)] to arsenite [As(III)], using reducing
equivalents derived from glutathione via GRX, through a
single catalytic cysteine.
Length = 111
Score = 29.5 bits (67), Expect = 3.7
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 17/78 (21%)
Query: 338 LDNKEIEIELNDTGPHMEIMSPPGMEEMTAQIKTMFSVIGNHRKK--------TRKIKIR 389
LD ++ D + PP EE +K G KK R++ ++
Sbjct: 19 LDEHGVDYTAIDI-----VEEPPSKEE----LKKWLEKSGLPLKKFFNTSGKSYRELGLK 69
Query: 390 EAIKLLIDEEANKLLNED 407
+ + L +EEA +LL+ D
Sbjct: 70 DKLPSLSEEEALELLSSD 87
Score = 29.5 bits (67), Expect = 3.7
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 17/78 (21%)
Query: 936 LDNKEIEIELNDTGPHMEIMSPPGMEEMTAQIKTMFSVIGNHRKK--------TRKIKIR 987
LD ++ D + PP EE +K G KK R++ ++
Sbjct: 19 LDEHGVDYTAIDI-----VEEPPSKEE----LKKWLEKSGLPLKKFFNTSGKSYRELGLK 69
Query: 988 EAIKLLIDEEANKLLNED 1005
+ + L +EEA +LL+ D
Sbjct: 70 DKLPSLSEEEALELLSSD 87
>gnl|CDD|226132 COG3604, FhlA, Transcriptional regulator containing GAF, AAA-type
ATPase, and DNA binding domains [Transcription / Signal
transduction mechanisms].
Length = 550
Score = 31.2 bits (71), Expect = 4.0
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLSN---APFIKI 249
+ +L+ G TG GK +AR + +LS PF+K+
Sbjct: 245 SDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKL 280
Score = 31.2 bits (71), Expect = 4.0
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLSN---APFIKI 847
+ +L+ G TG GK +AR + +LS PF+K+
Sbjct: 245 SDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKL 280
>gnl|CDD|132302 TIGR03258, PhnT, 2-aminoethylphosphonate ABC transport system,
ATP-binding component PhnT. This ATP-binding component
of an ABC transport system is found in Salmonella and
Burkholderia lineages in the vicinity of enzymes for the
breakdown of 2-aminoethylphosphonate.
Length = 362
Score = 31.1 bits (70), Expect = 4.0
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 199 LRNRWRRQQITGPLQQEITPKNIL-MIGPTGVGKTEIARRLA 239
LR + + L EI +L +IG +G GKT + R +A
Sbjct: 11 LRVAYGANTVLDDLSLEIEAGELLALIGKSGCGKTTLLRAIA 52
Score = 31.1 bits (70), Expect = 4.0
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 797 LRNRWRRQQITGPLQQEITPKNIL-MIGPTGVGKTEIARRLA 837
LR + + L EI +L +IG +G GKT + R +A
Sbjct: 11 LRVAYGANTVLDDLSLEIEAGELLALIGKSGCGKTTLLRAIA 52
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 31.3 bits (71), Expect = 4.2
Identities = 24/74 (32%), Positives = 28/74 (37%), Gaps = 21/74 (28%)
Query: 177 IVSELDKY-------VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGV 229
IVS KY V+GQ A+ L+N + L GP GV
Sbjct: 5 IVSAR-KYRPSTFESVVGQ----EALTTTLKNAIATNK---------LAHAYLFCGPRGV 50
Query: 230 GKTEIARRLAKLSN 243
GKT AR AK N
Sbjct: 51 GKTTCARIFAKTIN 64
Score = 31.3 bits (71), Expect = 4.2
Identities = 24/74 (32%), Positives = 28/74 (37%), Gaps = 21/74 (28%)
Query: 775 IVSELDKY-------VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGV 827
IVS KY V+GQ A+ L+N + L GP GV
Sbjct: 5 IVSAR-KYRPSTFESVVGQ----EALTTTLKNAIATNK---------LAHAYLFCGPRGV 50
Query: 828 GKTEIARRLAKLSN 841
GKT AR AK N
Sbjct: 51 GKTTCARIFAKTIN 64
>gnl|CDD|236138 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau;
Validated.
Length = 647
Score = 31.0 bits (71), Expect = 4.3
Identities = 11/13 (84%), Positives = 11/13 (84%)
Query: 228 GVGKTEIARRLAK 240
GVGKT IAR LAK
Sbjct: 48 GVGKTTIARLLAK 60
Score = 31.0 bits (71), Expect = 4.3
Identities = 11/13 (84%), Positives = 11/13 (84%)
Query: 826 GVGKTEIARRLAK 838
GVGKT IAR LAK
Sbjct: 48 GVGKTTIARLLAK 60
>gnl|CDD|215451 PLN02840, PLN02840, tRNA dimethylallyltransferase.
Length = 421
Score = 30.9 bits (70), Expect = 4.3
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 34/98 (34%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 278
K I++ GPTG GK+ +A LAK N I ++ + Y G DV +
Sbjct: 22 KVIVISGPTGAGKSRLALELAKRLNGEIISADSVQV----YRGLDVGS------------ 65
Query: 279 TREFEINKVRTRAEDAAEDR------VIDILVPSKEKS 310
A+ + +R +IDIL PS + S
Sbjct: 66 ------------AKPSLSERKEVPHHLIDILHPSDDYS 91
Score = 30.9 bits (70), Expect = 4.3
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 34/98 (34%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 876
K I++ GPTG GK+ +A LAK N I ++ + Y G DV +
Sbjct: 22 KVIVISGPTGAGKSRLALELAKRLNGEIISADSVQV----YRGLDVGS------------ 65
Query: 877 TREFEINKVRTRAEDAAEDR------VIDILVPSKEKS 908
A+ + +R +IDIL PS + S
Sbjct: 66 ------------AKPSLSERKEVPHHLIDILHPSDDYS 91
>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family,
nucleotide-binding domain. This family includes the ATP
synthase alpha and beta subunits, the ATP synthase
associated with flagella and the termination factor Rho.
