RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3759
(844 letters)
>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional.
Length = 258
Score = 371 bits (956), Expect = e-123
Identities = 119/224 (53%), Positives = 166/224 (74%)
Query: 1 MSITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLG 60
++++++LEAGVHFGHQTR WNPKM YIFG RN IHII+L+KT+ M ++A ++ +
Sbjct: 2 AVVSMKQLLEAGVHFGHQTRRWNPKMKPYIFGERNGIHIIDLQKTVPMLDEAYNFVRDVA 61
Query: 61 FSKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFI 120
+ G +LFVGTK+QA+ IA EA R GMP+++ RWLGG+LTNFKTI+ SI+RLKE++
Sbjct: 62 ANGGKILFVGTKKQAQEAIAEEAERCGMPYVNHRWLGGMLTNFKTIRKSIKRLKELEKME 121
Query: 121 TNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNI 180
+G+ KL+KKEAL+ R+ KL + +GGIK+M +PDA+F++D AV EA KL I
Sbjct: 122 EDGTFEKLTKKEALMLTRELEKLEKSLGGIKDMGGLPDALFVVDPNKEHIAVKEARKLGI 181
Query: 181 PIIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
P++ +VDTN PDG++Y IPGNDD+ +SI LYT I DA L+ +
Sbjct: 182 PVVAIVDTNCDPDGVDYPIPGNDDAIRSIKLYTSKIADAILEGR 225
>gnl|CDD|239787 cd04254, AAK_UMPK-PyrH-Ec, UMP kinase (UMPK)-Ec, the
microbial/chloroplast uridine monophosphate kinase
(uridylate kinase) enzyme that catalyzes UMP
phosphorylation and plays a key role in pyrimidine
nucleotide biosynthesis; regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinase of E.
coli (Ec) is known to function as a homohexamer, with
GTP and UTP being allosteric effectors. Like other
related enzymes (carbamate kinase, aspartokinase, and
N-acetylglutamate kinase) the E. coli and most bacterial
and chloroplast UMPKs (this CD) have a conserved,
N-terminal, lysine residue proposed to function in the
catalysis of the phosphoryl group transfer, whereas most
archaeal UMPKs appear to lack this residue and the
Pyrococcus furiosus structure has an additional Mg ion
bound to the ATP molecule which is proposed to function
as the catalysis instead. Members of this CD belong to
the Amino Acid Kinase Superfamily (AAK).
Length = 231
Score = 334 bits (858), Expect = e-109
Identities = 122/223 (54%), Positives = 163/223 (73%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
GEAL + + I+ ++ I EI E+V G+E+AIV+GGGNI RG S +DR+TAD
Sbjct: 9 GEALAGENGFGIDPEVLNRIAREIKEVVDLGVEVAIVVGGGNIFRGASAAEAGMDRATAD 68
Query: 492 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 551
YMGMLAT+IN+LAL D L G+ + VMSAI ++ E YI AI++LE+G+VVIFAGG
Sbjct: 69 YMGMLATVINALALQDALESLGVKTRVMSAIPMQGVAEPYIRRRAIRHLEKGRVVIFAGG 128
Query: 552 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 611
GNPFFTTDT AALRA EI A++ILKATKVDG+Y++DP K +A Y +T+DEV+SK L
Sbjct: 129 TGNPFFTTDTAAALRAIEINADVILKATKVDGVYDADPKKNPNAKRYDHLTYDEVLSKGL 188
Query: 612 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLVY 654
++MD+TAF+ CRD LPI VF+I + G L + ++G+ GTL+
Sbjct: 189 KVMDATAFTLCRDNNLPIVVFNINEPGNLLKAVKGEGVGTLIS 231
>gnl|CDD|234735 PRK00358, pyrH, uridylate kinase; Provisional.
Length = 231
Score = 317 bits (815), Expect = e-103
Identities = 118/222 (53%), Positives = 161/222 (72%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
GEAL + I+ ++ I EI E+V G+E+AIV+GGGNI RG +DR+TAD
Sbjct: 9 GEALAGEKGFGIDPEVLDRIAEEIKEVVELGVEVAIVVGGGNIFRGYIGAAAGMDRATAD 68
Query: 492 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 551
YMGMLAT++N+LAL D L ++G+ + V SAI + + E YI AI++LE+G+VVIFA G
Sbjct: 69 YMGMLATVMNALALQDALERAGVDTRVQSAIPMPQVAEPYIRRRAIRHLEKGRVVIFAAG 128
Query: 552 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 611
GNPFFTTDT AALRA EI A+++LKAT VDG+Y++DP K A Y ++T+DEV+ K L
Sbjct: 129 TGNPFFTTDTAAALRAEEIGADVLLKATNVDGVYDADPKKDPDAKKYDRLTYDEVLEKGL 188
Query: 612 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
++MD+TA S RD K+PI VF++ K G LKRV++G++ GTLV
Sbjct: 189 KVMDATAISLARDNKIPIIVFNMNKPGNLKRVVKGEHIGTLV 230
>gnl|CDD|223130 COG0052, RpsB, Ribosomal protein S2 [Translation, ribosomal
structure and biogenesis].
Length = 252
Score = 308 bits (791), Expect = 4e-99
Identities = 115/252 (45%), Positives = 168/252 (66%), Gaps = 3/252 (1%)
Query: 3 ITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFS 62
++++++LEAGVHFGHQTR WNPKM +IFG RN IHII+L+KTL +A +++ ++ +
Sbjct: 4 VSMKQLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLERLREAYKFLRRIAAN 63
Query: 63 KGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITN 122
G +LFVGTK+QA+ + A R G +++ RWLGG+LTNFKTI+ SI+RLKE++ +
Sbjct: 64 GGKILFVGTKKQAQEPVKEFAERTGAYYVNGRWLGGMLTNFKTIRKSIKRLKELEKMEED 123
Query: 123 GSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPI 182
G L+KKEAL+ R+ KL + +GGIK+M +PD +F+ID K AV EA KL IP+
Sbjct: 124 G-FDGLTKKEALMLTRELEKLEKSLGGIKDMKGLPDVLFVIDPRKEKIAVKEANKLGIPV 182
Query: 183 IGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECKK 242
+ +VDTN PDG++YVIPGNDD+ +SIAL + A L+ + G + A I E ++
Sbjct: 183 VALVDTNCDPDGVDYVIPGNDDAIRSIALIYWLLARAILEGR--GGALDEEEAAIEEDEE 240
Query: 243 ALIEANGKLSKA 254
+ +
Sbjct: 241 VEEFEAKEEAAE 252
>gnl|CDD|213681 TIGR02075, pyrH_bact, uridylate kinase. This protein, also called
UMP kinase, converts UMP to UDP by adding a phosphate
from ATP. It is the first step in pyrimidine
biosynthesis. GTP is an allosteric activator. In a large
fraction of all bacterial genomes, the gene tends to be
located immediately downstream of elongation factor Ts
and upstream of ribosome recycling factor. A related
protein family, believed to be equivalent in function
and found in the archaea and in spirochetes, is
described by a separate model, TIGR02076 [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 232
Score = 294 bits (754), Expect = 6e-94
Identities = 128/222 (57%), Positives = 157/222 (70%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
GEAL + I+ + I +EI E+V GIE+ IVIGGGNI RG+S IDR +AD
Sbjct: 10 GEALAGESQFGIDPDRLNRIANEIKELVKMGIEVGIVIGGGNIFRGVSAAELGIDRVSAD 69
Query: 492 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 551
YMGMLAT+IN LAL D L K G+ + V+SAIS+ + ESYI AIK+LE+GKVVIF+GG
Sbjct: 70 YMGMLATVINGLALRDALEKLGLKTRVLSAISMPQICESYIRRKAIKHLEKGKVVIFSGG 129
Query: 552 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 611
GNPFFTTDT AALRA EI A++ILK T VDG+Y +DP K A Y IT++E + K L
Sbjct: 130 TGNPFFTTDTAAALRAIEINADVILKGTNVDGVYTADPKKNKDAKKYDTITYNEALKKNL 189
Query: 612 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
++MD TAF+ RD LPI VF+I K GALK+VI GK GTLV
Sbjct: 190 KVMDLTAFALARDNNLPIVVFNIDKPGALKKVILGKGIGTLV 231
>gnl|CDD|130084 TIGR01011, rpsB_bact, ribosomal protein S2, bacterial type. This
model describes the bacterial, ribosomal, and
chloroplast forms of ribosomal protein S2. TIGR01012
describes the archaeal and cytosolic forms [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 225
Score = 290 bits (744), Expect = 1e-92
Identities = 114/222 (51%), Positives = 165/222 (74%)
Query: 3 ITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFS 62
++++++LEAGVHFGHQTR WNPKM +IFG RN IHII+L+KTL + ++A ++ + +
Sbjct: 2 VSMKDLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLQLLKEAYNFVKDVAAN 61
Query: 63 KGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITN 122
G +LFVGTK+QA+ +I EA R GM +++QRWLGG+LTNFKTI+ SI++LK+++ +
Sbjct: 62 GGKILFVGTKKQAKEIIKEEAERCGMFYVNQRWLGGMLTNFKTIRKSIKKLKKLEKMEED 121
Query: 123 GSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPI 182
G+ L+KKEAL+ R++ KL + +GGIK+M +PD +F+ID K AV+EA KL IP+
Sbjct: 122 GTFDDLTKKEALMLSREKEKLEKSLGGIKDMKKLPDLLFVIDPVKEKIAVAEARKLGIPV 181
Query: 183 IGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
+ +VDTN PD ++Y IPGNDD+ +SI L T I DA L+ K
Sbjct: 182 VAIVDTNCDPDLVDYPIPGNDDAIRSIRLLTNLIADAVLEGK 223
>gnl|CDD|239772 cd04239, AAK_UMPK-like, AAK_UMPK-like: UMP kinase (UMPK)-like, the
microbial/chloroplast uridine monophosphate kinase
(uridylate kinase) enzyme that catalyzes UMP
phosphorylation and plays a key role in pyrimidine
nucleotide biosynthesis. Regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinases of E.
coli (Ec) and Pyrococcus furiosus (Pf) are known to
function as homohexamers, with GTP and UTP being
allosteric effectors. Like other related enzymes
(carbamate kinase, aspartokinase, and N-acetylglutamate
kinase) the E. coli and most bacterial UMPKs have a
conserved, N-terminal, lysine residue proposed to
function in the catalysis of the phosphoryl group
transfer, whereas most archaeal UMPKs appear to lack
this residue and the Pyrococcus furiosus structure has
an additional Mg ion bound to the ATP molecule which is
proposed to function as the catalysis instead. Also
included in this CD are the alpha and beta subunits of
the Mo storage protein (MosA and MosB) characterized as
an alpha4-beta4 octamer containing an ATP-dependent,
polynuclear molybdenum-oxide cluster. These and related
sequences in this CD are members of the Amino Acid
Kinase Superfamily (AAK).
Length = 229
Score = 282 bits (725), Expect = 9e-90
Identities = 113/223 (50%), Positives = 160/223 (71%), Gaps = 1/223 (0%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
GEAL G+ I+ ++K I EI E+V G+E+AIV+GGGNI RG + + R+TAD
Sbjct: 8 GEALA-GEGGGIDPEVLKEIAREIKEVVDLGVEVAIVVGGGNIARGYIAAARGMPRATAD 66
Query: 492 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 551
Y+GMLAT++N+LAL D L K G+ + VMSAI ++ E YI AI++LE+G++VIF GG
Sbjct: 67 YIGMLATVMNALALQDALEKLGVKTRVMSAIPMQGVAEPYIRRRAIRHLEKGRIVIFGGG 126
Query: 552 IGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKL 611
GNP FTTDT AALRA EI A+++LKAT VDG+Y++DP K A Y +I++DE++ K L
Sbjct: 127 TGNPGFTTDTAAALRAEEIGADVLLKATNVDGVYDADPKKNPDAKKYDRISYDELLKKGL 186
Query: 612 EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLVY 654
++MD+TA + CR K+PI VF+ +K G L R ++G++ GTL+
Sbjct: 187 KVMDATALTLCRRNKIPIIVFNGLKPGNLLRALKGEHVGTLIE 229
>gnl|CDD|223602 COG0528, PyrH, Uridylate kinase [Nucleotide transport and
metabolism].
Length = 238
Score = 282 bits (725), Expect = 1e-89
Identities = 114/223 (51%), Positives = 156/223 (69%), Gaps = 1/223 (0%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
GEAL + I+ ++ I +EI E+V G+E+A+V+GGGNI RG +DR TAD
Sbjct: 14 GEALAGEQGFGIDPEVLDRIANEIKELVDLGVEVAVVVGGGNIARGYIGAAAGMDRVTAD 73
Query: 492 YMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGG 551
YMGMLAT++N+LAL D L + G+ + V SAI++ + E Y AI++LE+G+VVIF GG
Sbjct: 74 YMGMLATVMNALALQDALERLGVDTRVQSAIAMPQVAEPYSRREAIRHLEKGRVVIFGGG 133
Query: 552 IGNPFFTTDTTAALRAAEIKAEIILKAT-KVDGIYNSDPNKCLSAIIYKKITFDEVISKK 610
GNP FTTDT AALRA EI+A+++LKAT KVDG+Y++DP K A Y +T+DEV+
Sbjct: 134 TGNPGFTTDTAAALRAEEIEADVLLKATNKVDGVYDADPKKDPDAKKYDTLTYDEVLKIG 193
Query: 611 LEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
L++MD TAFS RD +PI VF+I K G LKR ++G+ GT+V
Sbjct: 194 LKVMDPTAFSLARDNGIPIIVFNINKPGNLKRALKGEEVGTIV 236
>gnl|CDD|215856 pfam00318, Ribosomal_S2, Ribosomal protein S2.
Length = 205
Score = 267 bits (686), Expect = 2e-84
Identities = 111/217 (51%), Positives = 142/217 (65%), Gaps = 12/217 (5%)
Query: 8 MLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKGTLL 67
+LEAGVHFGHQTR WNPKM YI+G RN IHII+LEKTL KA +I ++ G +L
Sbjct: 1 LLEAGVHFGHQTRRWNPKMKPYIYGERNGIHIIDLEKTLEKLRKAANFIKEIAAKGGKIL 60
Query: 68 FVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRK 127
FVGTK+QA+ + A R G +++ RWLGG LTN+KTIK SI+RL+E
Sbjct: 61 FVGTKKQAQEAVKKFAKRTGQFYVNGRWLGGTLTNWKTIKKSIKRLEE------------ 108
Query: 128 LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVD 187
LSKKEAL R+ KL + +GGIKNM +PD + ++D A+ EA KL IP+I +VD
Sbjct: 109 LSKKEALKLKRELEKLEKYLGGIKNMKKLPDLVIVVDPNKEHIAIKEASKLGIPVIAIVD 168
Query: 188 TNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
TN PD I+Y IPGNDDS +SIAL + A L+ +
Sbjct: 169 TNCDPDLIDYPIPGNDDSIRSIALILWLLARAILEGR 205
>gnl|CDD|183428 PRK12311, rpsB, 30S ribosomal protein S2/unknown domain fusion
protein; Provisional.
