RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14235
(645 letters)
>gnl|CDD|99858 cd06105, ScCit1-2_like, Saccharomyces cerevisiae (Sc) citrate
synthases Cit1-2_like. Citrate synthases (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) with
oxaloacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the citric acid cycle (TCA or Krebs
cycle). Some CS proteins function as 2-methylcitrate
synthase (2MCS). 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and OAA to form
2-methylcitrate and CoA during propionate metabolism.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA. In addition to its CS function, ScCit1 plays
a part in the construction of the TCA cycle metabolon.
Yeast cells deleted for Cit1 are hyper-susceptible to
apoptosis induced by heat and aging stress. ScCit2 is a
peroxisomal CS involved in the glyoxylate cycle; in
addition to having activity with AcCoA, it may have
activity with PrCoA. Chicken and pig heart CS, two
Arabidopsis thaliana (Ath) CSs, CSY4 and -5, and
Aspergillus niger (An) CS also belong to this group. Ath
CSY4 has a mitochondrial targeting sequence; AthCSY5 has
no identifiable targeting sequence. AnCS encoded by the
citA gene has both an N-terminal mitochondrial import
signal and a C-terminal peroxisiomal target sequence; it
is not known if both these signals are functional in
vivo. This group contains proteins which functions
exclusively as either a CS or a 2MCS, as well as those
with relaxed specificity which have dual functions as
both a CS and a 2MCS.
Length = 427
Score = 904 bits (2338), Expect = 0.0
Identities = 348/428 (81%), Positives = 384/428 (89%), Gaps = 1/428 (0%)
Query: 32 LKAVLAAKIPSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGLVCETSVLDPEEGIR 91
LK LA IP EQ R+K FRK +G T VGEVTVDM+YGGMRGIKGLV ETSVLDPEEGIR
Sbjct: 1 LKDRLAELIPKEQARIKKFRKEHGKTVVGEVTVDMVYGGMRGIKGLVWETSVLDPEEGIR 60
Query: 92 FRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVV 151
FRGLSIPECQK+LPKA GGEEPLPEGLFWLL+TG+VP++ QV ALSK WA+RA LPSHVV
Sbjct: 61 FRGLSIPECQKLLPKAPGGEEPLPEGLFWLLLTGEVPTKEQVSALSKEWAARAALPSHVV 120
Query: 152 TMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVV 211
TML+NFP +LHPMSQ SAAITALNSESKFAKAY +G+HKSKYWEYVYEDSMDLIAKLP V
Sbjct: 121 TMLDNFPTNLHPMSQLSAAITALNSESKFAKAYAEGIHKSKYWEYVYEDSMDLIAKLPCV 180
Query: 212 AATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFTELMRLYLTIHSDHEGGNVSA 271
AA IYRN ++GGK I AID+N DWSANF +MLG+ + QFTELMRLYLTIHSDHEGGNVSA
Sbjct: 181 AAKIYRNLYRGGK-IIAIDSNLDWSANFANMLGYTDPQFTELMRLYLTIHSDHEGGNVSA 239
Query: 272 HTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFI 331
HT HLVGSALSDPYLSFAA MNGLAGPLHGLANQEVL+WL KLQ++VG +VS+E+L+E++
Sbjct: 240 HTTHLVGSALSDPYLSFAAAMNGLAGPLHGLANQEVLVWLTKLQKEVGKDVSDEQLREYV 299
Query: 332 WNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIETG 391
W TL SG+VVPGYGHAVLRKTDPRYTCQREFA KHLP+D LFKLVSQ+YK+VPPVL E G
Sbjct: 300 WKTLNSGRVVPGYGHAVLRKTDPRYTCQREFALKHLPNDPLFKLVSQLYKIVPPVLTEQG 359
Query: 392 KVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERPKSL 451
K KNPWPNVDAHSGVLLQYYGL EMNYYTVLFGVSRALGVL+ LIWDRALGLP+ERPKS+
Sbjct: 360 KAKNPWPNVDAHSGVLLQYYGLTEMNYYTVLFGVSRALGVLSQLIWDRALGLPLERPKSV 419
Query: 452 STNDLVKQ 459
ST+ L K
Sbjct: 420 STDGLEKL 427
>gnl|CDD|99857 cd06103, ScCS-like, Saccharomyces cerevisiae (Sc) citrate synthase
(CS)-like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) with oxaloacetate (OAA) to form
citrate and coenzyme A (CoA), the first step in the
citric acid cycle (TCA or Krebs cycle). Some CS proteins
function as 2-methylcitrate synthase (2MCS). 2MCS
catalyzes the condensation of propionyl-coenzyme A
(PrCoA) and OAA to form 2-methylcitrate and CoA during
propionate metabolism. The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). This group includes three S.
cerevisiae CS proteins, ScCit1,-2,-3. ScCit1 is a
nuclear-encoded mitochondrial CS with highly specificity
for AcCoA; in addition to having activity with AcCoA, it
plays a part in the construction of the TCA cycle
metabolon. Yeast cells deleted for Cit1 are
hyper-susceptible to apoptosis induced by heat and aging
stress. ScCit2 is a peroxisomal CS involved in the
glyoxylate cycle; in addition to having activity with
AcCoA, it may have activity with PrCoA. ScCit3 is a
mitochondrial CS and functions in the metabolism of
PrCoA; it is a dual specificity CS and 2MCS, having
similar catalytic efficiency with both AcCoA and PrCoA.