Length = 213
Score = 30.1 bits (69), Expect = 4.6
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLID 273
I + G +G GKT + +A+ + A +++ + +G GR+V I +L+
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEV----YVLIGERGREVAEFIEELLG 66
Score = 30.1 bits (69), Expect = 4.6
Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLID 871
I + G +G GKT + +A+ + A +++ + +G GR+V I +L+
Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEV----YVLIGERGREVAEFIEELLG 66
>gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 367
Score = 30.6 bits (69), Expect = 4.6
Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 205 RQQITGPLQQEITPKNI----LMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFT----E 256
+ IT L I ++ L GP GVGKT AR LA+ N P F+ E
Sbjct: 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE 81
Query: 257 VGYVGRDVDTIIRDLID 273
+ + IR+LID
Sbjct: 82 LDAASNNSVDDIRNLID 98
Score = 30.6 bits (69), Expect = 4.6
Identities = 25/77 (32%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 803 RQQITGPLQQEITPKNI----LMIGPTGVGKTEIARRLAKLSNAPFIKIEATKFT----E 854
+ IT L I ++ L GP GVGKT AR LA+ N P F+ E
Sbjct: 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE 81
Query: 855 VGYVGRDVDTIIRDLID 871
+ + IR+LID
Sbjct: 82 LDAASNNSVDDIRNLID 98
>gnl|CDD|215253 PLN02459, PLN02459, probable adenylate kinase.
Length = 261
Score = 30.6 bits (69), Expect = 4.6
Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 203 WRRQQITGPLQQEITPKNI--LMIGPTGVGKTEIARRLAKLSNAPFI 247
+ + +N+ + +G GVGK A RL+KL P I
Sbjct: 12 LADDLASACDRSLAKGRNVNWVFLGCPGVGKGTYASRLSKLLGVPHI 58
Score = 30.6 bits (69), Expect = 4.6
Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 801 WRRQQITGPLQQEITPKNI--LMIGPTGVGKTEIARRLAKLSNAPFI 845
+ + +N+ + +G GVGK A RL+KL P I
Sbjct: 12 LADDLASACDRSLAKGRNVNWVFLGCPGVGKGTYASRLSKLLGVPHI 58
>gnl|CDD|235331 PRK05022, PRK05022, anaerobic nitric oxide reductase transcription
regulator; Provisional.
Length = 509
Score = 30.9 bits (71), Expect = 4.8
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 14/84 (16%)
Query: 171 SLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITG------PLQQEI-----TPK 219
+L A ++ +L+ + + + ++ G L++EI +
Sbjct: 155 TLRNALLIEQLES---QAELPQDVAEFLRQEALKEGEMIGQSPAMQQLKKEIEVVAASDL 211
Query: 220 NILMIGPTGVGKTEIARRLAKLSN 243
N+L++G TGVGK +AR + S
Sbjct: 212 NVLILGETGVGKELVARAIHAASP 235
Score = 30.9 bits (71), Expect = 4.8
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 14/84 (16%)
Query: 769 SLVIAEIVSELDKYVIGQNRAKRAVAIALRNRWRRQQITG------PLQQEI-----TPK 817
+L A ++ +L+ + + + ++ G L++EI +
Sbjct: 155 TLRNALLIEQLES---QAELPQDVAEFLRQEALKEGEMIGQSPAMQQLKKEIEVVAASDL 211
Query: 818 NILMIGPTGVGKTEIARRLAKLSN 841
N+L++G TGVGK +AR + S
Sbjct: 212 NVLILGETGVGKELVARAIHAASP 235
>gnl|CDD|184129 PRK13543, PRK13543, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 214
Score = 30.2 bits (68), Expect = 4.8
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 208 ITGPLQQEITPKNILMI-GPTGVGKTEIARRLAKL 241
+ GPL + L++ G G GKT + R LA L
Sbjct: 26 VFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGL 60
Score = 30.2 bits (68), Expect = 4.8
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 806 ITGPLQQEITPKNILMI-GPTGVGKTEIARRLAKL 839
+ GPL + L++ G G GKT + R LA L
Sbjct: 26 VFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGL 60
>gnl|CDD|234077 TIGR02974, phageshock_pspF, psp operon transcriptional activator
PspF. Members of this protein family are PspF, the
sigma-54-dependent transcriptional activator of the
phage shock protein (psp) operon, in Escherichia coli
and numerous other species. The psp operon is induced by
a number of stress conditions, including heat shock,
ethanol, and filamentous phage infection. Changed
com_name to adhere to TIGR role notes conventions.
09/15/06 - DMH [Regulatory functions, DNA interactions].
Length = 329
Score = 30.7 bits (70), Expect = 4.8
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 249
+ +L+IG G GK IA RL LS P +K+
Sbjct: 23 RPVLIIGERGTGKELIAARLHYLSKRWQGPLVKL 56
Score = 30.7 bits (70), Expect = 4.8
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 847
+ +L+IG G GK IA RL LS P +K+
Sbjct: 23 RPVLIIGERGTGKELIAARLHYLSKRWQGPLVKL 56
>gnl|CDD|226997 COG4650, RtcR, Sigma54-dependent transcription regulator containing
an AAA-type ATPase domain and a DNA-binding domain
[Transcription / Signal transduction mechanisms].