Length = 326
Score = 252 bits (646), Expect = 4e-77
Identities = 106/218 (48%), Positives = 151/218 (69%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKG 64
+R++LEAGVHFGHQ+ WNPKM+ YIFG RN IHII+L +T+ + +A++ + G
Sbjct: 1 MRQLLEAGVHFGHQSHRWNPKMAPYIFGTRNNIHIIDLAQTVPLLHRALQAVSDTVAKGG 60
Query: 65 TLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGS 124
+LFVGTKRQA+ +A+ A R+ F++ RWLGG LTN+KTI SIQRL+++D +++G
Sbjct: 61 RVLFVGTKRQAQDAVADAAKRSAQYFVNSRWLGGTLTNWKTISGSIQRLRKLDEVLSSGE 120
Query: 125 IRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIG 184
+KKE L R++ KL+R +GGIK+M +PD +F+ID A+ EA +L IP+
Sbjct: 121 ANGYTKKERLTLQRERDKLDRALGGIKDMGGLPDLLFVIDTNKEDIAIQEAQRLGIPVAA 180
Query: 185 VVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLD 222
+VDTN PDGI Y +PGNDD+ ++IALY I A +D
Sbjct: 181 IVDTNCDPDGITYPVPGNDDAGRAIALYCDLIARAAID 218
>gnl|CDD|236491 PRK09377, tsf, elongation factor Ts; Provisional.
Length = 290
Score = 248 bits (635), Expect = 7e-76
Identities = 89/213 (41%), Positives = 130/213 (61%), Gaps = 4/213 (1%)
Query: 222 DAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAI 281
A V ELR +T A +M+CKKAL EA+G + KA E LR K K + R A +G++A
Sbjct: 5 TAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKKGLAKAAKKAGRVAAEGLVAA 64
Query: 282 YISEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQLNNLKIKNNLLTVD 341
+ G LVE+N ETDFVAKN +F + ++A+ P +++ L LK+ TV+
Sbjct: 65 KVDGNKGVLVEVNSETDFVAKNEDFQALANEVAEAALAAKPADVEALLALKLDG--GTVE 122
Query: 342 EKCKELISRIGENIKIRRFKLFKTNNNLI-SYLHDN-KIGVIVEYNGDNESAVKDVAMHI 399
E ELI++IGENI +RRF + + ++ SYLH +IGV+V G +E KD+AMHI
Sbjct: 123 EARTELIAKIGENISLRRFARLEKDGGVVGSYLHGGGRIGVLVALEGGDEELAKDIAMHI 182
Query: 400 AAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLG 432
AAM P LS + +P +++EKE +A +A++ G
Sbjct: 183 AAMNPEYLSREDVPAEVVEKEREIAKEQAKEEG 215
>gnl|CDD|100106 cd01425, RPS2, Ribosomal protein S2 (RPS2), involved in formation
of the translation initiation complex, where it might
contact the messenger RNA and several components of the
ribosome. It has been shown that in Escherichia coli
RPS2 is essential for the binding of ribosomal protein
S1 to the 30s ribosomal subunit. In humans, most likely
in all vertebrates, and perhaps in all metazoans, the
protein also functions as the 67 kDa laminin receptor
(LAMR1 or 67LR), which is formed from a 37 kDa
precursor, and is overexpressed in many tumors. 67LR is
a cell surface receptor which interacts with a variety
of ligands, laminin-1 and others. It is assumed that the
ligand interactions are mediated via the conserved
C-terminus, which becomes extracellular as the protein
undergoes conformational changes which are not well
understood. Specifically, a conserved palindromic motif,
LMWWML, may participate in the interactions. 67LR plays
essential roles in the adhesion of cells to the basement
membrane and subsequent signalling events, and has been
linked to several diseases. Some evidence also suggests
that the precursor of 67LR, 37LRP is also present in the
nucleus in animals, where it appears associated with
histones.
Length = 193
Score = 231 bits (592), Expect = 5e-71
Identities = 97/214 (45%), Positives = 130/214 (60%), Gaps = 22/214 (10%)
Query: 8 MLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKGTLL 67
+LEAGVH GH+TR WNPKM YI+G RN IHII+LEKTL A+ +I + G +L
Sbjct: 1 LLEAGVHLGHKTRRWNPKMKPYIYGERNGIHIIDLEKTLEKLRLALNFIANIAAKGGKIL 60
Query: 68 FVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRK 127
FVGTK QA+ + A R G +++ RWLGG LTN+KTI+ SI+RLK+++
Sbjct: 61 FVGTKPQAQRAVKKFAERTGSFYVNGRWLGGTLTNWKTIRKSIKRLKKLE---------- 110
Query: 128 LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVD 187
+ KL + +GGIK+M +PD + ++D A+ EA KL IP+I +VD
Sbjct: 111 ------------KEKLEKNLGGIKDMFRLPDLVIVLDPRKEHQAIREASKLGIPVIAIVD 158
Query: 188 TNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFL 221
TN PD I+Y IP NDDS +SIAL + A L
Sbjct: 159 TNCDPDLIDYPIPANDDSIRSIALILWLLARAIL 192
>gnl|CDD|178850 PRK00083, frr, ribosome recycling factor; Reviewed.
Length = 185
Score = 228 bits (583), Expect = 7e-70
Identities = 88/183 (48%), Positives = 132/183 (72%)
Query: 661 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 720
I++I K+ +++M ++ LK L K+RTGRAN +LD I+V Y+ T L ++A+I++
Sbjct: 2 INEILKDAEERMEKAVEALKRELAKIRTGRANPSLLDGIKVDYYGSPTPLNQVASISVPE 61
Query: 721 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 780
+ T+ IQP++K M I+KAI ++LGLNP+ G +I + IPPLT+ERR+E+VK +K
Sbjct: 62 ARTLLIQPWDKSMLKAIEKAIRASDLGLNPSNDGTVIRLPIPPLTEERRKELVKQVKKEA 121
Query: 781 EETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 840
EE K++IR IRRD+N+ LKKL K+K +S D RA+ +IQKLTDK+I +I++LL KEKE
Sbjct: 122 EEAKVAIRNIRRDANDKLKKLEKDKEISEDELKRAEDEIQKLTDKYIKKIDELLAAKEKE 181
Query: 841 ILT 843
I+
Sbjct: 182 IME 184
>gnl|CDD|177007 CHL00067, rps2, ribosomal protein S2.
Length = 230
Score = 228 bits (583), Expect = 3e-69
Identities = 97/223 (43%), Positives = 137/223 (61%), Gaps = 4/223 (1%)
Query: 1 MSITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLG 60
+I + EMLEAGVHFGHQTR WNPKM+ YI+ RN IHIINL +T +A ++
Sbjct: 6 WNINLEEMLEAGVHFGHQTRKWNPKMAPYIYAERNGIHIINLVQTARFLSEACDLVFDAA 65
Query: 61 FSKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFI 120
LFVGTK+QA ++A+ A+RA ++++RWLGG+LTN+ T KT +Q+L+++ +
Sbjct: 66 SKGKKFLFVGTKKQAADLVASAAIRARCHYVNKRWLGGMLTNWSTTKTRLQKLRDLRMEE 125
Query: 121 TNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNI 180
G +L KKEA + R+ +L + +GGIK M +PD + IID A+ E KL I
Sbjct: 126 KTGLFNRLPKKEAAILKRQLSRLEKYLGGIKYMTKLPDIVIIIDQQEEYTALRECRKLGI 185
Query: 181 PIIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDA 223
P I ++DTN PD + IP NDD+ SI L I++ A
Sbjct: 186 PTISILDTNCDPDLADIPIPANDDAIASIKL----ILNKLTTA 224
>gnl|CDD|223342 COG0264, Tsf, Translation elongation factor Ts [Translation,
ribosomal structure and biogenesis].
Length = 296
Score = 217 bits (555), Expect = 2e-64
Identities = 93/216 (43%), Positives = 129/216 (59%), Gaps = 7/216 (3%)
Query: 223 AKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAIY 282
A V ELR KT A +M+CKKAL EANG + KA E LR K K + R A +G+IA
Sbjct: 6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKGIAKAAKKAGRIAAEGLIAAK 65
Query: 283 ISE--KVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQLNNLKIKNNLLTV 340
+ K LVE+NCETDFVAKN EF + + KIAK E P ++++L TV
Sbjct: 66 VDGDGKKAVLVEVNCETDFVAKNAEFQELANKIAKAALEKKPADVEELKAAFE-PGGKTV 124
Query: 341 DEKCKELISRIGENIKIRRFKLFKTNNNLI-SYLHDN-KIGVIVEYNGDNES--AVKDVA 396
+E+ LI++IGENI +RRF + + + ++ SYLH N +IGV+V G KD+A
Sbjct: 125 EEEIAALIAKIGENISLRRFAVLEAGDGVVGSYLHGNGRIGVLVALKGGAADEELAKDIA 184
Query: 397 MHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLG 432
MHIAAM P LS + +P +++EKE + + + + G
Sbjct: 185 MHIAAMNPQYLSREDVPAEVVEKEREIFLAQLKAEG 220
>gnl|CDD|223311 COG0233, Frr, Ribosome recycling factor [Translation, ribosomal
structure and biogenesis].
Length = 187
Score = 209 bits (534), Expect = 7e-63
Identities = 88/186 (47%), Positives = 136/186 (73%)
Query: 658 IMIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANIT 717
+M+I++I K+ ++KM ++ LK L K+RTGRAN +LD I V+Y+ T L ++A+I+
Sbjct: 1 MMMINEILKDAEEKMEKALEALKNELSKIRTGRANPSLLDRITVEYYGSPTPLNQLASIS 60
Query: 718 LFNSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIK 777
+ + T+ I+PF+K M I+KAI +NLGLNP GN+I V +PPLT+ERR+E+VK+ K
Sbjct: 61 VPEARTLVIKPFDKSMVKAIEKAILASNLGLNPNNDGNVIRVPLPPLTEERRKELVKVAK 120
Query: 778 NITEETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINK 837
EE K+++R IRRD+N+ +KKL K+K +S D +A+ +IQKLTD++I +I++LL +K
Sbjct: 121 KYAEEAKVAVRNIRRDANDKIKKLEKDKEISEDEVKKAEEEIQKLTDEYIKKIDELLKDK 180
Query: 838 EKEILT 843
EKEI+
Sbjct: 181 EKEIME 186
>gnl|CDD|173023 PRK14558, pyrH, uridylate kinase; Provisional.
Length = 231
Score = 203 bits (519), Expect = 4e-60
Identities = 96/226 (42%), Positives = 137/226 (60%), Gaps = 10/226 (4%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
GEAL + + +++EI +V G ++ IVIG GN+ RG+ +++ + + AD
Sbjct: 9 GEALSGEGEKGFDPERVNYLVNEIKSVVEYGFKIGIVIGAGNLFRGV--ELKELSPTRAD 66
Query: 492 YMGMLATIINSLALFDILNKSG----IISHVMSAISIEKFLESYIPLNAIKYLEEGKVVI 547
+GML T+IN+L L DI KSG I+S +++ S+E I L Y G +VI
Sbjct: 67 QIGMLGTVINALYLKDIFEKSGLKAVIVSQIVNLPSVEPINYDDIEL----YFRAGYIVI 122
Query: 548 FAGGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVI 607
FAGG NPFFTTDT AALRA E+KA+I++KATKVDGIY+ DP K A +TF E I
Sbjct: 123 FAGGTSNPFFTTDTAAALRAVEMKADILIKATKVDGIYDKDPKKFPDAKKIDHLTFSEAI 182
Query: 608 SKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
L++MD+ AFS C+ + I V + + G L + ++G+N GTLV
Sbjct: 183 KMGLKVMDTEAFSICKKYGITILVINFFEPGNLLKALKGENVGTLV 228
>gnl|CDD|216689 pfam01765, RRF, Ribosome recycling factor. The ribosome recycling
factor (RRF / ribosome release factor) dissociates the
ribosome from the mRNA after termination of translation,
and is essential bacterial growth. Thus ribosomes are
"recycled" and ready for another round of protein
synthesis.
Length = 165
Score = 196 bits (501), Expect = 1e-58
Identities = 82/164 (50%), Positives = 119/164 (72%)
Query: 679 LKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISIQPFEKEMSSIIK 738
LK+ L K+RTGRAN +LD I+V Y+ T L ++A+I++ + T+ I P++K + I+
Sbjct: 2 LKKELSKIRTGRANPSLLDGIRVDYYGSPTPLNQLASISVPEARTLLITPWDKSLIKAIE 61
Query: 739 KAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEETKISIRKIRRDSNENL 798
KAI ++LGLNP G +I + IPPLT+ERR+E+VK K + EE K++IR IRRD+N+ L
Sbjct: 62 KAILASDLGLNPQNDGQVIRIPIPPLTEERRKELVKQAKKLAEEAKVAIRNIRRDANDKL 121
Query: 799 KKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEIL 842
KKL K+K +S D RA+ +IQKLTDK+I +I++LL KEKEI+
Sbjct: 122 KKLEKDKEISEDEVKRAEKEIQKLTDKYIKKIDELLKKKEKEIM 165
>gnl|CDD|173021 PRK14556, pyrH, uridylate kinase; Provisional.
Length = 249
Score = 189 bits (480), Expect = 1e-54
Identities = 103/223 (46%), Positives = 143/223 (64%), Gaps = 1/223 (0%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQN-IDRSTA 490
GE+L + IN + II++I + + G+ELA+V+GGGNI RG N I R+TA
Sbjct: 24 GESLSADQGFGINVESAQPIINQIKTLTNFGVELALVVGGGNILRGGRANFGNKIRRATA 83
Query: 491 DYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAG 550
D MGM+AT+IN+LAL D+L G+ + V SA ++ L+ + L +G+V+IFAG
Sbjct: 84 DSMGMIATMINALALRDMLISEGVDAEVFSAKGVDGLLKVASAHEFNQELAKGRVLIFAG 143
Query: 551 GIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKK 610
G GNPF TTDTTA+LRA EI A+ +LKAT V+G+Y+ DPNK A + K+TF EV+SK+
Sbjct: 144 GTGNPFVTTDTTASLRAVEIGADALLKATTVNGVYDKDPNKYSDAKRFDKVTFSEVVSKE 203
Query: 611 LEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
L +MD AF+ CRD +PI VF + + AL + GT V
Sbjct: 204 LNVMDLGAFTQCRDFGIPIYVFDLTQPNALVDAVLDSKYGTWV 246
>gnl|CDD|238288 cd00520, RRF, Ribosome recycling factor (RRF). Ribosome recycling
factor dissociates the posttermination complex, composed
of the ribosome, deacylated tRNA, and mRNA, after
termination of translation. Thus ribosomes are
"recycled" and ready for another round of protein
synthesis. RRF is believed to bind the ribosome at the
A-site in a manner that mimics tRNA, but the specific
mechanisms remain unclear. RRF is essential for
bacterial growth. It is not necessary for cell growth
in archaea or eukaryotes, but is found in mitochondria
or chloroplasts of some eukaryotic species.
Length = 179
Score = 181 bits (461), Expect = 9e-53
Identities = 88/179 (49%), Positives = 128/179 (71%)
Query: 664 IKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHT 723
I K K+KM +++ LKE L K+RTGRAN +LD+I V+Y+ T L ++A+I++ T
Sbjct: 1 ILKEAKEKMEKSLEALKEELNKIRTGRANPALLDSITVEYYGAPTPLNQLASISVPEPRT 60
Query: 724 ISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEET 783
I I PF+K I+KAI ++LGLNP G +I V++PPLT+ERR+E+VK K I EE
Sbjct: 61 IVINPFDKSAIKAIEKAILNSDLGLNPNNDGAVIRVNLPPLTEERRKELVKDAKKIAEEA 120
Query: 784 KISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEIL 842
K++IR IRRD+N+ +KKL K K +S D +A+ D+QKLTD++I +I++LL +KEKE+L
Sbjct: 121 KVAIRNIRRDANDKIKKLEKEKEISEDEVKKAEEDLQKLTDEYIKKIDELLKSKEKELL 179
>gnl|CDD|129587 TIGR00496, frr, ribosome recycling factor. This model finds only
eubacterial proteins. Mitochondrial and/or chloroplast
forms might be expected but are not currently known.