Length = 531
Score = 30.7 bits (69), Expect = 4.8
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 20/69 (28%)
Query: 196 AIALRNRWRRQQITGPLQQEITPKN--------------------ILMIGPTGVGKTEIA 235
AIA R R+Q L+ I +N IL+ GPTG GK+ +A
Sbjct: 166 AIASRFAEEREQTLDFLKSGIATRNPHFNRMIEQIERVAIRSRAPILLNGPTGAGKSFLA 225
Query: 236 RRLAKLSNA 244
RR+ +L A
Sbjct: 226 RRIYELKQA 234
Score = 30.7 bits (69), Expect = 4.8
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 20/69 (28%)
Query: 794 AIALRNRWRRQQITGPLQQEITPKN--------------------ILMIGPTGVGKTEIA 833
AIA R R+Q L+ I +N IL+ GPTG GK+ +A
Sbjct: 166 AIASRFAEEREQTLDFLKSGIATRNPHFNRMIEQIERVAIRSRAPILLNGPTGAGKSFLA 225
Query: 834 RRLAKLSNA 842
RR+ +L A
Sbjct: 226 RRIYELKQA 234
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 30.8 bits (69), Expect = 4.9
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 13/59 (22%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSN 243
++GQN RA++ AL G L L G GVGKT IAR LAK N
Sbjct: 17 LVGQNHVSRALSSALER--------GRLHHAY-----LFTGTRGVGKTTIARILAKCLN 62
Score = 30.8 bits (69), Expect = 4.9
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 13/59 (22%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSN 841
++GQN RA++ AL G L L G GVGKT IAR LAK N
Sbjct: 17 LVGQNHVSRALSSALER--------GRLHHAY-----LFTGTRGVGKTTIARILAKCLN 62
>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau.
This model represents the well-conserved first ~ 365
amino acids of the translation of the dnaX gene. The
full-length product of the dnaX gene in the model
bacterium E. coli is the DNA polymerase III tau subunit.
A translational frameshift leads to early termination
and a truncated protein subunit gamma, about 1/3 shorter
than tau and present in roughly equal amounts. This
frameshift mechanism is not necessarily universal for
species with DNA polymerase III but appears conserved in
the exterme thermophile Thermus thermophilis [DNA
metabolism, DNA replication, recombination, and repair].
Length = 355
Score = 30.6 bits (70), Expect = 5.0
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 13/56 (23%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAK 240
VIGQ + L+N + +I L GP G GKT IAR AK
Sbjct: 16 VIGQE----HIVQTLKNAIKNGRI---------AHAYLFSGPRGTGKTSIARIFAK 58
Score = 30.6 bits (70), Expect = 5.0
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 13/56 (23%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAK 838
VIGQ + L+N + +I L GP G GKT IAR AK
Sbjct: 16 VIGQE----HIVQTLKNAIKNGRI---------AHAYLFSGPRGTGKTSIARIFAK 58
>gnl|CDD|224847 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and
AMP kinases) [Nucleotide transport and metabolism].
Length = 180
Score = 30.0 bits (68), Expect = 5.1
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 219 KNILMIGPTGVGKTEIARRLAKL 241
I + G GVGKT + + L +L
Sbjct: 1 MLIAITGTPGVGKTTVCKLLREL 23
Score = 30.0 bits (68), Expect = 5.1
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 817 KNILMIGPTGVGKTEIARRLAKL 839
I + G GVGKT + + L +L
Sbjct: 1 MLIAITGTPGVGKTTVCKLLREL 23
>gnl|CDD|226372 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria
[Function unknown].
Length = 308
Score = 30.6 bits (69), Expect = 5.1
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 220 NILMIGPTGVGKTEIARRLAKLS 242
N L+IGP VGKT + R +A+L
Sbjct: 139 NTLIIGPPQVGKTTLLRDIARLL 161
Score = 30.6 bits (69), Expect = 5.1
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 818 NILMIGPTGVGKTEIARRLAKLS 840
N L+IGP VGKT + R +A+L
Sbjct: 139 NTLIIGPPQVGKTTLLRDIARLL 161
>gnl|CDD|213512 TIGR00174, miaA, tRNA dimethylallyltransferase. Alternate names
include delta(2)-isopentenylpyrophosphate transferase,
IPP transferase, 2-methylthio-N6-isopentyladenosine tRNA
modification enzyme. Catalyzes the first step in the
modification of an adenosine near the anticodon to
2-methylthio-N6-isopentyladenosine. Understanding of
substrate specificity has changed [Protein synthesis,
tRNA and rRNA base modification].
Length = 287
Score = 30.4 bits (69), Expect = 5.1
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFI 247
I ++GPT GK++++ +LA+ NA I
Sbjct: 2 IFLMGPTASGKSQLSIQLAQKLNAEII 28
Score = 30.4 bits (69), Expect = 5.1
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFI 845
I ++GPT GK++++ +LA+ NA I
Sbjct: 2 IFLMGPTASGKSQLSIQLAQKLNAEII 28
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 30.7 bits (70), Expect = 5.1
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 249
T +L++G +G GK AR + LS N PFI I
Sbjct: 267 TDSTVLILGESGTGKELFARAIHNLSPRANGPFIAI 302
Score = 30.7 bits (70), Expect = 5.1
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAKLS---NAPFIKI 847
T +L++G +G GK AR + LS N PFI I
Sbjct: 267 TDSTVLILGESGTGKELFARAIHNLSPRANGPFIAI 302
>gnl|CDD|140006 PRK13949, PRK13949, shikimate kinase; Provisional.
Length = 169
Score = 29.7 bits (67), Expect = 5.3
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 219 KNILMIGPTGVGKTEIARRLAKLSNAPFI 247
I ++G G GKT + + LA+ FI
Sbjct: 2 ARIFLVGYMGAGKTTLGKALARELGLSFI 30
Score = 29.7 bits (67), Expect = 5.3
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 817 KNILMIGPTGVGKTEIARRLAKLSNAPFI 845
I ++G G GKT + + LA+ FI
Sbjct: 2 ARIFLVGYMGAGKTTLGKALARELGLSFI 30
>gnl|CDD|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit.
The 20S proteasome, multisubunit proteolytic complex,
is the central enzyme of nonlysosomal protein
degradation in both the cytosol and nucleus. It is
composed of 28 subunits arranged as four homoheptameric
rings that stack on top of one another forming an
elongated alpha-beta-beta-alpha cylinder with a central
cavity. The proteasome alpha and beta subunits are
members of the N-terminal nucleophile (Ntn)-hydrolase
superfamily. Their N-terminal threonine residues are
exposed as a nucleophile in peptide bond
hydrolysis.Mammals have 7 alpha and 7 beta proteasome
subunits while archaea have one of each.
Length = 193
Score = 29.9 bits (68), Expect = 5.4
Identities = 16/77 (20%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 22 TILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFFE 81
T++ ++ + V L D +++K+ K+ KL ++++A +G D ++ +
Sbjct: 3 TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMA-CSGEAGDRLQFAEYIQ 61
Query: 82 ANLEKHQGNLMRASVEL 98
N++ ++ MR EL
Sbjct: 62 KNIQLYK---MRNGYEL 75
Score = 29.9 bits (68), Expect = 5.4
Identities = 16/77 (20%), Positives = 38/77 (49%), Gaps = 4/77 (5%)
Query: 620 TILSVRRGNKVSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFFE 679
T++ ++ + V L D +++K+ K+ KL ++++A +G D ++ +
Sbjct: 3 TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMA-CSGEAGDRLQFAEYIQ 61
Query: 680 ANLEKHQGNLMRASVEL 696
N++ ++ MR EL
Sbjct: 62 KNIQLYK---MRNGYEL 75
>gnl|CDD|151168 pfam10662, PduV-EutP, Ethanolamine utilisation - propanediol
utilisation. Members of this family function in
ethanolamine and propanediol degradation pathways,
however the exact roles of these proteins is poorly
understood.
Length = 143
Score = 29.5 bits (67), Expect = 5.6
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 219 KNILMIGPTGVGKTEIARRLAKL 241
K I++IG +G GKT + + L
Sbjct: 2 KKIMLIGRSGCGKTTLTQALNGE 24
Score = 29.5 bits (67), Expect = 5.6
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 817 KNILMIGPTGVGKTEIARRLAKL 839
K I++IG +G GKT + + L
Sbjct: 2 KKIMLIGRSGCGKTTLTQALNGE 24
>gnl|CDD|221955 pfam13173, AAA_14, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily.
Length = 127
Score = 29.1 bits (66), Expect = 5.6
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 217 TPKNILMIGPTGVGKTEIARRLAK 240
K I++ GP VGKT + + K
Sbjct: 1 NNKIIVITGPRQVGKTTLLLQFLK 24
Score = 29.1 bits (66), Expect = 5.6
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 815 TPKNILMIGPTGVGKTEIARRLAK 838
K I++ GP VGKT + + K
Sbjct: 1 NNKIIVITGPRQVGKTTLLLQFLK 24
>gnl|CDD|238713 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible
phosphoryl transfer from adenosine triphosphates (ATP)
to adenosine monophosphates (AMP) and to yield adenosine
diphosphates (ADP). This enzyme is required for the
biosynthesis of ADP and is essential for homeostasis of
adenosine phosphates.
Length = 194
Score = 29.9 bits (68), Expect = 5.6
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 220 NILMIGPTGVGKTEIARRLAK 240
IL++GP G GK A RLAK
Sbjct: 1 RILLLGPPGSGKGTQAERLAK 21
Score = 29.9 bits (68), Expect = 5.6
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 818 NILMIGPTGVGKTEIARRLAK 838
IL++GP G GK A RLAK
Sbjct: 1 RILLLGPPGSGKGTQAERLAK 21
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 30.2 bits (69), Expect = 6.1
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 198 ALRNRWRRQQI-TGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEA 251
A R R+ + P Q + +++ G TG GKTE+ + LA A + +E
Sbjct: 125 AYR-RFVIDTLEEAPAQFPL----VVLGGNTGSGKTELLQALANA-GAQVLDLEG 173
Score = 30.2 bits (69), Expect = 6.1
Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 796 ALRNRWRRQQI-TGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSNAPFIKIEA 849
A R R+ + P Q + +++ G TG GKTE+ + LA A + +E
Sbjct: 125 AYR-RFVIDTLEEAPAQFPL----VVLGGNTGSGKTELLQALANA-GAQVLDLEG 173
>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA
replication, recombination, and repair].