This protein was previously called ribosome releasing
factor. By releasing ribosomes from mRNA at the end of
protein biosynthesis, it prevents inappropriate
translation from 3-prime regions of the mRNA and frees
the ribosome for new rounds of translation.
EGAD|53116|YHR038W is part of the frr superfamily
[Protein synthesis, Translation factors].
Length = 176
Score = 168 bits (427), Expect = 3e-48
Identities = 82/175 (46%), Positives = 129/175 (73%)
Query: 669 KQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISIQP 728
K++M +I+ LK L K+RTGRAN +LD I V+Y+ T L ++A++T+ ++ T+ IQP
Sbjct: 1 KERMDKSIQALKRELSKIRTGRANPSLLDRILVEYYGAPTPLRQLASVTVPDARTLVIQP 60
Query: 729 FEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEETKISIR 788
F+K + I+KAI ++LGLNP G++I V+ PPLT+ERR+E+VK K I E+ K+++R
Sbjct: 61 FDKSNINAIEKAIQRSDLGLNPNNDGSVIRVNFPPLTEERRKELVKHAKKIAEQAKVAVR 120
Query: 789 KIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEILT 843
+RRD+N+ +KKL K+K +S D E R Q +IQKLTD++I +I+++L +KEKE++
Sbjct: 121 NVRRDANDKVKKLEKDKEISEDEERRLQEEIQKLTDEYIKKIDEILKDKEKELME 175
>gnl|CDD|173022 PRK14557, pyrH, uridylate kinase; Provisional.
Length = 247
Score = 163 bits (415), Expect = 1e-45
Identities = 92/234 (39%), Positives = 141/234 (60%), Gaps = 2/234 (0%)
Query: 432 GEALMKGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTAD 491
G AL + NS +++I +EI IV GIE++IVIGGGNI RG + IDR AD
Sbjct: 13 GGALADQTGNSFNSKRLEHIANEILSIVDLGIEVSIVIGGGNIFRGHLAEEWGIDRVEAD 72
Query: 492 YMGMLATIINSLALFDIL-NKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAG 550
+G L TIINSL L +L +K+ VM++I E YI L A+ +L+ G +VIF G
Sbjct: 73 NIGTLGTIINSLMLRGVLTSKTNKEVRVMTSIPFNAVAEPYIRLRAVHHLDNGYIVIFGG 132
Query: 551 GIGNPFFTTDTTAALRAAEIKAEIILKATK-VDGIYNSDPNKCLSAIIYKKITFDEVISK 609
G G PF TTD + RA E+ ++ IL A + VDG++ SDP SA +Y+K+ +++V+ +
Sbjct: 133 GNGQPFVTTDYPSVQRAIEMNSDAILVAKQGVDGVFTSDPKHNKSAKMYRKLNYNDVVRQ 192
Query: 610 KLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLVYEIYIMIISD 663
+++MD A RD LP VF+ + G ++R+ G++ GTL+ + +++ +
Sbjct: 193 NIQVMDQAALLLARDYNLPAHVFNFDEPGVMRRICLGEHVGTLINDDASLLVHE 246
>gnl|CDD|232832 TIGR00116, tsf, translation elongation factor Ts. Translational
elongation factor Ts (EF-Ts) catalyzes the exchange of
GTP for the GDP of the EF-Tu.GDP complex as part of the
cycle of translation elongation. This protein is found
in Bacteria, mitochondria, and chloroplasts [Protein
synthesis, Translation factors].
Length = 291
Score = 155 bits (393), Expect = 4e-42
Identities = 82/214 (38%), Positives = 125/214 (58%), Gaps = 5/214 (2%)
Query: 223 AKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAIY 282
A+ V ELR +T A +M+CKKAL+EANG KA + LR K K ++R A +GVI +
Sbjct: 6 AQLVKELRERTGAGMMDCKKALVEANGDFEKAIKWLREKGIAKAAKKADRVAAEGVIVLK 65
Query: 283 ISEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQLNNLKIKNNLLTVDE 342
+VE+N ETDFVAKN F +F+ K+ + N L++L +++N E
Sbjct: 66 SDNHKAVIVEVNSETDFVAKNEGFKEFANKLLDELKANPITTLEELQKQELENK--EKVE 123
Query: 343 KCKELISRIGENIKIRRFKLFKTNNNLI-SYLHDN-KIGVIVEYNGD-NESAVKDVAMHI 399
L ++IGENI +RR + + +N+I SYLH N +IGV+VE G +E K +AMH+
Sbjct: 124 YLASLAAKIGENIVLRRVAVLEGQSNVIFSYLHANARIGVLVELKGKADEELAKHLAMHV 183
Query: 400 AAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLGE 433
AA KP + D + ++ ++KE + +A+ G+
Sbjct: 184 AANKPQFIDQDDVSQEWVKKERQIITDQAELSGK 217
>gnl|CDD|183447 PRK12332, tsf, elongation factor Ts; Reviewed.
Length = 198
Score = 121 bits (306), Expect = 2e-31
Identities = 70/195 (35%), Positives = 90/195 (46%), Gaps = 56/195 (28%)
Query: 222 DAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILR----IKLGKKILNISNRNAKDG 277
AK V ELR KT A +M+CKKAL EANG + KA E LR K KK + R A +G
Sbjct: 4 TAKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREKGLAKAAKK----AGRVAAEG 59
Query: 278 VIAIYI--SEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTP------------- 322
++ YI ++G LVE+NCETDFVA+ EF + +K IA I P
Sbjct: 60 LVGSYIHTGGRIGVLVELNCETDFVARTEEFKELAKDIAMQIAAANPEYVSREDVPAEVI 119
Query: 323 -----INLDQLNNLK----------------------------IKNNLLTVDEKCKELIS 349
I Q N IK+ TV++ KE I+
Sbjct: 120 EKEKEIYRAQALNEGKPENIVEKIVEGRIEKFYKEVCLLEQPFIKDPSKTVEDLIKEAIA 179
Query: 350 RIGENIKIRRFKLFK 364
+IGENI +RRF F+
Sbjct: 180 KIGENIVVRRFARFE 194
Score = 58.0 bits (141), Expect = 1e-09
Identities = 28/80 (35%), Positives = 42/80 (52%), Gaps = 13/80 (16%)
Query: 365 TNNNLI-SYLHDN-KIGVIVEYN--------GDN-ESAVKDVAMHIAAMKPIALSSDQIP 413
L+ SY+H +IGV+VE N + + KD+AM IAA P +S + +P
Sbjct: 56 AAEGLVGSYIHTGGRIGVLVELNCETDFVARTEEFKELAKDIAMQIAAANPEYVSREDVP 115
Query: 414 KKIIEKEYSLAVLKAQQLGE 433
++IEKE + +AQ L E
Sbjct: 116 AEVIEKE--KEIYRAQALNE 133
>gnl|CDD|214362 CHL00098, tsf, elongation factor Ts.
Length = 200
Score = 108 bits (273), Expect = 5e-27
Identities = 73/191 (38%), Positives = 91/191 (47%), Gaps = 49/191 (25%)
Query: 222 DAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAI 281
A+ V ELR KT A +M+CKKAL EANG KA E LR K S R +G+I
Sbjct: 1 SAELVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQKGLASANKKSTRITTEGLIES 60
Query: 282 YI--SEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLI----------TENTP------- 322
YI K+G LVEINCETDFVA+ EF K +K IA I E+ P
Sbjct: 61 YIHTGGKLGVLVEINCETDFVARREEFQKLAKNIAMQIAACPNVKYVSLEDIPEEIINLE 120
Query: 323 ----INLDQLNN-----------------LK---------IKNNLLTVDEKCKELISRIG 352
D L N LK I++ +TV+E K+ I+++G
Sbjct: 121 KKIESEKDDLQNKPEEIKEKIVEGRIKKRLKELSLLDQPFIRDQSITVEELIKQNIAKLG 180
Query: 353 ENIKIRRFKLF 363
ENI+IRRF F
Sbjct: 181 ENIQIRRFARF 191
Score = 37.4 bits (87), Expect = 0.015
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 12/69 (17%)
Query: 364 KTNNNLI-SYLH-DNKIGVIVEYNGDNESA---------VKDVAMHIAAMKPIA-LSSDQ 411
T LI SY+H K+GV+VE N + + K++AM IAA + +S +
Sbjct: 52 ITTEGLIESYIHTGGKLGVLVEINCETDFVARREEFQKLAKNIAMQIAACPNVKYVSLED 111
Query: 412 IPKKIIEKE 420
IP++II E
Sbjct: 112 IPEEIINLE 120
>gnl|CDD|239033 cd02115, AAK, Amino Acid Kinases (AAK) superfamily, catalytic
domain; present in such enzymes like N-acetylglutamate
kinase (NAGK), carbamate kinase (CK), aspartokinase
(AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK).
The AAK superfamily includes kinases that phosphorylate
a variety of amino acid substrates. These kinases
catalyze the formation of phosphoric anhydrides,
generally with a carboxylate, and use ATP as the source
of the phosphoryl group; are involved in amino acid
biosynthesis. Some of these kinases control the process
via allosteric feed-back inhibition.
Length = 248
Score = 93.3 bits (232), Expect = 3e-21
Identities = 50/235 (21%), Positives = 93/235 (39%), Gaps = 30/235 (12%)
Query: 448 IKNIISEISEIVSCGIELAIVIGGGN-----ICR-GISNKIQNIDRST---ADYMGMLAT 498
++N+ + ++ S G + +V G G + G R T D + +
Sbjct: 15 LRNLARILVKLASEGGRVVVVHGAGPQITDELLAHGELLGYARGLRITDRETDALAAMGE 74
Query: 499 IINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAI---------KYLEEGKVVIFA 549
+++L + L + GI + + + + I LE G + I +
Sbjct: 75 GMSNLLIAAALEQHGIKAVPLDLTQAGFASPNQGHVGKITKVSTDRLKSLLENGILPILS 134
Query: 550 GGIG--------NPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKI 601
G G +D+TAAL AA +KA+ ++ T VDG+Y +DP K A + ++
Sbjct: 135 GFGGTDEKETGTLGRGGSDSTAALLAAALKADRLVILTDVDGVYTADPRKVPDAKLLSEL 194
Query: 602 TFDEV---ISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
T++E ++ A +P+R+ + GAL + GTL+
Sbjct: 195 TYEEAAELAYAGAMVLKPKAADPAARAGIPVRIANTENPGAL-ALFTPDGGGTLI 248
>gnl|CDD|216067 pfam00696, AA_kinase, Amino acid kinase family. This family
includes kinases that phosphorylate a variety of amino
acid substrates, as well as uridylate kinase and
carbamate kinase. This family includes: Aspartokinase
EC:2.7.2.4, Acetylglutamate kinase EC:2.7.2.8, Glutamate
5-kinase EC:2.7.2.11, Uridylate kinase EC:2.7.4.-,
Carbamate kinase EC:2.7.2.2.
Length = 230
Score = 91.3 bits (227), Expect = 1e-20
Identities = 41/217 (18%), Positives = 87/217 (40%), Gaps = 27/217 (12%)
Query: 444 NSSIIKNIISEISEIVSCGIELAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSL 503
+ IK + EI+++++ GI++ +V GGG + G ++ +
Sbjct: 14 DKDEIKRLAEEIAKLLALGIKVVVVSGGGGFTDKLLAAYGIEAGFVRHTAGATGLVLEAQ 73
Query: 504 ALFDILNKSG---------IISHVMSAISIEKFLESYIPLNAI-KYLEEGKVVIFAGGIG 553
++ ++ ++S + + AI + LE G V + G G
Sbjct: 74 LAAELNRIVVSLGERLGARAVALLLSDGGLPAVRLDLVDTEAIKELLEAGVVPVITGFGG 133
Query: 554 N---------PFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFD 604
++DT AAL A + A+ ++ T VDG+Y +DP K A + ++++D
Sbjct: 134 ENDTGETTTLGRGSSDTLAALLAEALGADKLIILTDVDGVYTADPRKNPDAKLIPELSYD 193
Query: 605 EV--------ISKKLEIMDSTAFSFCRDQKLPIRVFS 633
E ++ +++ A R +P+ + +
Sbjct: 194 EAEELLAAGDVTGGMKVKHPAALKAARRGGIPVHIIN 230
>gnl|CDD|239786 cd04253, AAK_UMPK-PyrH-Pf, AAK_UMPK-PyrH-Pf: UMP kinase (UMPK)-Pf,
the mostly archaeal uridine monophosphate kinase
(uridylate kinase) enzymes that catalyze UMP
phosphorylation and play a key role in pyrimidine
nucleotide biosynthesis; regulation of this process is
via feed-back control and via gene repression of
carbamoyl phosphate synthetase (the first enzyme of the
pyrimidine biosynthesis pathway). The UMP kinase of
Pyrococcus furiosus (Pf) is known to function as a
homohexamer, with GTP and UTP being allosteric
effectors. Like other related enzymes (carbamate kinase,
aspartokinase, and N-acetylglutamate kinase) the E. coli
and most bacterial UMPKs have a conserved, N-terminal,
lysine residue proposed to function in the catalysis of
the phosphoryl group transfer, whereas most archaeal
UMPKs (this CD) appear to lack this residue and the
Pyrococcus furiosus structure has an additional Mg ion
bound to the ATP molecule which is proposed to function
as the catalysis instead. Members of this CD belong to
the Amino Acid Kinase Superfamily (AAK).
Length = 221
Score = 78.1 bits (193), Expect = 3e-16
Identities = 56/218 (25%), Positives = 99/218 (45%), Gaps = 32/218 (14%)
Query: 448 IKNIISEISEIVSCGIELAIVIGGGNICR---GISNKIQNIDRSTADYMGMLATIINSLA 504
N++ +IS+ G ++A+V+GGG + R ++ K+ + D +G++AT +N+
Sbjct: 23 YANVLRKISD----GHKVAVVVGGGRLAREYISVARKL-GASEAFLDEIGIMATRLNARL 77
Query: 505 LFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDTTAA 564
L L + SY A++ + GK+V+ GG P +TD AA
Sbjct: 78 LIAALGDA-----------YPPVPTSYEE--ALEAMFTGKIVV-MGGT-EPGQSTDAVAA 122
Query: 565 LRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDE----VISKKL-----EIMD 615
L A + A++++ AT VDG+Y+ DP K A + +++ DE V E D
Sbjct: 123 LLAERLGADLLINATNVDGVYSKDPRKDPDAKKFDRLSADELIDIVGKSSWKAGSNEPFD 182
Query: 616 STAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
A + V L+R ++G+ GT++
Sbjct: 183 PLAAKIIERSGIKTIVVDGRDPENLERALKGEFVGTII 220
>gnl|CDD|233711 TIGR02076, pyrH_arch, uridylate kinase, putative. This family
consists of the archaeal and spirochete proteins most
closely related to bacterial uridylate kinases
(TIGR02075), an enzyme involved in pyrimidine
biosynthesis. Members are likely, but not known, to be
functionally equivalent to their bacterial counterparts.
However, substantial sequence differences suggest that
regulatory mechanisms may be different; the bacterial
form is allosterically regulated by GTP [Purines,
pyrimidines, nucleosides, and nucleotides, Nucleotide
and nucleoside interconversions].