Length = 515
Score = 30.4 bits (69), Expect = 6.2
Identities = 25/73 (34%), Positives = 28/73 (38%), Gaps = 17/73 (23%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSN-------APFIKIEATKFTEVGYVGRDVDTIIRDLID 273
L GP GVGKT IAR LAK N P K + K G +D I ID
Sbjct: 41 YLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEIN---EGSLIDVI---EID 94
Query: 274 ----ISIKQTREF 282
+ RE
Sbjct: 95 AASNTGVDDIREI 107
Score = 30.4 bits (69), Expect = 6.2
Identities = 25/73 (34%), Positives = 28/73 (38%), Gaps = 17/73 (23%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSN-------APFIKIEATKFTEVGYVGRDVDTIIRDLID 871
L GP GVGKT IAR LAK N P K + K G +D I ID
Sbjct: 41 YLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEIN---EGSLIDVI---EID 94
Query: 872 ----ISIKQTREF 880
+ RE
Sbjct: 95 AASNTGVDDIREI 107
>gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase /
dimethylallyl transferase synthesises
isopentenyladensosine 5'-monophosphate, a cytokinin that
induces shoot formation on host plants infected with the
Ti plasmid.
Length = 232
Score = 30.1 bits (68), Expect = 6.2
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 222 LMIGPTGVGKTEIARRLAKLSNAPFI 247
L+ G T GKT A LAK + P I
Sbjct: 5 LIWGATCTGKTAEAIALAKETGWPVI 30
Score = 30.1 bits (68), Expect = 6.2
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 820 LMIGPTGVGKTEIARRLAKLSNAPFI 845
L+ G T GKT A LAK + P I
Sbjct: 5 LIWGATCTGKTAEAIALAKETGWPVI 30
>gnl|CDD|200217 TIGR02880, cbbX_cfxQ, probable Rubsico expression protein CbbX.
Proteins in this family are now designated CbbX. Some
previously were CfxQ (carbon fixation Q). Its gene is
often found immmediately downstream of the Rubisco large
and small chain genes, and it is suggested to be
necessary for Rubisco expression. CbbX has been shown to
be necessary for photoautotrophic growth. This protein
belongs to the larger family of pfam00004, ATPase family
Associated with various cellular Activities. Within that
larger family, members of this family are most closely
related to the stage V sporulation protein K, or SpoVK,
in endospore-forming bacteria such as Bacillus subtilis.
Length = 284
Score = 30.2 bits (68), Expect = 6.4
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 11/74 (14%)
Query: 174 IAEIVSELDKYVIG----QNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILM--IGPT 227
I E++ +LD+ +IG + R + A+ L R R++ L + M G
Sbjct: 13 ITEVLDQLDRELIGLKPVKTRIREIAALLLVERARQK-----LGLASAAPTLHMSFTGNP 67
Query: 228 GVGKTEIARRLAKL 241
G GKT +A R+A++
Sbjct: 68 GTGKTTVALRMAQI 81
Score = 30.2 bits (68), Expect = 6.4
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 11/74 (14%)
Query: 772 IAEIVSELDKYVIG----QNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILM--IGPT 825
I E++ +LD+ +IG + R + A+ L R R++ L + M G
Sbjct: 13 ITEVLDQLDRELIGLKPVKTRIREIAALLLVERARQK-----LGLASAAPTLHMSFTGNP 67
Query: 826 GVGKTEIARRLAKL 839
G GKT +A R+A++
Sbjct: 68 GTGKTTVALRMAQI 81
>gnl|CDD|238978 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor.
Length = 147
Score = 29.4 bits (67), Expect = 6.4
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 225 GPTGVGKTEIARRLAKLSNAPFI 247
GP G GK+ +A+ LAK P++
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
Score = 29.4 bits (67), Expect = 6.4
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 823 GPTGVGKTEIARRLAKLSNAPFI 845
GP G GK+ +A+ LAK P++
Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 30.3 bits (69), Expect = 6.6
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 17/66 (25%)
Query: 182 DKY-------VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEI 234
+KY V+G +AK + W + + K +L+ GP GVGKT +
Sbjct: 6 EKYRPKTLSDVVGNEKAKEQL-REWIESWLKGKP---------KKALLLYGPPGVGKTSL 55
Query: 235 ARRLAK 240
A LA
Sbjct: 56 AHALAN 61
Score = 30.3 bits (69), Expect = 6.6
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 17/66 (25%)
Query: 780 DKY-------VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEI 832
+KY V+G +AK + W + + K +L+ GP GVGKT +
Sbjct: 6 EKYRPKTLSDVVGNEKAKEQL-REWIESWLKGKP---------KKALLLYGPPGVGKTSL 55
Query: 833 ARRLAK 838
A LA
Sbjct: 56 AHALAN 61
>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport
and metabolism].
Length = 299
Score = 30.0 bits (68), Expect = 6.8
Identities = 27/119 (22%), Positives = 46/119 (38%), Gaps = 21/119 (17%)
Query: 131 DVLEPENGIGAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKYVIGQNR 190
V+ + S GI A+S A + PD ++ I E + + ++ ++
Sbjct: 3 RVIVKGDKYEMPFSKGILARSLTAA-----GVDPDLAYSIAIEIQEELKKEGIRLVTKDE 57
Query: 191 AKRAVAIALRNR----------WRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLA 239
+ L WRR +++ P IL+ G +GVGK+ IA LA
Sbjct: 58 IREVYQKLLEKGDPEVAKRYLLWRR------IRKMKRPLIILIGGASGVGKSTIAGELA 110
Score = 30.0 bits (68), Expect = 6.8
Identities = 27/119 (22%), Positives = 46/119 (38%), Gaps = 21/119 (17%)
Query: 729 DVLEPENGIGAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKYVIGQNR 788
V+ + S GI A+S A + PD ++ I E + + ++ ++
Sbjct: 3 RVIVKGDKYEMPFSKGILARSLTAA-----GVDPDLAYSIAIEIQEELKKEGIRLVTKDE 57
Query: 789 AKRAVAIALRNR----------WRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLA 837
+ L WRR +++ P IL+ G +GVGK+ IA LA
Sbjct: 58 IREVYQKLLEKGDPEVAKRYLLWRR------IRKMKRPLIILIGGASGVGKSTIAGELA 110
>gnl|CDD|225804 COG3265, GntK, Gluconate kinase [Carbohydrate transport and
metabolism].