Length = 221
Score = 73.9 bits (182), Expect = 1e-14
Identities = 57/218 (26%), Positives = 104/218 (47%), Gaps = 31/218 (14%)
Query: 448 IKNIISEISEIVSCGIELAIVIGGGNICR---GISNKIQNIDRSTADYMGMLATIINSLA 504
NI+ ++S+ ++ +V+GGG R G++ ++ + D +G+ AT +N++
Sbjct: 22 FANILRKLSD----EHKVGVVVGGGKTARRYIGVAREL-GASETFLDEIGIDATRLNAML 76
Query: 505 LFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDTTAA 564
L L + A++ + GK+V+ GG +P TTD AA
Sbjct: 77 LIAALGDDAYPKVPEN------------FEEALEAMSLGKIVV-MGGT-HPGHTTDAVAA 122
Query: 565 LRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDE----VISKKL-----EIMD 615
L A KA++++ AT VDG+Y+ DP K A + K+T +E V S + E++D
Sbjct: 123 LLAEFSKADLLINATNVDGVYDKDPKKDPDAKKFDKLTPEELVEIVGSSSVKAGSNEVVD 182
Query: 616 STAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
A K+ V + L++V++G++ GT++
Sbjct: 183 PLAAKIIERSKIRTIVVNGRDPENLEKVLKGEHVGTII 220
>gnl|CDD|189759 pfam00889, EF_TS, Elongation factor TS.
Length = 134
Score = 68.3 bits (168), Expect = 1e-13
Identities = 23/41 (56%), Positives = 31/41 (75%)
Query: 274 AKDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKKIA 314
A +G++A+YI G LVE+NCETDFVAKN +F + +K IA
Sbjct: 1 AAEGLVAVYIDGNKGVLVEVNCETDFVAKNEKFQELAKDIA 41
Score = 61.7 bits (151), Expect = 2e-11
Identities = 29/71 (40%), Positives = 40/71 (56%), Gaps = 10/71 (14%)
Query: 371 SYLHDNKIGVIVEYN------GDNES---AVKDVAMHIAAMKPIALSSDQIPKKIIEKEY 421
Y+ NK GV+VE N NE KD+AMHIAAM P LS D +P +++EKE
Sbjct: 8 VYIDGNK-GVLVEVNCETDFVAKNEKFQELAKDIAMHIAAMNPQYLSRDDVPAEVLEKER 66
Query: 422 SLAVLKAQQLG 432
+ +A++ G
Sbjct: 67 EILKAQAKEEG 77
>gnl|CDD|239779 cd04246, AAK_AK-DapG-like, AAK_AK-DapG-like: Amino Acid Kinase
Superfamily (AAK), AK-DapG-like; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
diaminopimelate-sensitive aspartokinase isoenzyme AKI
(DapG), a monofunctional enzymes found in Bacilli
(Bacillus subtilis 168), Clostridia, and Actinobacteria
bacterial species, as well as, the catalytic AK domain
of the lysine-sensitive aspartokinase isoenzyme AKII of
Bacillus subtilis 168, the lysine plus
threonine-sensitive aspartokinase of Corynebacterium
glutamicum, and related isoenzymes. In Bacillus
subtilis, the regulation of the diaminopimelate-lysine
biosynthetic pathway involves dual control by
diaminopimelate and lysine, effected through separate
diaminopimelate- and lysine-sensitive aspartokinase
isoenzymes. The role of the AKI isoenzyme is most likely
to provide a constant level of aspartyl-beta-phosphate
for the biosynthesis of diaminopimelate for
peptidoglycan synthesis and dipicolinate during
sporulation. The B. subtilis 168 AKII is induced by
methionine, and repressed and inhibited by lysine. In
Corynebacterium glutamicum and other various
Gram-positive bacteria, the DAP-lysine pathway is
feedback regulated by the concerted action of lysine and
threonine. Also included in this CD are the
aspartokinases of the extreme thermophile, Thermus
thermophilus HB27, the Gram-negative obligate
methylotroph, Methylophilus methylotrophus AS1, and
those single aspartokinase isoenzyme types found in
Pseudomonas, C. glutamicum, and Amycolatopsis
lactamdurans. The B. subtilis AKI is tetrameric
consisting of two alpha and two beta subunits; the alpha
(43 kD) and beta (17 kD) subunit formed by two in-phase
overlapping genes. The alpha subunit contains the AK
catalytic domain and two ACT domains. The beta subunit
contains two ACT domains. The B. subtilis 168 AKII
aspartokinase is also described as tetrameric consisting
of two alpha and two beta subunits. Some archeal
aspartokinases in this group lack recognizable ACT
domains.
Length = 239
Score = 64.1 bits (157), Expect = 3e-11
Identities = 39/129 (30%), Positives = 61/129 (47%), Gaps = 22/129 (17%)
Query: 537 IKYLEEGKVVIFAG--GI-GNPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNS 587
++ LEEG VV+ AG G+ + TT DTTA AA +KA+ T VDG+Y +
Sbjct: 120 LEALEEGDVVVVAGFQGVNEDGEITTLGRGGSDTTAVALAAALKADRCEIYTDVDGVYTA 179
Query: 588 DPNKCLSAIIYKKITFDEVI---SKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
DP A I++DE++ S +++ + + +P+RV S
Sbjct: 180 DPRIVPKARKLDVISYDEMLEMASLGAKVLHPRSVELAKKYNVPLRVRSSFS-------- 231
Query: 645 EGKNEGTLV 653
+N GTL+
Sbjct: 232 --ENPGTLI 238
>gnl|CDD|239794 cd04261, AAK_AKii-LysC-BS, AAK_AKii-LysC-BS: Amino Acid Kinase
Superfamily (AAK), AKii; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the
lysine-sensitive aspartokinase isoenzyme AKII of
Bacillus subtilis 168, and the lysine plus
threonine-sensitive aspartokinase of Corynebacterium
glutamicum, and related sequences. In B. subtilis 168,
the regulation of the diaminopimelate (Dap)-lysine
biosynthetic pathway involves dual control by Dap and
lysine, effected through separate Dap- and
lysine-sensitive aspartokinase isoenzymes. The B.
subtilis 168 AKII is induced by methionine, and
repressed and inhibited by lysine. Although
Corynebacterium glutamicum is known to contain a single
aspartokinase isoenzyme type, both the succinylase and
dehydrogenase variant pathways of DAP-lysine synthesis
operate simultaneously in this organism. In this
organism and other various Gram-positive bacteria, the
DAP-lysine pathway is feedback regulated by the
concerted action of lysine and theronine. Also included
in this CD are the aspartokinases of the extreme
thermophile, Thermus thermophilus HB27, the
Gram-negative obligate methylotroph, Methylophilus
methylotrophus AS1, and those single aspartokinases
found in Pseudomons, C. glutamicum, and Amycolatopsis
lactamdurans. B. subtilis 168 AKII, and the C.
glutamicum, Streptomyces clavuligerus and A.
lactamdurans aspartokinases are described as tetramers
consisting of two alpha and two beta subunits; the alpha
(44 kD) and beta (18 kD) subunits formed by two in-phase
overlapping polypeptides.
Length = 239
Score = 60.6 bits (148), Expect = 4e-10
Identities = 38/129 (29%), Positives = 59/129 (45%), Gaps = 22/129 (17%)
Query: 537 IKYLEEGKVVIFAG--GI-GNPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNS 587
+ LEEG VVI AG GI + TT DT+A AA + A+ T VDG+Y +
Sbjct: 120 RELLEEGDVVIVAGFQGINEDGDITTLGRGGSDTSAVALAAALGADRCEIYTDVDGVYTA 179
Query: 588 DPNKCLSAIIYKKITFDEVI---SKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
DP A +I++DE++ S +++ + + +P+RV S
Sbjct: 180 DPRIVPKARKLDEISYDEMLEMASLGAKVLHPRSVELAKKYGVPLRVLSSFS-------- 231
Query: 645 EGKNEGTLV 653
+ GTL+
Sbjct: 232 --EEPGTLI 238
>gnl|CDD|188101 TIGR01012, Sa_S2_E_A, ribosomal protein Sa(cytosolic)/S2(archaeal).
This model describes the ribosomal protein of the
cytosol and of Archaea, homologous to S2 of bacteria. It
is designated typically as Sa in eukaryotes and Sa or S2
in the archaea. TIGR01011 describes the related protein
of organelles and bacteria [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 196
Score = 57.8 bits (140), Expect = 2e-09
Identities = 43/208 (20%), Positives = 78/208 (37%), Gaps = 51/208 (24%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNK-IHIINLEKTLYMYEKAIRYIYQLGFSK 63
+ L AGVH G Q + M +I+ R+ +++++L KT A +++ +
Sbjct: 6 VDMYLAAGVHIGTQNK--TFDMEKFIYKVRSDGLYVLDLRKTDERLRVAAKFLVR--IEP 61
Query: 64 GTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNG 123
+L V + + + A G I R+ G TN K
Sbjct: 62 QDILVVSARIYGQKPVLKFAKYTGARAIAGRFTPGTFTN--------PMQKS-------- 105
Query: 124 SIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPII 183
+R+ P+ + + D AV EA ++ IPI+
Sbjct: 106 -------------FRE-----------------PEVVVVTDPRADHQAVKEASEVGIPIV 135
Query: 184 GVVDTNHSPDGINYVIPGNDDSAKSIAL 211
+ DT++ ++ VIP N+ +S+AL
Sbjct: 136 ALCDTDNPLRYVDLVIPTNNKGRRSLAL 163
>gnl|CDD|233076 TIGR00657, asp_kinases, aspartate kinase. Aspartate kinase
catalyzes a first step in the biosynthesis from Asp of
Lys (and its precursor diaminopimelate), Met, and Thr.
In E. coli, a distinct isozyme is inhibited by each of
the three amino acid products. The Met-sensitive (I) and
Thr-sensitive (II) forms are bifunctional enzymes fused
to homoserine dehydrogenases and form homotetramers,
while the Lys-sensitive form (III) is a monofunctional
homodimer.The Lys-sensitive enzyme of Bacillus subtilis
resembles the E. coli form but is an alpha 2/beta 2
heterotetramer, where the beta subunit is translated
from an in-phase alternative initiator at Met-246. This
may be a feature of a number of closely related forms,
including a paralog from B. subtilis [Amino acid
biosynthesis, Aspartate family].
Length = 441
Score = 55.8 bits (135), Expect = 5e-08
Identities = 35/108 (32%), Positives = 49/108 (45%), Gaps = 12/108 (11%)
Query: 538 KYLEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSD 588
LEEG + + AG G TT D TAAL AA +KA+ T VDGIY +D
Sbjct: 163 PLLEEGIIPVVAGFQGATEKGETTTLGRGGSDYTAALLAAALKADECEIYTDVDGIYTTD 222
Query: 589 PNKCLSAIIYKKITFDE---VISKKLEIMDSTAFSFCRDQKLPIRVFS 633
P A +I+++E + S +++ K+PI V S
Sbjct: 223 PRIVPDARRIDEISYEEMLELASFGAKVLHPRTLEPAMRAKIPIVVKS 270
>gnl|CDD|235201 PRK04020, rps2P, 30S ribosomal protein S2; Provisional.
Length = 204
Score = 53.3 bits (129), Expect = 6e-08
Identities = 19/55 (34%), Positives = 33/55 (60%)
Query: 157 PDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
PD + + D AV EAI++ IP++ + DT++ ++ VIP N+ K++AL
Sbjct: 115 PDVVVVTDPRGDAQAVKEAIEVGIPVVALCDTDNLTSNVDLVIPTNNKGRKALAL 169
>gnl|CDD|233075 TIGR00656, asp_kin_monofn, aspartate kinase, monofunctional class.
This model describes a subclass of aspartate kinases.
These are mostly Lys-sensitive and not fused to
homoserine dehydrogenase, unlike some Thr-sensitive and
Met-sensitive forms. Homoserine dehydrogenase is part of
Thr and Met but not Lys biosynthetic pathways. Aspartate
kinase catalyzes a first step in the biosynthesis from
Asp of Lys (and its precursor diaminopimelate), Met, and
Thr. In E. coli, a distinct isozyme is inhibited by each
of the three amino acid products. The Met-sensitive (I)
and Thr-sensitive (II) forms are bifunctional enzymes
fused to homoserine dehydrogenases and form
homotetramers, while the Lys-sensitive form (III) is a
monofunctional homodimer. The Lys-sensitive enzyme of
Bacillus subtilis resembles the E. coli form but is an
alpha 2/beta 2 heterotetramer, where the beta subunit is
translated from an in-phase alternative initiator at
Met-246. The protein slr0657 from Synechocystis PCC6803
is extended by a duplication of the C-terminal region
corresponding to the beta chain. Incorporation of a
second copy of the C-terminal domain may be quite common
in this subgroup of aspartokinases [Amino acid
biosynthesis, Aspartate family].
Length = 401
Score = 54.7 bits (132), Expect = 1e-07
Identities = 33/106 (31%), Positives = 51/106 (48%), Gaps = 12/106 (11%)
Query: 540 LEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPN 590
LEEG +V+ AG G + TT D TAAL AA +KA+ + T V G+Y +DP
Sbjct: 126 LEEGIIVVVAGFQGATEKGYTTTLGRGGSDYTAALLAAALKADRVDIYTDVPGVYTTDPR 185
Query: 591 KCLSAIIYKKITFDE---VISKKLEIMDSTAFSFCRDQKLPIRVFS 633
+A KI+++E + + +++ +PI V S
Sbjct: 186 VVEAAKRIDKISYEEALELATFGAKVLHPRTVEPAMRSGVPIEVRS 231
>gnl|CDD|223601 COG0527, LysC, Aspartokinases [Amino acid transport and
metabolism].
Length = 447
Score = 53.8 bits (130), Expect = 2e-07
Identities = 37/161 (22%), Positives = 63/161 (39%), Gaps = 30/161 (18%)
Query: 537 IKYLEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNS 587
++ LEEGKV + AG G + TT D +AA AA + A+ + T VDG+Y +
Sbjct: 168 LRLLEEGKVPVVAGFQGINEDGETTTLGRGGSDYSAAALAAALGADEVEIWTDVDGVYTA 227
Query: 588 DPNKCLSAIIYKKITFDEVI------SKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALK 641
DP A + +I+++E + +K L A +P+R+ K
Sbjct: 228 DPRIVPDARLLPEISYEEALELAYLGAKVLHP---RAVEPAMRSGIPLRI---------K 275
Query: 642 RVIEGKNEGTLVYEIYIM---IISDIKKNTKQKMLNTIKIL 679
GTL+ ++ I + ++
Sbjct: 276 NTFNPDAPGTLITAETESDEPVVKGIALDDNVALITVSGPG 316
>gnl|CDD|239767 cd04234, AAK_AK, AAK_AK: Amino Acid Kinase Superfamily (AAK),
Aspartokinase (AK); this CD includes the N-terminal
catalytic domain of aspartokinase
(4-L-aspartate-4-phosphotransferase;). AK is the first
enzyme in the biosynthetic pathway of the aspartate
family of amino acids (lysine, threonine, methionine,
and isoleucine) and the bacterial cell wall component,
meso-diaminopimelate. It also catalyzes the conversion
of aspartate and ATP to aspartylphosphate and ADP. One
mechanism for the regulation of this pathway is by the
production of several isoenzymes of aspartokinase with
different repressors and allosteric inhibitors. Pairs of
ACT domains are proposed to specifically bind amino
acids leading to allosteric regulation of the enzyme. In
Escherichia coli, three different aspartokinase
isoenzymes are regulated specifically by lysine,
methionine, and threonine. AK-HSDHI (ThrA) and AK-HSDHII
(MetL) are bifunctional enzymes that consist of an
N-terminal AK and a C-terminal homoserine dehydrogenase
(HSDH). ThrA and MetL are involved in threonine and
methionine biosynthesis, respectively. The third
isoenzyme, AKIII (LysC), is monofunctional and is
involved in lysine synthesis. The three Bacillus
subtilis isoenzymes, AKI (DapG), AKII (LysC), and AKIII
(YclM), are feedback-inhibited by meso-diaminopimelate,
lysine, and lysine plus threonine, respectively. The E.
coli lysine-sensitive AK is described as a homodimer,
whereas, the B. subtilis lysine-sensitive AK is
described as a heterodimeric complex of alpha- and beta-
subunits that are formed from two in-frame overlapping
genes. A single AK enzyme type has been described in
Pseudomonas, Amycolatopsis, and Corynebacterium. The
fungal aspartate pathway is regulated at the AK step,
with L-Thr being an allosteric inhibitor of the
Saccharomyces cerevisiae AK (Hom3). At least two
distinct AK isoenzymes can occur in higher plants, one
is a monofunctional lysine-sensitive isoenzyme, which is
involved in the overall regulation of the pathway and
can be synergistically inhibited by
S-adenosylmethionine. The other isoenzyme is a
bifunctional, threonine-sensitive AK-HSDH protein. Also
included in this CD is the catalytic domain of the
Methylomicrobium alcaliphilum ectoine AK, the first
enzyme of the ectoine biosynthetic pathway, found in
this bacterium, and several other
halophilic/halotolerant bacteria.
Length = 227
Score = 50.5 bits (122), Expect = 7e-07
Identities = 33/105 (31%), Positives = 50/105 (47%), Gaps = 12/105 (11%)
Query: 541 EEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPNK 591
E GKV + G IG + TT D +AA AA + A+ + T VDGIY +DP
Sbjct: 111 EIGKVPVVTGFIGRNEDGEITTLGRGGSDYSAAALAAALGADEVEIWTDVDGIYTADPRI 170
Query: 592 CLSAIIYKKITFDEVI---SKKLEIMDSTAFSFCRDQKLPIRVFS 633
A + +I++DE + +++ A R +PIRV +
Sbjct: 171 VPEARLIPEISYDEALELAYFGAKVLHPRAVEPARKANIPIRVKN 215
>gnl|CDD|239793 cd04260, AAK_AKi-DapG-BS, AAK_AKi-DapG-BS: Amino Acid Kinase
Superfamily (AAK), AKi-DapG; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
diaminopimelate-sensitive aspartokinase isoenzyme AKI
(DapG), a monofunctional class enzyme found in Bacilli
(Bacillus subtilis 168), Clostridia, and Actinobacteria
bacterial species. In Bacillus subtilis, the regulation
of the diaminopimelate-lysine biosynthetic pathway
involves dual control by diaminopimelate and lysine,
effected through separate diaminopimelate- and
lysine-sensitive aspartokinase isoenzymes. AKI activity
is invariant during the exponential and stationary
phases of growth and is not altered by addition of amino
acids to the growth medium. The role of this isoenzyme
is most likely to provide a constant level of
aspartyl-beta-phosphate for the biosynthesis of
diaminopimelate for peptidoglycan synthesis and
dipicolinate during sporulation. The B. subtilis AKI is
tetrameric consisting of two alpha and two beta
subunits; the alpha (43 kD) and beta (17 kD) subunit
formed by two in-phase overlapping genes. The alpha
subunit contains the AK catalytic domain and two ACT
domains. The beta subunit contains two ACT domains.
Length = 244
Score = 50.1 bits (120), Expect = 1e-06
Identities = 36/126 (28%), Positives = 60/126 (47%), Gaps = 18/126 (14%)
Query: 499 IINSLALFDILNKSGIISHVMSA-----ISIEKFLESYI----PLNAIKYLEEGKVVIFA 549
II+++ L L G+ + ++ ++ + + + I P + L+EG VV+ A
Sbjct: 78 IISAVVLTSTLRAQGLKAVALTGAQAGILTDDNYSNAKIIKVNPKKILSALKEGDVVVVA 137
Query: 550 GGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKK 600
G G + TT DTTAA A + AE + T VDGI +DP +A I
Sbjct: 138 GFQGVTEDGEVTTLGRGGSDTTAAALGAALNAEYVEIYTDVDGIMTADPRVVPNARILDV 197
Query: 601 ITFDEV 606
++++EV
Sbjct: 198 VSYNEV 203
>gnl|CDD|236188 PRK08210, PRK08210, aspartate kinase I; Reviewed.
Length = 403
Score = 50.6 bits (122), Expect = 2e-06
Identities = 41/126 (32%), Positives = 64/126 (50%), Gaps = 18/126 (14%)
Query: 499 IINSLALFDILNKSGIISHVMSA-----ISIEKFLESYI----PLNAIKYLEEGKVVIFA 549
II+S+ ++LN++GI + ++ I+ + F + I P ++ LEEG VV+ A
Sbjct: 80 IISSVVFSNMLNENGIKAVALTGGQAGIITDDNFTNAKIIEVNPDRILEALEEGDVVVVA 139
Query: 550 GGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKK 600
G G N TT DTTAA +KAE + T VDGI +DP A +
Sbjct: 140 GFQGVTENGDITTLGRGGSDTTAAALGVALKAEYVDIYTDVDGIMTADPRIVEDARLLDV 199
Query: 601 ITFDEV 606
++++EV
Sbjct: 200 VSYNEV 205
>gnl|CDD|235843 PRK06635, PRK06635, aspartate kinase; Reviewed.
Length = 404
Score = 48.6 bits (117), Expect = 1e-05
Identities = 42/136 (30%), Positives = 61/136 (44%), Gaps = 38/136 (27%)
Query: 538 KYLEEGKVVIFAG--GI---GNPFFTT------DTTAALRAAEIKA---EIILKATKVDG 583
+ L+EG VV+ AG G+ G TT DTTA AA +KA EI T VDG
Sbjct: 123 EALDEGDVVVVAGFQGVDEDGE--ITTLGRGGSDTTAVALAAALKADECEIY---TDVDG 177
Query: 584 IYNSDPNKCLSAIIYKKITFDEVI------SKKLEIMDSTAFSFCRDQKLPIRVFSIIKS 637
+Y +DP A KI+++E++ +K L + + + +P+RV S
Sbjct: 178 VYTTDPRIVPKARKLDKISYEEMLELASLGAKVLHP---RSVEYAKKYNVPLRVRSSFSD 234
Query: 638 GALKRVIEGKNEGTLV 653
N GTL+
Sbjct: 235 ----------NPGTLI 240
>gnl|CDD|239791 cd04258, AAK_AKiii-LysC-EC, AAK_AKiii-LysC-EC: Amino Acid Kinase
Superfamily (AAK), AKiii-LysC-EC: this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is
a monofunctional class enzyme (LysC) found in some
bacteria such as E. coli. Aspartokinase is the first
enzyme in the aspartate metabolic pathway and catalyzes
the conversion of aspartate and ATP to aspartylphosphate
and ADP. In E. coli, LysC is reported to be a homodimer
of 50 kD subunits.
Length = 292
Score = 47.7 bits (114), Expect = 1e-05
Identities = 30/78 (38%), Positives = 39/78 (50%), Gaps = 9/78 (11%)
Query: 537 IKYLEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNS 587
+K L G VV+ G IG TT D +AAL A + AE + T V GIY +
Sbjct: 172 LKPLLAGTVVVTQGFIGSTEKGRTTTLGRGGSDYSAALLAEALHAEELQIWTDVAGIYTT 231
Query: 588 DPNKCLSAIIYKKITFDE 605
DP C +A K+I+F E
Sbjct: 232 DPRICPAARAIKEISFAE 249
>gnl|CDD|239776 cd04243, AAK_AK-HSDH-like, AAK_AK-HSDH-like: Amino Acid Kinase
Superfamily (AAK), AK-HSDH-like; this family includes
the N-terminal catalytic domain of aspartokinase (AK) of
the bifunctional enzyme AK- homoserine dehydrogenase
(HSDH). These aspartokinases are found in such bacteria
as E. coli (AKI-HSDHI, ThrA and AKII-HSDHII, MetL) and
in higher plants (Z. mays AK-HSDH). AK and HSDH are the
first and third enzymes in the biosynthetic pathway of
the aspartate family of amino acids. AK catalyzes the
phosphorylation of Asp to P-aspartyl phosphate. HSDH
catalyzes the NADPH-dependent conversion of Asp
3-semialdehyde to homoserine. ThrA and MetL are involved
in threonine and methionine biosynthesis, respectively.
In E. coli, ThrA is subject to allosteric regulation by
the end product L-threonine and the native enzyme is
reported to be tetrameric. As with bacteria, plant AK
and HSDH are feedback inhibited by pathway end products.
Maize AK-HSDH is a Thr-sensitive 180-kD enzyme.
Arabidopsis AK-HSDH is an alanine-activated,
threonine-sensitive enzyme whose ACT domains, located
C-terminal to the AK catalytic domain, were shown to be
involved in allosteric activation. Also included in this
CD is the catalytic domain of the aspartokinase (AK) of
the lysine-sensitive aspartokinase isoenzyme AKIII, a
monofunctional class enzyme (LysC) found in some
bacteria such as E. coli. In E. coli, LysC is reported
to be a homodimer of 50 kD subunits. Also included in
this CD is the catalytic domain of aspartokinase (AK)
of the bifunctional enzyme AK - DAP decarboxylase
(DapDC) found in some bacteria. DapDC, which is the lysA
gene product, catalyzes the decarboxylation of DAP to
lysine.
Length = 293
Score = 44.5 bits (106), Expect = 1e-04
Identities = 29/74 (39%), Positives = 40/74 (54%), Gaps = 9/74 (12%)
Query: 541 EEGKVVIFAGGIG-NPFFTT--------DTTAALRAAEIKAEIILKATKVDGIYNSDPNK 591
E GKVV+ G I N T D +AAL AA + AE + T VDG+Y +DP K
Sbjct: 177 EHGKVVVTQGFIASNEDGETTTLGRGGSDYSAALLAALLDAEEVEIWTDVDGVYTADPRK 236
Query: 592 CLSAIIYKKITFDE 605
A + K++++DE
Sbjct: 237 VPDARLLKELSYDE 250
>gnl|CDD|236018 PRK07431, PRK07431, aspartate kinase; Provisional.
Length = 587
Score = 43.8 bits (104), Expect = 4e-04
Identities = 33/114 (28%), Positives = 51/114 (44%), Gaps = 22/114 (19%)
Query: 538 KYLEEGKVVIFAG--GIGNPFF---TT------DTTAALRAAEIKAEIILKATKVDGIYN 586
++L+ GKVV+ AG GI TT DT+A AA + A+ T V G+
Sbjct: 123 RHLDAGKVVVVAGFQGISLSSNLEITTLGRGGSDTSAVALAAALGADACEIYTDVPGVLT 182
Query: 587 SDPNKCLSAIIYKKITFDEVISKKLE-------IMDSTAFSFCRDQKLPIRVFS 633
+DP A + +I+ DE+ LE ++ A R+ +P+ V S
Sbjct: 183 TDPRLVPEAQLMDEISCDEM----LELASLGASVLHPRAVEIARNYGVPLVVRS 232
>gnl|CDD|236376 PRK09084, PRK09084, aspartate kinase III; Validated.
Length = 448
Score = 42.5 bits (101), Expect = 7e-04
Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 537 IKYLEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNS 587
+ L VV+ G IG TT D +AAL A + A + T V GIY +
Sbjct: 168 LLPLLAEGVVVTQGFIGSDEKGRTTTLGRGGSDYSAALLAEALNASRVEIWTDVPGIYTT 227
Query: 588 DPNKCLSAIIYKKITFDE 605
DP +A +I+F+E
Sbjct: 228 DPRIVPAAKRIDEISFEE 245
>gnl|CDD|224524 COG1608, COG1608, Predicted archaeal kinase [General function
prediction only].
Length = 252
Score = 41.2 bits (97), Expect = 0.001
Identities = 45/168 (26%), Positives = 68/168 (40%), Gaps = 26/168 (15%)
Query: 507 DILNKSGI--ISHVMSAISIEKFLESYIPLNAIK-YLEEGKV------VIFAGGIGNPFF 557
D L +G+ +S V + S Y L AIK LE+G V V+ G
Sbjct: 88 DALLDAGVRAVSVVPISFSTFNGRILYTYLEAIKDALEKGFVPVLYGDVVPDDDNGYEII 147
Query: 558 TTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEV----------- 606
+ D A E+K + ++ T VDG+Y+ DP K A + +I
Sbjct: 148 SGDDIVLHLAKELKPDRVIFLTDVDGVYDRDPGKVPDARLLSEIEGRVALGGSGGTDVTG 207
Query: 607 -ISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
I+KKLE R K + +F+ K + R + G+N GT +
Sbjct: 208 GIAKKLE----ALLEIARYGK-EVYIFNGNKPENIYRALRGENVGTRI 250
>gnl|CDD|239788 cd04255, AAK_UMPK-MosAB, AAK_UMPK-MosAB: This CD includes the alpha
and beta subunits of the Mo storage protein (MosA and
MosB) which are related to uridine monophosphate kinase
(UMPK) enzymes that catalyze the phosphorylation of UMP
by ATP, yielding UDP, and playing a key role in
pyrimidine nucleotide biosynthesis. The Mo storage
protein from the nitrogen-fixing bacterium, Azotobacter
vinelandii, is characterized as an alpha4-beta4 octamer
containing a polynuclear molybdenum-oxide cluster which
is ATP-dependent to bind Mo and pH-dependent to release
Mo. These and related bacterial sequences in this CD are
members of the Amino Acid Kinase Superfamily (AAK).
Length = 262
Score = 40.8 bits (96), Expect = 0.001
Identities = 29/132 (21%), Positives = 59/132 (44%), Gaps = 16/132 (12%)
Query: 539 YLEEGKVVIFAG-----------GIGN-PFFTTDTTAALRAAEIKAEIILKATKVDGIYN 586
+L+ G+ + +G G P TD A L A I A ++ DG+Y
Sbjct: 131 FLKAGRAPVISGMPPYGLWEHPAEEGRIPPHRTDVGAFLLAEVIGARNLIFVKDEDGLYT 190
Query: 587 SDPNKCLSAIIYKKITFDEVISKKLE--IMDSTAFSFCRDQKL--PIRVFSIIKSGALKR 642
+DP K A +I+ E++ K L+ +++ ++ + +++ + + G L R
Sbjct: 191 ADPKKNKKAEFIPEISAAELLKKDLDDLVLERPVLDLLQNARHVKEVQIVNGLVPGNLTR 250
Query: 643 VIEGKNEGTLVY 654
+ G++ GT++
Sbjct: 251 ALRGEHVGTIIR 262
>gnl|CDD|240331 PTZ00254, PTZ00254, 40S ribosomal protein SA; Provisional.