Length = 161
Score = 29.2 bits (66), Expect = 6.9
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 224 IGPTGVGKTEIARRLAKLSNAPFI 247
+G +G GK+ + LA+ A FI
Sbjct: 1 MGVSGSGKSTVGSALAERLGAKFI 24
Score = 29.2 bits (66), Expect = 6.9
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 822 IGPTGVGKTEIARRLAKLSNAPFI 845
+G +G GK+ + LA+ A FI
Sbjct: 1 MGVSGSGKSTVGSALAERLGAKFI 24
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 30.4 bits (69), Expect = 7.0
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 16/57 (28%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 241
VIGQ A + A + R ++++MIG G GK+ +A+ +A+L
Sbjct: 33 VIGQEHAVEVIKKAAKQR----------------RHVMMIGSPGTGKSMLAKAMAEL 73
Score = 30.4 bits (69), Expect = 7.0
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 16/57 (28%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 839
VIGQ A + A + R ++++MIG G GK+ +A+ +A+L
Sbjct: 33 VIGQEHAVEVIKKAAKQR----------------RHVMMIGSPGTGKSMLAKAMAEL 73
>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 30.0 bits (68), Expect = 7.3
Identities = 38/234 (16%), Positives = 77/234 (32%), Gaps = 30/234 (12%)
Query: 23 ILSVRRGNK-VSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFFE 81
ILS RR K LG T V + + +Q + A + + A
Sbjct: 28 ILSNRRIKKGGFLGLLFSKTAVEVTKLAAVDSELRKFQTREAAKVKDAEAQLL------- 80
Query: 82 ANLEKHQGNLMRASVELAKEWRN--DRTLRRLEAMLLTANRETTLIITGNGDVLEPENGI 139
+ + + +A+ ++ + + +R + ++ ++ E
Sbjct: 81 KDPAEKKREERKAAKKIERSTPSLIERKTQEVKDSGEEIAEMMRDEKVPIRELEEIPPEF 140
Query: 140 GAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIAL 199
A+ I + + + E L+ + L I ++ E + + R L
Sbjct: 141 VALYKQEIQSPTRLNLINE---LLRAGL---ELEILDMKDESYEDL----RYFSEKLRKL 190
Query: 200 RNRWRRQQITGPLQQEITPKNILMIGPTGVGKT----EIARRLAKLSNAPFIKI 249
+ + + I ++GPTGVGKT ++A R L + I
Sbjct: 191 -LLSLIENLI-----VEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAI 238
Score = 30.0 bits (68), Expect = 7.3
Identities = 38/234 (16%), Positives = 77/234 (32%), Gaps = 30/234 (12%)
Query: 621 ILSVRRGNK-VSLGGDGQVTFGNVIMKNSAKKVRKLYQNQVLAGIAGSTADAFTLLDFFE 679
ILS RR K LG T V + + +Q + A + + A
Sbjct: 28 ILSNRRIKKGGFLGLLFSKTAVEVTKLAAVDSELRKFQTREAAKVKDAEAQLL------- 80
Query: 680 ANLEKHQGNLMRASVELAKEWRN--DRTLRRLEAMLLTANRETTLIITGNGDVLEPENGI 737
+ + + +A+ ++ + + +R + ++ ++ E
Sbjct: 81 KDPAEKKREERKAAKKIERSTPSLIERKTQEVKDSGEEIAEMMRDEKVPIRELEEIPPEF 140
Query: 738 GAIGSGGIFAQSAAKALQENTELMPDEIIKKSLVIAEIVSELDKYVIGQNRAKRAVAIAL 797
A+ I + + + E L+ + L I ++ E + + R L
Sbjct: 141 VALYKQEIQSPTRLNLINE---LLRAGL---ELEILDMKDESYEDL----RYFSEKLRKL 190
Query: 798 RNRWRRQQITGPLQQEITPKNILMIGPTGVGKT----EIARRLAKLSNAPFIKI 847
+ + + I ++GPTGVGKT ++A R L + I
Sbjct: 191 -LLSLIENLI-----VEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAI 238
>gnl|CDD|234132 TIGR03167, tRNA_sel_U_synt, tRNA 2-selenouridine synthase. The
Escherichia coli YbbB protein was shown to encode a
selenophosphate-dependent tRNA 2-selenouridine synthase,
essential for modification of some tRNAs to replace a
sulfur atom with selenium. This enzyme works with SelD,
the selenium donor protein, which also acts in
selenocysteine incorporation. Although the members of
this protein family show a fairly deep split, sequences
from both sides of the split are supported by
co-occurence with, and often proximity to, the selD gene
[Protein synthesis, tRNA and rRNA base modification].
Length = 311
Score = 29.9 bits (68), Expect = 7.3
Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNA 244
I++ G TG GKTE+ L L+NA
Sbjct: 130 IVLGGMTGSGKTEL---LHALANA 150
Score = 29.9 bits (68), Expect = 7.3
Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNA 842
I++ G TG GKTE+ L L+NA
Sbjct: 130 IVLGGMTGSGKTEL---LHALANA 150
>gnl|CDD|215925 pfam00448, SRP54, SRP54-type protein, GTPase domain. This family
includes relatives of the G-domain of the SRP54 family
of proteins.