Length = 249
Score = 40.0 bits (94), Expect = 0.003
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 11/57 (19%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNK--IHIINLEKTLYMYEK---AIRYI 56
I++ML H G T+ M Y++ R K +HIINL KT +EK A R I
Sbjct: 15 IKKMLACKCHIG--TKNLENAMKKYVY-KRTKEGVHIINLAKT---WEKLKLAARVI 65
Score = 37.3 bits (87), Expect = 0.022
Identities = 16/41 (39%), Positives = 26/41 (63%)
Query: 171 AVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
A+ EA +NIP+I + DT+ + ++ IP N+ +SIAL
Sbjct: 133 AIREASYVNIPVIALCDTDSPLEYVDIAIPCNNRGKESIAL 173
>gnl|CDD|239777 cd04244, AAK_AK-LysC-like, AAK_AK-LysC-like: Amino Acid Kinase
Superfamily (AAK), AK-LysC-like; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
lysine-sensitive AK isoenzyme found in higher plants.
The lysine-sensitive AK isoenzyme is a monofunctional
protein. It is involved in the overall regulation of the
aspartate pathway and can be synergistically inhibited
by S-adenosylmethionine. Also included in this CD is an
uncharacterized LysC-like AK found in Euryarchaeota and
some bacteria. AK catalyzes the conversion of aspartate
and ATP to aspartylphosphate and ADP.
Length = 298
Score = 40.0 bits (94), Expect = 0.003
Identities = 28/126 (22%), Positives = 52/126 (41%), Gaps = 21/126 (16%)
Query: 540 LEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPN 590
LE+GK+ + G IG + TT D +A + A + A+ I VDG+ +DP
Sbjct: 181 LEDGKIPVVTGFIGATEDGAITTLGRGGSDYSATIIGAALDADEIWIWKDVDGVMTADPR 240
Query: 591 KCLSAIIYKKITFDEVISKKL---EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGK 647
A ++++ E + +++ ++ +P+RV K +
Sbjct: 241 IVPEARTIPRLSYAEAMELAYFGAKVLHPRTVEPAMEKGIPVRV---------KNTFNPE 291
Query: 648 NEGTLV 653
GTL+
Sbjct: 292 APGTLI 297
>gnl|CDD|181563 PRK08841, PRK08841, aspartate kinase; Validated.
Length = 392
Score = 40.1 bits (94), Expect = 0.004
Identities = 36/126 (28%), Positives = 53/126 (42%), Gaps = 22/126 (17%)
Query: 540 LEEGKVVIFAGGIG---NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPN 590
LE+ ++VI AG G N TT DTTA A + A+ T VDG+Y DP
Sbjct: 125 LEQDQIVIVAGFQGRNENGDITTLGRGGSDTTAVALAGALNADECQIFTDVDGVYTCDPR 184
Query: 591 KCLSAIIYKKITF---DEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGK 647
+A I F + + K +++ + +P+RV S + G
Sbjct: 185 VVKNARKLDVIDFPSMEAMARKGAKVLHLPSVQHAWKHSVPLRVLSSFEVG--------- 235
Query: 648 NEGTLV 653
EGTL+
Sbjct: 236 -EGTLI 240
>gnl|CDD|223623 COG0549, ArcC, Carbamate kinase [Amino acid transport and
metabolism].
Length = 312
Score = 38.8 bits (91), Expect = 0.010
Identities = 24/68 (35%), Positives = 32/68 (47%), Gaps = 14/68 (20%)
Query: 532 IPLNAIKYL-EEGKVVIFAGGIGNPFFTT-------------DTTAALRAAEIKAEIILK 577
+ AIK L E G VVI AGG G P D +AL A +I A++++
Sbjct: 172 VEAEAIKALLESGHVVIAAGGGGIPVVEEGAGLQGVEAVIDKDLASALLAEQIDADLLII 231
Query: 578 ATKVDGIY 585
T VD +Y
Sbjct: 232 LTDVDAVY 239
>gnl|CDD|239790 cd04257, AAK_AK-HSDH, AAK_AK-HSDH: Amino Acid Kinase Superfamily
(AAK), AK-HSDH; this CD includes the N-terminal
catalytic domain of aspartokinase (AK) of the
bifunctional enzyme AK - homoserine dehydrogenase
(HSDH). These aspartokinases are found in bacteria (E.
coli AKI-HSDHI, ThrA and E. coli AKII-HSDHII, MetL) and
higher plants (Z. mays AK-HSDH). AK and HSDH are the
first and third enzymes in the biosynthetic pathway of
the aspartate family of amino acids. AK catalyzes the
phosphorylation of Asp to P-aspartyl phosphate. HSDH
catalyzes the NADPH-dependent conversion of Asp
3-semialdehyde to homoserine. ThrA and MetL are involved
in threonine and methionine biosynthesis, respectively.
In E. coli, ThrA is subject to allosteric regulation by
the end product L-threonine and the native enzyme is
reported to be tetrameric. As with bacteria, plant AK
and HSDH are feedback inhibited by pathway end products.
Maize AK-HSDH is a Thr-sensitive 180-kD enzyme.
Arabidopsis AK-HSDH is an alanine-activated,
threonine-sensitive enzyme whose ACT domains, located
C-terminal to the AK catalytic domain, were shown to be
involved in allosteric activation.
Length = 294
Score = 38.3 bits (90), Expect = 0.013
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 560 DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDE 605
D +AA+ AA + A+ + T VDG+Y++DP K A + +++ E
Sbjct: 206 DYSAAILAALLDADQVEIWTDVDGVYSADPRKVKDARLLPSLSYQE 251
>gnl|CDD|239789 cd04256, AAK_P5CS_ProBA, AAK_P5CS_ProBA: Glutamate-5-kinase (G5K)
domain of the bifunctional delta
1-pyrroline-5-carboxylate synthetase (P5CS), composed of
an N-terminal G5K (ProB) and a C-terminal glutamyl 5-
phosphate reductase (G5PR, ProA), the first and second
enzyme catalyzing proline (and, in mammals, ornithine)
biosynthesis. G5K transfers the terminal phosphoryl
group of ATP to the gamma-carboxyl group of glutamate,
and is subject to feedback allosteric inhibition by
proline or ornithine. In plants, proline plays an
important role as an osmoprotectant and, in mammals,
ornithine biosynthesis is crucial for proper ammonia
detoxification, since a G5K mutation has been shown to
cause human hyperammonaemia.
Length = 284
Score = 38.2 bits (89), Expect = 0.014
Identities = 23/102 (22%), Positives = 47/102 (46%), Gaps = 9/102 (8%)
Query: 560 DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIY-------KKITFDEVISKKLE 612
D+ AA A E+KA++++ + VDG+Y+ P + +I+ + ITF
Sbjct: 181 DSLAARLAVELKADLLILLSDVDGLYDGPPGSDDAKLIHTFYPGDQQSITFGTKSRVGTG 240
Query: 613 IMDS--TAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTL 652
M++ A + + + + + + +++EGK GT
Sbjct: 241 GMEAKVKAALWALQGGTSVVITNGMAGDVITKILEGKKVGTF 282
>gnl|CDD|183466 PRK12354, PRK12354, carbamate kinase; Reviewed.
Length = 307
Score = 37.5 bits (88), Expect = 0.020
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 15/65 (23%)
Query: 536 AIKYL-EEGKVVIFAGGIGNPFFTT--------------DTTAALRAAEIKAEIILKATK 580
I++L E+G +VI AGG G P D AAL A ++ A+++L T
Sbjct: 167 PIRWLLEKGHLVICAGGGGIPVVYDADGKLHGVEAVIDKDLAAALLAEQLDADLLLILTD 226
Query: 581 VDGIY 585
VD +Y
Sbjct: 227 VDAVY 231
>gnl|CDD|239775 cd04242, AAK_G5K_ProB, AAK_G5K_ProB: Glutamate-5-kinase (G5K)
catalyzes glutamate-dependent ATP cleavage; G5K
transfers the terminal phosphoryl group of ATP to the
gamma-carboxyl group of glutamate, in the first and
controlling step of proline (and, in mammals, ornithine)
biosynthesis. G5K is subject to feedback allosteric
inhibition by proline or ornithine. In microorganisms
and plants, proline plays an important role as an
osmoprotectant and, in mammals, ornithine biosynthesis
is crucial for proper ammonia detoxification, since a
G5K mutation has been shown to cause human
hyperammonaemia. Microbial G5K generally consists of two
domains: a catalytic G5K domain and one PUA (pseudo
uridine synthases and archaeosine-specific
transglycosylases) domain, and some lack the PUA domain.
G5K requires free Mg for activity, it is tetrameric, and
it aggregates to higher forms in a proline-dependent
way. G5K lacking the PUA domain remains tetrameric,
active, and proline-inhibitable, but the Mg requirement
and the proline-triggered aggregation are greatly
diminished and abolished, respectively, and more proline
is needed for inhibition. Although plant and animal G5Ks
are part of a bifunctional polypeptide, delta
1-pyrroline-5-carboxylate synthetase (P5CS), composed of
an N-terminal G5K (ProB) and a C-terminal glutamyl 5-
phosphate reductase (G5PR; ProA); bacterial and yeast
G5Ks are monofunctional single-polypeptide enzymes. In
this CD, all three domain architectures are present:
G5K, G5K+PUA, and G5K+G5PR.
Length = 251
Score = 37.0 bits (87), Expect = 0.027
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 7/61 (11%)
Query: 560 DTTAALRAAEIKAE--IILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDST 617
D +AL A + A+ I+L + VDG+Y+ +P + A K I E I+ ++E M
Sbjct: 145 DRLSALVAGLVNADLLILL--SDVDGLYDKNPRENPDA---KLIPEVEEITDEIEAMAGG 199
Query: 618 A 618
+
Sbjct: 200 S 200
>gnl|CDD|236250 PRK08373, PRK08373, aspartate kinase; Validated.
Length = 341
Score = 37.0 bits (86), Expect = 0.041
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 9/81 (11%)
Query: 540 LEEGKVVIFAGGIG--NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPNK 591
LE G+V + G IG N F T D +A + A+ +L + V+GIY +DP
Sbjct: 164 LERGRVPVVPGFIGNLNGFRATLGRGGSDYSAVALGVLLNAKAVLIMSDVEGIYTADPKL 223
Query: 592 CLSAIIYKKITFDEV-ISKKL 611
SA + +++DE I+ KL
Sbjct: 224 VPSARLIPYLSYDEALIAAKL 244
>gnl|CDD|202084 pfam01997, Translin, Translin family. Members of this family
include Translin that interacts with DNA and forms a
ring around the DNA. This family also includes human
translin-associated protein X, which was found to
interact with translin with yeast two-hybrid screen.
Length = 187
Score = 35.6 bits (83), Expect = 0.045
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 767 ERREEIVKLIKNITEETKISIRKIRRDSNENLKKLLKN 804
+ REE++K+ ++IT +K +I + R E ++LLK
Sbjct: 2 DAREELIKISRDITRLSKKAIFALHRGDAEEAEELLKE 39
>gnl|CDD|224965 COG2054, COG2054, Uncharacterized archaeal kinase related to
aspartokinases, uridylate kinases [General function
prediction only].
Length = 212
Score = 36.0 bits (83), Expect = 0.051
Identities = 17/40 (42%), Positives = 23/40 (57%)
Query: 558 TTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAII 597
T+D+ + AA+ A ++KAT VDGIY DP L I
Sbjct: 117 TSDSISVWIAAKAGATEVVKATDVDGIYEEDPKGKLVREI 156
>gnl|CDD|239774 cd04241, AAK_FomA-like, AAK_FomA-like: This CD includes a
fosfomycin biosynthetic gene product, FomA, and similar
proteins found in a wide range of organisms. Together,
the fomA and fomB genes in the fosfomycin biosynthetic
gene cluster of Streptomyces wedmorensis confer
high-level fosfomycin resistance. FomA and FomB proteins
converted fosfomycin to fosfomycin monophosphate and
fosfomycin diphosphate in the presence of ATP and a
magnesium ion, indicating that FomA and FomB catalyzed
phosphorylations of fosfomycin and fosfomycin
monophosphate, respectively. FomA and related sequences
in this CD are members of the Amino Acid Kinase
Superfamily (AAK).
Length = 252
Score = 36.1 bits (84), Expect = 0.058
Identities = 50/248 (20%), Positives = 87/248 (35%), Gaps = 40/248 (16%)
Query: 437 KGDAYNINSSIIKNIISEISEIVSCGIELAIVIGGG---NICRGISNKIQNIDRSTADYM 493
K I ++ I E++E + +L +V GGG + +A+
Sbjct: 14 KDRPETIREENLERIARELAEAI--DEKLVLVHGGGSFGHPKAKEYGLPDGDGSFSAE-- 69
Query: 494 GMLATIINSLAL----FDILNKSGIIS---HVMSAISIEKFLESYIPLNAI-KYLEEGKV 545
G+ T L L D L ++G+ + S E L I + L+ G V
Sbjct: 70 GVAETHEAMLELNSIVVDALLEAGVPAVSVPPSSFFVTENGRIVSFDLEVIKELLDRGFV 129
Query: 546 ------VIFAGGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDP--NKCLSAII 597
V+ G G + D A +K E ++ T VDG+Y+ P K + I
Sbjct: 130 PVLHGDVVLDEGGGITILSGDDIVVELAKALKPERVIFLTDVDGVYDKPPPDAKLIPEID 189
Query: 598 YKKITFDEV------------ISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIE 645
+ ++ K+E + A + + + +F+ K L R +
Sbjct: 190 VGSLEDILAALGSAGTDVTGGMAGKIEELLELA-----RRGIEVYIFNGDKPENLYRALL 244
Query: 646 GKNEGTLV 653
G GT +
Sbjct: 245 GNFIGTRI 252
>gnl|CDD|239773 cd04240, AAK_UC, AAK_UC: Uncharacterized (UC) amino acid
kinase-like proteins found mainly in archaea and a few
bacteria. Sequences in this CD are members of the Amino
Acid Kinase (AAK) superfamily.
Length = 203
Score = 35.4 bits (82), Expect = 0.068
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 558 TTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAII 597
T+D+ AA A ++ A+ ++ T VDGIY + + L I
Sbjct: 115 TSDSIAAWLAKKLGAKRLVIVTDVDGIY--EKDGKLVNEI 152
>gnl|CDD|237071 PRK12353, PRK12353, putative amino acid kinase; Reviewed.
Length = 314
Score = 35.9 bits (84), Expect = 0.078
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 14/66 (21%)
Query: 534 LNAIKYL-EEGKVVIFAGGIGNPFFTT-------------DTTAALRAAEIKAEIILKAT 579
+ AIK L + G+VVI AGG G P D +A A + A++++ T
Sbjct: 175 IEAIKTLVDAGQVVIAAGGGGIPVIREGGGLKGVEAVIDKDFASAKLAELVDADLLIILT 234
Query: 580 KVDGIY 585
VD +Y
Sbjct: 235 AVDKVY 240
>gnl|CDD|239792 cd04259, AAK_AK-DapDC, AAK_AK-DapDC: Amino Acid Kinase Superfamily
(AAK), AK-DapDC; this CD includes the N-terminal
catalytic aspartokinase (AK) domain of the bifunctional
enzyme AK - DAP decarboxylase (DapDC) found in some
bacteria. Aspartokinase is the first enzyme in the
aspartate metabolic pathway, catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. DapDC,
which is the lysA gene product, catalyzes the
decarboxylation of DAP to lysine.
Length = 295
Score = 35.6 bits (82), Expect = 0.085
Identities = 19/78 (24%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 559 TDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFD---EVISKKLEIMD 615
+DT+AA AA+++A T V G++ ++P++ A + K++ +D E+ + +++
Sbjct: 206 SDTSAAYFAAKLQAARCEIWTDVPGLFTANPHEVPHARLLKRLDYDEAQEIATMGAKVLH 265
Query: 616 STAFSFCRDQKLPIRVFS 633
R +P+ V S
Sbjct: 266 PRCIPPARRANIPMVVRS 283
>gnl|CDD|215230 PLN02418, PLN02418, delta-1-pyrroline-5-carboxylate synthase.