Length = 196
Score = 29.4 bits (67), Expect = 7.4
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKL 241
P IL++G G GKT +LA
Sbjct: 1 PNVILLVGLQGSGKTTTIAKLAAY 24
Score = 29.4 bits (67), Expect = 7.4
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKL 839
P IL++G G GKT +LA
Sbjct: 1 PNVILLVGLQGSGKTTTIAKLAAY 24
>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 472
Score = 30.1 bits (68), Expect = 7.7
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 13/59 (22%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSN 243
V+GQ+ K+ + AL+ I+ I GP G GKT +AR LAK N
Sbjct: 16 VVGQDHVKKLIINALKK------------NSISHAYIFA-GPRGTGKTTVARILAKSLN 61
Score = 30.1 bits (68), Expect = 7.7
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 13/59 (22%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKLSN 841
V+GQ+ K+ + AL+ I+ I GP G GKT +AR LAK N
Sbjct: 16 VVGQDHVKKLIINALKK------------NSISHAYIFA-GPRGTGKTTVARILAKSLN 61
>gnl|CDD|238977 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein
superfamily consisting of multiple families of enzymes
that share structural similarity and are functionally
related to the catalysis of the reversible phosphate
group transfer from nucleoside triphosphates to
nucleosides/nucleotides, nucleoside monophosphates, or
sugars. Members of this family play a wide variety of
essential roles in nucleotide metabolism, the
biosynthesis of coenzymes and aromatic compounds, as
well as the metabolism of sugar and sulfate.
Length = 69
Score = 27.3 bits (61), Expect = 8.0
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 221 ILMIGPTGVGKTEIARRLAKLSNAPFIK-IEATKFTEVGYVGRD-VDTIIRDLIDISI 276
I + G +G GK+ +A++LA+ + ++ E Y D IRDL D+ I
Sbjct: 2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLDEIVILEGLYASYKSRDARIRDLADLKI 59
Score = 27.3 bits (61), Expect = 8.0
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 819 ILMIGPTGVGKTEIARRLAKLSNAPFIK-IEATKFTEVGYVGRD-VDTIIRDLIDISI 874
I + G +G GK+ +A++LA+ + ++ E Y D IRDL D+ I
Sbjct: 2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLDEIVILEGLYASYKSRDARIRDLADLKI 59
>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 576
Score = 30.1 bits (68), Expect = 8.4
Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 199 LRNRWRRQQITGPLQQE---ITPKN----------ILMIGPTGVGKTEIARRLAKLSN 243
L ++R Q + QE T +N L G GVGKT AR LAK N
Sbjct: 6 LARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63
Score = 30.1 bits (68), Expect = 8.4
Identities = 20/58 (34%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 797 LRNRWRRQQITGPLQQE---ITPKN----------ILMIGPTGVGKTEIARRLAKLSN 841
L ++R Q + QE T +N L G GVGKT AR LAK N
Sbjct: 6 LARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALN 63
>gnl|CDD|217373 pfam03115, Astro_capsid, Astrovirus capsid protein precursor. This
product is encoded by astrovirus ORF2, one of the three
astrovirus ORFs (1a, 1b, 2). The 87kD precursor protein
undergoes an intracellular cleavage to form a 79kD
protein. Subsequently, extracellular trypsin cleavage
yields the three proteins forming the infectious virion.
Length = 787
Score = 30.1 bits (68), Expect = 8.5
Identities = 15/52 (28%), Positives = 22/52 (42%)
Query: 283 EINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLR 334
+K R R++ R + I V S+ K N +N R I K+LR
Sbjct: 19 SRSKSRARSQSRGRGRSVKITVNSRNKGRRQNGRNKYQSNQRVRNIVNKQLR 70
Score = 30.1 bits (68), Expect = 8.5
Identities = 15/52 (28%), Positives = 22/52 (42%)
Query: 881 EINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLR 932
+K R R++ R + I V S+ K N +N R I K+LR
Sbjct: 19 SRSKSRARSQSRGRGRSVKITVNSRNKGRRQNGRNKYQSNQRVRNIVNKQLR 70
>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine
triphosphatases (GTPases). Rab GTPases form the largest
family within the Ras superfamily. There are at least 60
Rab genes in the human genome, and a number of Rab
GTPases are conserved from yeast to humans. Rab GTPases
are small, monomeric proteins that function as molecular
switches to regulate vesicle trafficking pathways. The
different Rab GTPases are localized to the cytosolic
face of specific intracellular membranes, where they
regulate distinct steps in membrane traffic pathways. In
the GTP-bound form, Rab GTPases recruit specific sets of
effector proteins onto membranes. Through their
effectors, Rab GTPases regulate vesicle formation,
actin- and tubulin-dependent vesicle movement, and
membrane fusion. GTPase activating proteins (GAPs)
interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which mask C-terminal lipid binding and promote
cytosolic localization. While most unicellular organisms
possess 5-20 Rab members, several have been found to
possess 60 or more Rabs; for many of these Rab isoforms,
homologous proteins are not found in other organisms.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Since crystal
structures often lack C-terminal residues, the lipid
modification site is not available for annotation in
many of the CDs in the hierarchy, but is included where
possible.
Length = 159
Score = 29.0 bits (66), Expect = 8.5
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 221 ILMIGPTGVGKTEIARRLAK 240
I++IG +GVGKT + R
Sbjct: 3 IVLIGDSGVGKTSLLLRFVD 22
Score = 29.0 bits (66), Expect = 8.5
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 819 ILMIGPTGVGKTEIARRLAK 838
I++IG +GVGKT + R
Sbjct: 3 IVLIGDSGVGKTSLLLRFVD 22
>gnl|CDD|184377 PRK13894, PRK13894, conjugal transfer ATPase TrbB; Provisional.