Length = 718
Score = 35.9 bits (83), Expect = 0.11
Identities = 21/65 (32%), Positives = 36/65 (55%), Gaps = 11/65 (16%)
Query: 549 AGGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIY--------KK 600
+ GI F+ D+ AAL A E+KA++++ + V+G+Y P+ S +I+ +
Sbjct: 170 SSGI---FWDNDSLAALLALELKADLLILLSDVEGLYTGPPSDPSSKLIHTYIKEKHQDE 226
Query: 601 ITFDE 605
ITF E
Sbjct: 227 ITFGE 231
>gnl|CDD|236358 PRK08961, PRK08961, bifunctional aspartate kinase/diaminopimelate
decarboxylase protein; Provisional.
Length = 861
Score = 35.8 bits (83), Expect = 0.11
Identities = 21/94 (22%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Query: 559 TDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFD---EVISKKLEIMD 615
+DT+AA AA++ A + T V G+++++P + A + ++ +D E+ + +++
Sbjct: 215 SDTSAAYFAAKLGASRVEIWTDVPGMFSANPKEVPDARLLTRLDYDEAQEIATTGAKVLH 274
Query: 616 STAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNE 649
+ CRD +P+ + + I+G E
Sbjct: 275 PRSIKPCRDAGIPMAILDTERPDLSGTSIDGDAE 308
>gnl|CDD|181831 PRK09411, PRK09411, carbamate kinase; Reviewed.
Length = 297
Score = 34.4 bits (79), Expect = 0.22
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 11/65 (16%)
Query: 532 IPLNAIKYL-EEGKVVIFAGGIGNPF----------FTTDTTAALRAAEIKAEIILKATK 580
+ AI+ L +EG VVI +GG G P D AAL A +I A+ ++ T
Sbjct: 164 LDSEAIELLLKEGHVVICSGGGGVPVTEDGAGSEAVIDKDLAAALLAEQINADGLVILTD 223
Query: 581 VDGIY 585
D +Y
Sbjct: 224 ADAVY 228
>gnl|CDD|239768 cd04235, AAK_CK, AAK_CK: Carbamate kinase (CK) catalyzes both the
ATP-phosphorylation of carbamate and carbamoyl phosphate
(CP) utilization with the production of ATP from ADP and
CP. Both CK (this CD) and nonhomologous CP synthetase
synthesize carbamoyl phosphate, an essential precursor
of arginine and pyrimidine bases, in the presence of
ATP, bicarbonate, and ammonia. CK is a homodimer of 33
kDa subunits and is a member of the Amino Acid Kinase
Superfamily (AAK).
Length = 308
Score = 34.4 bits (80), Expect = 0.22
Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 14/66 (21%)
Query: 534 LNAIKYL-EEGKVVIFAGGIGNPFFTT-------------DTTAALRAAEIKAEIILKAT 579
+ AIK L + G +VI AGG G P D +AL A EI A++++ T
Sbjct: 171 IEAIKTLVDNGVIVIAAGGGGIPVVREGGGLKGVEAVIDKDLASALLAEEINADLLVILT 230
Query: 580 KVDGIY 585
VD +Y
Sbjct: 231 DVDNVY 236
>gnl|CDD|181856 PRK09436, thrA, bifunctional aspartokinase I/homoserine
dehydrogenase I; Provisional.
Length = 819
Score = 34.7 bits (81), Expect = 0.22
Identities = 27/99 (27%), Positives = 41/99 (41%), Gaps = 17/99 (17%)
Query: 516 SHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGGI-GNPFFTT--------DTTAALR 566
S V A S + S+IP V++ G GN D +AA+
Sbjct: 163 STVDIAESTRRIAASFIP--------ADHVILMPGFTAGNEKGELVTLGRNGSDYSAAIL 214
Query: 567 AAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDE 605
AA + A+ T VDG+Y +DP A + K +++ E
Sbjct: 215 AACLDADCCEIWTDVDGVYTADPRVVPDARLLKSLSYQE 253
>gnl|CDD|130164 TIGR01092, P5CS, delta l-pyrroline-5-carboxylate synthetase. This
protein contains a glutamate 5-kinase (ProB, EC
2.7.2.11) region followed by a gamma-glutamyl phosphate
reductase (ProA, EC 1.2.1.41) region [Amino acid
biosynthesis, Glutamate family].
Length = 715
Score = 34.5 bits (79), Expect = 0.26
Identities = 35/112 (31%), Positives = 53/112 (47%), Gaps = 14/112 (12%)
Query: 556 FFTTDTTAALRAAEIKAEIILKATKVDGIYN---SDPNKCLSAIIYK-----KITFDEVI 607
F+ D+ AAL A E+KA++++ + V+G+Y+ SD + L YK +ITF
Sbjct: 166 FWDNDSLAALLALELKADLLILLSDVEGLYDGPPSDDDSKLIDTFYKEKHQGEITFGT-- 223
Query: 608 SKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGA----LKRVIEGKNEGTLVYE 655
+L TA II SG + +V+EGK GTL +E
Sbjct: 224 KSRLGRGGMTAKVKAAVWAAYGGTPVIIASGTAPKNITKVVEGKKVGTLFHE 275
>gnl|CDD|239780 cd04247, AAK_AK-Hom3, AAK_AK-Hom3: Amino Acid Kinase Superfamily
(AAK), AK-Hom3; this CD includes the N-terminal
catalytic domain of the aspartokinase HOM3, a
monofunctional class enzyme found in Saccharomyces
cerevisiae and other related AK domains. Aspartokinase,
the first enzyme in the aspartate metabolic pathway,
catalyzes the conversion of aspartate and ATP to
aspartylphosphate and ADP, and in fungi, is responsible
for the production of threonine, isoleucine and
methionine. S. cerevisiae has a single aspartokinase
isoenzyme type, which is regulated by feedback,
allosteric inhibition by L-threonine. Recent studies
show that the allosteric transition triggered by binding
of threonine to AK involves a large change in the
conformation of the native hexameric enzyme that is
converted to an inactive one of different shape and
substantially smaller hydrodynamic size.
Length = 306
Score = 33.9 bits (78), Expect = 0.28
Identities = 31/101 (30%), Positives = 49/101 (48%), Gaps = 16/101 (15%)
Query: 559 TDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTA 618
TD AAL A + A+ + +VDGI+ +DP K +A + IT +E + +L S
Sbjct: 215 TDLCAALCAVGLNADELQIWKEVDGIFTADPRKVPTARLLPSITPEE--AAELTYYGSEV 272
Query: 619 F-SFCRDQ----KLPIRVFSIIKSGALKRVIEGKNEGTLVY 654
F +Q ++PIR+ K V + EGT++Y
Sbjct: 273 IHPFTMEQVIKARIPIRI---------KNVENPRGEGTVIY 304
>gnl|CDD|201355 pfam00627, UBA, UBA/TS-N domain. This small domain is composed of
three alpha helices. This family includes the previously
defined UBA and TS-N domains. The UBA-domain (ubiquitin
associated domain) is a novel sequence motif found in
several proteins having connections to ubiquitin and the
ubiquitination pathway. The structure of the UBA domain
consists of a compact three helix bundle. This domain is
found at the N terminus of EF-TS hence the name TS-N.
The structure of EF-TS is known and this domain is
implicated in its interaction with EF-TU. The domain has
been found in non EF-TS proteins such as alpha-NAC and
MJ0280.
Length = 37
Score = 29.3 bits (67), Expect = 0.55
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 222 DAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEIL 258
D + + +LR E KKAL NG + +A E L
Sbjct: 2 DEELIKQLREMG-FSREEAKKALRATNGNVERAVEYL 37
>gnl|CDD|235773 PRK06291, PRK06291, aspartate kinase; Provisional.
Length = 465
Score = 33.0 bits (76), Expect = 0.64
Identities = 32/128 (25%), Positives = 55/128 (42%), Gaps = 25/128 (19%)
Query: 540 LEEGKV-VI--FAGGIGNPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSDPN 590
L+EG + V+ F G TT D +AA+ A + A+ I T VDG+ +DP
Sbjct: 185 LKEGVIPVVTGFIGETEEGIITTLGRGGSDYSAAIIGAALDADEIWIWTDVDGVMTTDPR 244
Query: 591 KCLSAIIYKKITFDEVISKKL-----EIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIE 645
A + KI++ E + +L +++ ++ +P+RV K
Sbjct: 245 IVPEARVIPKISYIEAM--ELSYFGAKVLHPRTIEPAMEKGIPVRV---------KNTFN 293
Query: 646 GKNEGTLV 653
+ GTL+
Sbjct: 294 PEFPGTLI 301
>gnl|CDD|235460 PRK05429, PRK05429, gamma-glutamyl kinase; Provisional.
Length = 372
Score = 32.7 bits (76), Expect = 0.76
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 7/57 (12%)
Query: 560 DTTAALRAAEIKAE--IILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIM 614
DT +AL A ++A+ I+L T VDG+Y +DP K A K I E I+ +LE M
Sbjct: 154 DTLSALVANLVEADLLILL--TDVDGLYTADPRKNPDA---KLIPEVEEITDELEAM 205
>gnl|CDD|236530 PRK09466, metL, bifunctional aspartate kinase II/homoserine
dehydrogenase II; Provisional.
Length = 810
Score = 32.2 bits (74), Expect = 1.3
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 579 TKVDGIYNSDPNKCLSAIIYKKITFDE 605
+ V G+Y++DP K A + + DE
Sbjct: 230 SDVAGVYSADPRKVKDACLLPLLRLDE 256
>gnl|CDD|131133 TIGR02078, AspKin_pair, Pyrococcus aspartate kinase subunit,
putative. This family consists of proteins restricted
to and found as paralogous pairs (typically close
together) in species of Pyrococcus, a hyperthermophilic
archaeal genus. Members are always found close to other
genes of threonine biosynthesis and appear to represent
the Pyrococcal form of aspartate kinase. Alignment to
aspartokinase III from E. coli shows that 300 N-terminal
and 20 C-terminal amino acids are homologous, but the
form in Pyrococcus lacks ~ 100 amino acids in between
[Amino acid biosynthesis, Aspartate family].
Length = 327
Score = 31.7 bits (72), Expect = 1.4
Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 9/84 (10%)
Query: 537 IKYLEEGKVVIFAGGIG--NPFFTT------DTTAALRAAEIKAEIILKATKVDGIYNSD 588
+ LE GK+ + G G N + T D +A + ++++ + V+GI+ +D
Sbjct: 151 YEVLESGKIPVIPGFYGNLNGYRVTLGRGGSDYSAVALGVLLNSKLVAIMSDVEGIFTAD 210
Query: 589 PNKCLSAIIYKKITFDEV-ISKKL 611
P SA + ++++E+ I+ KL
Sbjct: 211 PKLVPSARLIPYLSYEEIKIAAKL 234
>gnl|CDD|239778 cd04245, AAK_AKiii-YclM-BS, AAK_AKiii-YclM-BS: Amino Acid Kinase
Superfamily (AAK), AKiii-YclM-BS; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
lysine plus threonine-sensitive aspartokinase isoenzyme
AKIII, a monofunctional class enzyme found in Bacilli
(Bacillus subtilis YclM) and Clostridia species.
Aspartokinase is the first enzyme in the aspartate
metabolic pathway and catalyzes the conversion of
aspartate and ATP to aspartylphosphate and ADP. In
Bacillus subtilis (BS), YclM is reported to be a single
polypeptide of 50 kD. The Bacillus subtilis 168 AKIII is
induced by lysine and repressed by threonine, and it is
synergistically inhibited by lysine and threonine.
Length = 288
Score = 31.5 bits (72), Expect = 1.5
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 8/68 (11%)
Query: 539 YLEEGKVVIFA-GGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAII 597
Y + G + F+ GG +D T A+ A +A++ T VDGIY ++P +
Sbjct: 185 YSKNGDIKTFSRGG-------SDITGAILARGFQADLYENFTDVDGIYAANPRIVANPKP 237
Query: 598 YKKITFDE 605
++T+ E
Sbjct: 238 ISEMTYRE 245
>gnl|CDD|233585 TIGR01818, ntrC, nitrogen regulation protein NR(I). This model
represents NtrC, a DNA-binding response regulator that
is phosphorylated by NtrB and interacts with sigma-54.
NtrC usually controls the expression of glutamine
synthase, GlnA, and may be called GlnL, GlnG, etc
[Central intermediary metabolism, Nitrogen metabolism,
Regulatory functions, DNA interactions, Signal
transduction, Two-component systems].
Length = 463
Score = 32.0 bits (73), Expect = 1.5
Identities = 16/51 (31%), Positives = 30/51 (58%), Gaps = 5/51 (9%)
Query: 755 NIIYVSIPPLTKERREEIVKLIKNI----TEETKISIRKIRRDSNENLKKL 801
N+I + +PPL +ERRE+I +L ++ E + + + ++ E LK+L
Sbjct: 298 NVIRIHLPPL-RERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQL 347
>gnl|CDD|183535 PRK12454, PRK12454, carbamate kinase-like carbamoyl phosphate
synthetase; Reviewed.
Length = 313
Score = 31.5 bits (72), Expect = 1.6
Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 14/64 (21%)
Query: 536 AIKYL-EEGKVVIFAGGIGNPFFTT-------------DTTAALRAAEIKAEIILKATKV 581
IK L E G +VI +GG G P D + L A E+ A+I + T V
Sbjct: 177 VIKALVENGFIVIASGGGGIPVIEEDGELKGVEAVIDKDLASELLAEELNADIFIILTDV 236
Query: 582 DGIY 585
+ +Y
Sbjct: 237 EKVY 240
>gnl|CDD|236364 PRK09034, PRK09034, aspartate kinase; Reviewed.
Length = 454
Score = 31.7 bits (73), Expect = 1.6
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 18/73 (24%)
Query: 539 YLEEGKVVIFA-GGIGNPFFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAII 597
++G++V F+ GG +D T A+ A +KA++ T VDGIY ++P I+
Sbjct: 185 VTKDGQIVTFSRGG-------SDITGAILARGVKADLYENFTDVDGIYAANPR-----IV 232
Query: 598 Y-----KKITFDE 605
K+IT+ E
Sbjct: 233 KNPKSIKEITYRE 245
>gnl|CDD|130018 TIGR00943, 2a6301s02, monovalent cation:proton antiporter. This
family of proteins constists of bacterial multicomponent
K+:H+ and Na+:H+ antiporters. The best characterized
systems are the PhaABCDEFG system of Rhizobium meliloti
which functions in pH adaptation and as a K+ efflux
system and the MnhABCDEFG system of Staphylococcus
aureus which functions as a Na+:H+ antiporter.This
family is specific for the phaB and mnhB proteins
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 107
Score = 29.7 bits (67), Expect = 1.8
Identities = 13/59 (22%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 508 ILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGKVVIFAGGI-----GNPFFTTDT 561
+L S +I ++ + + +PL+ + + G ++ A G+ G PF T+ T
Sbjct: 17 LLTASSLILITIA--FGIETVRKILPLDPKRLIGIGLLLAIATGVGSWFLGKPFLTSVT 73
>gnl|CDD|232969 TIGR00422, valS, valyl-tRNA synthetase. The valyl-tRNA synthetase
(ValS) is a class I amino acyl-tRNA ligase and is
particularly closely related to the isoleucyl tRNA
synthetase [Protein synthesis, tRNA aminoacylation].