Length = 319
Score = 29.7 bits (67), Expect = 8.7
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 6/47 (12%)
Query: 192 KRAVAIALRNRWRRQQITGPLQQEI------TPKNILMIGPTGVGKT 232
K+AVAI +++ + I Q+E +NIL+IG TG GKT
Sbjct: 116 KKAVAIFTLDQYVERGIMTAAQREAIIAAVRAHRNILVIGGTGSGKT 162
Score = 29.7 bits (67), Expect = 8.7
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 6/47 (12%)
Query: 790 KRAVAIALRNRWRRQQITGPLQQEI------TPKNILMIGPTGVGKT 830
K+AVAI +++ + I Q+E +NIL+IG TG GKT
Sbjct: 116 KKAVAIFTLDQYVERGIMTAAQREAIIAAVRAHRNILVIGGTGSGKT 162
>gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the
C-terminal region of several eukaryotic and archaeal
RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin
or TIP49b) proteins. The N-terminal domain contains the
pfam00004 domain. In zebrafish, the liebeskummer (lik)
mutation, causes development of hyperplastic embryonic
hearts. lik encodes Reptin, a component of a
DNA-stimulated ATPase complex. Beta-catenin and Pontin,
a DNA-stimulated ATPase that is often part of complexes
with Reptin, are in the same genetic pathways. The
Reptin/Pontin ratio serves to regulate heart growth
during development, at least in part via the
beta-catenin pathway. TBP-interacting protein 49 (TIP49)
was originally identified as a TBP-binding protein, and
two related proteins are encoded by individual genes,
tip49a and b. Although the function of this gene family
has not been elucidated, they are supposed to play a
critical role in nuclear events because they interact
with various kinds of nuclear factors and have DNA
helicase activities.TIP49a has been suggested to act as
an autoantigen in some patients with autoimmune
diseases.
Length = 395
Score = 30.0 bits (68), Expect = 8.9
Identities = 25/106 (23%), Positives = 46/106 (43%), Gaps = 24/106 (22%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL--S 242
++GQ +A+ A + + + +I G + +L+ GP G GKT +A ++K
Sbjct: 26 LVGQEKAREAAGV-IVEMIKEGKIAG--------RAVLIAGPPGTGKTALAIAISKELGE 76
Query: 243 NAPFIKIEATKF-------TEVGYVGRDVDTIIRDLIDISIKQTRE 281
+ PF I ++ TE + R I + IK+ +E
Sbjct: 77 DTPFCPISGSEVYSLEMKKTEA------LTQAFRKAIGVRIKEEKE 116
Score = 30.0 bits (68), Expect = 8.9
Identities = 25/106 (23%), Positives = 46/106 (43%), Gaps = 24/106 (22%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL--S 840
++GQ +A+ A + + + +I G + +L+ GP G GKT +A ++K
Sbjct: 26 LVGQEKAREAAGV-IVEMIKEGKIAG--------RAVLIAGPPGTGKTALAIAISKELGE 76
Query: 841 NAPFIKIEATKF-------TEVGYVGRDVDTIIRDLIDISIKQTRE 879
+ PF I ++ TE + R I + IK+ +E
Sbjct: 77 DTPFCPISGSEVYSLEMKKTEA------LTQAFRKAIGVRIKEEKE 116
>gnl|CDD|185575 PTZ00361, PTZ00361, 26 proteosome regulatory subunit 4-like
protein; Provisional.
Length = 438
Score = 29.7 bits (67), Expect = 8.9
Identities = 12/32 (37%), Positives = 23/32 (71%)
Query: 218 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 249
PK +++ GP G GKT +A+ +A ++A F+++
Sbjct: 217 PKGVILYGPPGTGKTLLAKAVANETSATFLRV 248
Score = 29.7 bits (67), Expect = 8.9
Identities = 12/32 (37%), Positives = 23/32 (71%)
Query: 816 PKNILMIGPTGVGKTEIARRLAKLSNAPFIKI 847
PK +++ GP G GKT +A+ +A ++A F+++
Sbjct: 217 PKGVILYGPPGTGKTLLAKAVANETSATFLRV 248
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members of
this family from Pyrococcus horikoshii and Pyrococcus
abyssi each contain a predicted intein [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 608
Score = 29.8 bits (67), Expect = 9.8
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 16/57 (28%)
Query: 185 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 241
VIGQ A + A + + +N+L+IG GVGK+ +A+ +A+L
Sbjct: 20 VIGQEEAVEIIKKAAKQK----------------RNVLLIGEPGVGKSMLAKAMAEL 60
Score = 29.8 bits (67), Expect = 9.8
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 16/57 (28%)
Query: 783 VIGQNRAKRAVAIALRNRWRRQQITGPLQQEITPKNILMIGPTGVGKTEIARRLAKL 839
VIGQ A + A + + +N+L+IG GVGK+ +A+ +A+L
Sbjct: 20 VIGQEEAVEIIKKAAKQK----------------RNVLLIGEPGVGKSMLAKAMAEL 60
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.134 0.364
Gapped
Lambda K H
0.267 0.0868 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 60,116,360
Number of extensions: 6275960
Number of successful extensions: 8296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 8183
Number of HSP's successfully gapped: 472
Length of query: 1165
Length of database: 10,937,602
Length adjustment: 108
Effective length of query: 1057
Effective length of database: 6,147,370
Effective search space: 6497770090
Effective search space used: 6497770090
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 65 (28.6 bits)