Length = 861
Score = 31.6 bits (72), Expect = 2.4
Identities = 22/135 (16%), Positives = 48/135 (35%), Gaps = 4/135 (2%)
Query: 663 DIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSH 722
+ ++ ++LKE + +R +A + N +K L + +
Sbjct: 713 VDAEFVDEEAEKAFELLKEIIVSIRNLKAESNIPPNAPLKV---LLIYTEAETAERLKLN 769
Query: 723 TISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEE 782
+ I+ + E + + G I + + L + +E+ +L K + +E
Sbjct: 770 AVDIKGAINFSEVEVVIEKPEVTEAVVELVPGFEIIIPVKGL-INKAKELARLQKQLDKE 828
Query: 783 TKISIRKIRRDSNEN 797
K IR + NE
Sbjct: 829 KKEVIRIEGKLENEG 843
>gnl|CDD|237049 PRK12300, leuS, leucyl-tRNA synthetase; Reviewed.
Length = 897
Score = 31.4 bits (72), Expect = 2.8
Identities = 35/179 (19%), Positives = 65/179 (36%), Gaps = 32/179 (17%)
Query: 234 LAPIMECKKALIEANGKLSKAEEILR--IKLGKKILNISNRNAKDGVIAIYISEKVGSLV 291
L E ++ I + + AEE ++ I+ ++IL ++ K I + K L
Sbjct: 738 LEKWPEPDESKI--DEEAELAEEYVKRLIEDIREILKVAKIKPKKVYIYVAPDWKYEVLE 795
Query: 292 EINCETDF------VAKNNEFIKFSKKIAKLITENTPINLDQLNNLKIKNNLLTVDEKCK 345
D + K+ E K K++AKL + +K L E K
Sbjct: 796 IAAENGDVKEAIKELMKDEELRKHGKEVAKLAQK------------IVKEVLKLDKEVRK 843
Query: 346 ELISRIGENIKIRRFKLFKTNNNLISYLHDNKIGVIVEYNGDNESAVKDVAMHIAAMKP 404
++ I E ++ + + + ++GV VE G ++ K +KP
Sbjct: 844 LILKNIDE------EEVLEEAKDFLE----KELGVEVEIYGADDPGKKKKKKKALPLKP 892
>gnl|CDD|237312 PRK13236, PRK13236, nitrogenase reductase; Reviewed.
Length = 296
Score = 30.8 bits (69), Expect = 3.1
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 302 KNNEFIKFSKKIA--KLITENTPINLDQLNNLKIKNNLLTVDEKCKELISRIGENIKI 357
+ NE+ +KKI +T TPI +++L L I+ +L DE E+I + E K+
Sbjct: 239 QGNEYRALAKKIINNDNLTIPTPIEMEELEELLIEFGILESDENHAEIIGKPAEAAKV 296
>gnl|CDD|233112 TIGR00746, arcC, carbamate kinase. In most species, carbamate
kinase works in arginine catabolism and consumes
carbamoyl phosphate to convert ADP into ATP. In the
pathway in Pyrococcus furiosus, the enzyme acts instead
to generate carbamoyl phosphate.The seed alignment for
this model includes experimentally confirmed examples
from a set of phylogenetically distinct species. In a
neighbor-joining tree constructed from an alignment of
candidate carbamate kinases and several acetylglutamate
kinases, the latter group forms a clear outgroup which
roots the tree of carbamate kinase-like proteins. This
analysis suggests that in E. coli, the ArcC paralog YqeA
may be a second isozyme, while the paralog YahI branches
as an outlier and is less likely to be an authentic
carbamate kinase. The homolog from Mycoplasma pneumoniae
likewise branches outside the set containing known
carbamate kinases and also scores below the trusted
cutoff [Energy metabolism, Amino acids and amines].
Length = 309
Score = 30.5 bits (69), Expect = 3.4
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 14/64 (21%)
Query: 536 AIKYL-EEGKVVIFAGGIGNP-------------FFTTDTTAALRAAEIKAEIILKATKV 581
IK L E G +VI +GG G P D + L A E+ A+I++ T V
Sbjct: 173 TIKTLVENGVIVICSGGGGVPVVREGAELKGVEAVIDKDLASELLAEEVNADILMILTDV 232
Query: 582 DGIY 585
D +Y
Sbjct: 233 DAVY 236
>gnl|CDD|183430 PRK12314, PRK12314, gamma-glutamyl kinase; Provisional.
Length = 266
Score = 30.6 bits (70), Expect = 3.5
Identities = 13/59 (22%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 560 DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTA 618
D +A+ A +KA++++ + +DG+Y+ +P A + ++T I++++ + A
Sbjct: 157 DRLSAIVAKLVKADLLIILSDIDGLYDKNPRINPDAKLRSEVTE---ITEEILALAGGA 212
>gnl|CDD|223341 COG0263, ProB, Glutamate 5-kinase [Amino acid transport and
metabolism].
Length = 369
Score = 30.6 bits (70), Expect = 3.7
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 560 DTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYKKITFDEVISKKLEIM 614
DT +AL A + A++++ + +DG+Y+++P A K I E I+ ++E M
Sbjct: 152 DTLSALVAILVGADLLVLLSDIDGLYDANPRTNPDA---KLIPEVEEITPEIEAM 203
>gnl|CDD|212567 cd11694, DHR2_DOCK_D, Dock Homology Region 2, a GEF domain, of
Class D Dedicator of Cytokinesis proteins. DOCK
proteins are atypical guanine nucleotide exchange
factors (GEFs) that lack the conventional Dbl homology
(DH) domain. As GEFs, they activate small GTPases by
exchanging bound GDP for free GTP. They are divided into
four classes (A-D) based on sequence similarity and
domain architecture; class D, also called the Zizimin
subfamily, includes Dock9, 10 and 11. Class D Docks are
specific GEFs for Cdc42. Dock9 plays important roles in
spine formation and dendritic growth. Dock10 and Dock11
are preferentially expressed in lymphocytes. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of class D DOCKs,
which contains the catalytic GEF activity for Cdc42.
Class D DOCKs also contain a Pleckstrin homology (PH)
domain at the N-terminus.
Length = 376
Score = 30.4 bits (69), Expect = 3.8
Identities = 48/161 (29%), Positives = 72/161 (44%), Gaps = 29/161 (18%)
Query: 226 VGELRSKTLAPIMECKK---ALIEANGKLSKAEE-ILRI-KLGKKILNISNRNA------ 274
+GEL K + PI E ++ L + L +A E ++ + + GK++L R A
Sbjct: 64 LGEL-YKLIIPIYEKRRDFEQLADCYRTLHRAYEKVVEVMESGKRLLGTYYRVAFYGQAF 122
Query: 275 ---KDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTPINLDQLNNL 331
+DG IY KV SL EI+ + + KF + KLI ++ +N L+
Sbjct: 123 FEEEDGKEYIYKEPKVTSLSEIS--ERLLKLYGD--KFGSENVKLIQDSGKVNPKDLDPK 178
Query: 332 KIKNNLLTV----DEKCKELISRIGE---NIKIRRFKLFKT 365
+ V DE KEL R E N IRRF +F+T
Sbjct: 179 YAYIQVTHVTPYFDE--KELEDRKTEFERNHNIRRF-VFET 216
>gnl|CDD|162163 TIGR01027, proB, glutamate 5-kinase. Bacterial ProB proteins hit
the full length of this model, but the ProB-like domain
of delta 1-pyrroline-5-carboxylate synthetase does not
hit the C-terminal 100 residues of this model. The noise
cutoff is set low enough to hit delta
1-pyrroline-5-carboxylate synthetase and other partial
matches to this family [Amino acid biosynthesis,
Glutamate family].
Length = 363
Score = 30.4 bits (69), Expect = 3.9
Identities = 13/32 (40%), Positives = 22/32 (68%)
Query: 560 DTTAALRAAEIKAEIILKATKVDGIYNSDPNK 591
DT +AL A + A++++ T VDG+Y++DP
Sbjct: 146 DTLSALVAILVGADLLVLLTDVDGLYDADPRT 177
>gnl|CDD|223351 COG0274, DeoC, Deoxyribose-phosphate aldolase [Nucleotide transport
and metabolism].
Length = 228
Score = 29.9 bits (68), Expect = 4.0
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 530 SYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDTTAALRAAEIKAEIILKATKVD 582
SY+PL A + L+ VV IG P T A++AAE + I A ++D
Sbjct: 46 SYVPL-AKEALKGSTVVRVCTVIGFPLGANTT--AVKAAEAREAIENGADEID 95
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 30.7 bits (70), Expect = 4.5
Identities = 9/27 (33%), Positives = 18/27 (66%)
Query: 769 REEIVKLIKNITEETKISIRKIRRDSN 795
R E+ KL + +E K ++R++R+D+
Sbjct: 748 RAELNKLKAQLKKERKGAMRELRKDNR 774
>gnl|CDD|240438 PTZ00489, PTZ00489, glutamate 5-kinase; Provisional.
Length = 264
Score = 30.0 bits (67), Expect = 4.8
Identities = 14/57 (24%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 556 FFTTDTTAALRAAEIKAEIILKATKVDGIYNSDPNKCLSAIIYK---KITFDEVISK 609
F D +AL A KA++++ + +DG Y +P A I +++ D+++++
Sbjct: 146 FGDNDRLSALVAHHFKADLLVILSDIDGYYTENPRTSTDAKIRSVVHELSPDDLVAE 202
>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 = 29.4 bits (67), Expect = 9.4
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 764 LTKERREEIVKLIKNITEETK---ISIRKIRRDSNENLKKLLKNKILSV 809
L +E REE+ + I + EE + +R++ R++ E L++L + L
Sbjct: 172 LPEEEREELEEKIDELEEELQEILRQLRELEREAREKLRELDREVALFA 220
>gnl|CDD|107262 cd06267, PBP1_LacI_sugar_binding_like, Ligand binding domain of the
LacI tanscriptional regulator family belonging to the
type I periplasmic-binding fold protein superfamily.
Ligand binding domain of the LacI tanscriptional
regulator family belonging to the type I
periplasmic-binding fold protein superfamily. In most
cases, ligands are monosaccharide including lactose,
ribose, fructose, xylose, arabinose, galactose/glucose,
and other sugars. The LacI family of proteins consists
of transcriptional regulators related to the lac
repressor. In this case, the domain sugar binding
changes the DNA binding activity of the repressor
domain.
Length = 264
Score = 29.1 bits (66), Expect = 9.4
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 3/60 (5%)
Query: 158 DAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIA--LYTKG 215
D I + + E L IP++ +VD G++ V N A L G
Sbjct: 57 DGIILAPSRLDDELLEELAALGIPVV-LVDRPLDGLGVDSVGIDNRAGAYLAVEHLIELG 115
>gnl|CDD|227881 COG5594, COG5594, Uncharacterized integral membrane protein
[Function unknown].
Length = 827
Score = 29.3 bits (66), Expect = 9.6
Identities = 23/120 (19%), Positives = 49/120 (40%), Gaps = 3/120 (2%)
Query: 721 SHTISIQPFEKEMSSI--IKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKN 778
S T+ I E+ S +K+ ++ +G + ++ L KER + + KL K
Sbjct: 208 SRTVLISGLPSELRSDEELKELFDKLKVGEIDSDVLCRDLGTLQELYKERDKILKKLEKA 267
Query: 779 ITEETKISIRKIRRDSNENLKKLLKNKILSVDNEYRAQYDIQKLTDKFILEINQLLINKE 838
+ E ++K +N+ KL ++ + +K I ++N+ + K+
Sbjct: 268 LNELLNKLLKKSHLKTNKKSGKLTPSRKKEFEILP-EYVPDKKRPKHRIKKLNKGIFGKK 326
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 29.4 bits (66), Expect = 9.8
Identities = 49/209 (23%), Positives = 86/209 (41%), Gaps = 40/209 (19%)
Query: 641 KRVIEGKNEGTLVYEIYIMIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLD-NI 699
K + +GKN YE ++ D N + K+ N I ILKEN K + + +L +
Sbjct: 770 KDLPDGKN----TYEEFLQYK-DTILNKENKISNDINILKENKKNNQDLLNSYNILIQKL 824
Query: 700 QVKYHEHLTKLLKIANITLFNSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYV 759
+ ++ +L ++ ++++ EKE NE N ++ I+
Sbjct: 825 EAHTEKNDEELKQLLQKFPTEDENLNLKELEKEF--------NENNQIVDNIIK------ 870
Query: 760 SIPPLTKERREEIVKLIKNITEETKISIRKIRRDSN-ENLKKLLKNKI-----LSVDNEY 813
+I + KNI ++I R +SN + ++ LL NKI L +
Sbjct: 871 -----------DIENMNKNINIIKTLNIAINRSNSNKQLVEHLLNNKIDLKNKLEQHMKI 919
Query: 814 RAQYDIQKLTDKFILEINQLLINKEKEIL 842
+I + +K L N +NKEKE +
Sbjct: 920 INTDNIIQKNEKLNLLNN---LNKEKEKI 945
>gnl|CDD|220781 pfam10493, Rod_C, Rough deal protein C-terminal region. Rod, the
Rough deal protein, displays a dynamic intracellular
staining pattern, localising first to kinetochores in
pro-metaphase, but moving to kinetochore microtubules at
metaphase. Early in anaphase the protein is once again
restricted to the kinetochores, where it persists until
the end of telophase. This behaviour is in all respects
similar to that described for ZW10, and indeed the two
proteins function together, localisation of each
depending upon the other. These two proteins are found
at the kinetochore in complex with a third, Zwilch, in
both flies and humans. The C-terminus is the most
conserved part of the protein. During pro-metaphase, the
ZW10-Rod complex, dynein/dynactin, and Mad2 all
accumulate on unattached kinetochores; microtubule
capture leads to Mad2 depletion as it is carried off by
dynein/dynactin; ZW10-Rod complex accumulation
continues, replenishing kinetochore dynein. The
continuing recruitment of the ZW10-Rod complex during
metaphase may serve to maintain adequate dynein/dynactin
complex on kinetochores for assisting chromatid movement
during anaphase. The ZW10-Rod complex acts as a bridge
whose association with Zwint-1 links Mad1 and Mad2,
components that are directly responsible for generating
the diffusible 'wait anaphase' signal, to a structural,
inner kinetochore complex containing Mis12 and
KNL-1AF15q14, the last of which has been proved to be
essential for kinetochore assembly in C. elegans.
Removal of ZW10 or Rod inactivates the mitotic
checkpoint.
Length = 555
Score = 29.4 bits (66), Expect = 9.9
Identities = 23/74 (31%), Positives = 32/74 (43%), Gaps = 15/74 (20%)
Query: 313 IAKLITENTPINLDQLNNLKI--------KNNLLTVDEKCKELISRIGENIKIRRFKLFK 364
I IT P DQ+ L K NL D + +E I +I R++ + K
Sbjct: 115 ILYYITNEAPDGADQVEALYFCLKFAEKWKKNLSG-DPEAREKIEKI-----KRKYPISK 168
Query: 365 TNNNLISY-LHDNK 377
T + LI Y L+D K
Sbjct: 169 TQHLLIQYGLNDEK 182
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
0.319 0.137 0.374
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 43,257,440
Number of extensions: 4515233
Number of successful extensions: 5754
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5670
Number of HSP's successfully gapped: 239
Length of query: 844
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 739
Effective length of database: 6,280,432
Effective search space: 4641239248
Effective search space used: 4641239248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 63 (27.9 bits)