The pattern of expression of the ScCIT3 gene follows
that of the ScCIT1 gene and its expression is increased
in the presence of a ScCIT1 deletion. Included in this
group is the Tetrahymena 14 nm filament protein which
functions as a CS in mitochondria and as a cytoskeletal
component in cytoplasm and Geobacter sulfurreducens
(GSu) CS. GSuCS is dimeric and eukaryotic-like; it lacks
2MCS activity and is inhibited by ATP. In contrast to
eukaryotic and other prokaryotic CSs, GSuCIT is not
stimulated by K+ ions. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS.
Length = 426
Score = 773 bits (1997), Expect = 0.0
Identities = 309/423 (73%), Positives = 366/423 (86%), Gaps = 1/423 (0%)
Query: 32 LKAVLAAKIPSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGLVCETSVLDPEEGIR 91
LK LA IP +Q R+K RK YG+TK+G++TVD + GGMRG+KGLV ETSVLDP+EGIR
Sbjct: 1 LKDKLAELIPKKQARIKELRKKYGNTKLGQITVDQVIGGMRGMKGLVYETSVLDPDEGIR 60
Query: 92 FRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVV 151
FRG +IPECQ++LPKA GG EPLPEGLFWLL+TG+VP+E QV LSK WA RAE+PSHVV
Sbjct: 61 FRGKTIPECQELLPKADGGGEPLPEGLFWLLLTGEVPTEEQVDELSKEWAKRAEVPSHVV 120
Query: 152 TMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDG-VHKSKYWEYVYEDSMDLIAKLPV 210
M++N P +LHPM+Q SAAI AL SESKFAKAY +G ++K+ YWEYVYED+MDLIAKLPV
Sbjct: 121 KMIDNLPRNLHPMTQLSAAILALQSESKFAKAYAEGKINKTTYWEYVYEDAMDLIAKLPV 180
Query: 211 VAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFTELMRLYLTIHSDHEGGNVS 270
VAA IYR ++ G IGAID+ DWSANF MLG+++ +FT+LMRLYLT+HSDHEGGNVS
Sbjct: 181 VAAKIYRRKYRKGGEIGAIDSKLDWSANFAHMLGYEDEEFTDLMRLYLTLHSDHEGGNVS 240
Query: 271 AHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEF 330
AHT HLVGSALSDPYLSF+A +NGLAGPLHGLANQEVL WL K+Q+++G +VS+E+L+++
Sbjct: 241 AHTSHLVGSALSDPYLSFSAALNGLAGPLHGLANQEVLKWLLKMQKELGKDVSDEELEKY 300
Query: 331 IWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIET 390
IW+TL SG+VVPGYGHAVLRKTDPR+TCQREFA KHLPDD LFKLV+Q YK++P VL E
Sbjct: 301 IWDTLNSGRVVPGYGHAVLRKTDPRFTCQREFALKHLPDDPLFKLVAQCYKIIPGVLKEH 360
Query: 391 GKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERPKS 450
GKVKNP+PNVDAHSGVLLQ+YG+ E YYTVLFGVSRALGVLA L+W RALGLPIERPKS
Sbjct: 361 GKVKNPYPNVDAHSGVLLQHYGMTEPQYYTVLFGVSRALGVLAQLVWSRALGLPIERPKS 420
Query: 451 LST 453
+ST
Sbjct: 421 MST 423
>gnl|CDD|130853 TIGR01793, cit_synth_euk, citrate (Si)-synthase, eukaryotic. This
model includes both mitochondrial and peroxisomal forms
of citrate synthase. Citrate synthase is the entry point
to the TCA cycle from acetyl-CoA. Peroxisomal forms,
such as SP:P08679 from yeast (recognized by the
C-terminal targeting motif SKL) act in the glyoxylate
cycle. Eukaryotic homologs excluded by the high trusted
cutoff of this model include a Tetrahymena thermophila
citrate synthase that doubles as a filament protein, a
putative citrate synthase from Plasmodium falciparum (no
TCA cycle), and a methylcitrate synthase from
Aspergillus nidulans.
Length = 427
Score = 762 bits (1970), Expect = 0.0
Identities = 312/428 (72%), Positives = 357/428 (83%), Gaps = 1/428 (0%)
Query: 29 STDLKAVLAAKIPSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGLVCETSVLDPEE 88
DLK L KIP +QE+VK R +G +G +TVDM+YGGMRG+KGLV ETSVLDPEE
Sbjct: 1 DLDLKEQLKEKIPEQQEKVKKLRAEHGKVVLGNITVDMVYGGMRGMKGLVWETSVLDPEE 60
Query: 89 GIRFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPS 148
GIRFRGLSIPECQK+LPKAKGGEEPLPEGL WLL+TG VPSE QV ALS W +RA+LP
Sbjct: 61 GIRFRGLSIPECQKLLPKAKGGEEPLPEGLLWLLLTGKVPSEEQVDALSAEWRARADLPE 120
Query: 149 HVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKL 208
HV ++ P LHPM+QF+ A+ AL ES+FAKAY G+HK+KYWEY YEDSMDLIAKL
Sbjct: 121 HVYKTIDALPVTLHPMAQFATAVMALQVESEFAKAYAKGIHKTKYWEYTYEDSMDLIAKL 180
Query: 209 PVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFTELMRLYLTIHSDHEGGN 268
P VAA IYRN ++ G+ I +ID +KD+SANF MLG+D+ F ELMRLYLTIHSDHEGGN
Sbjct: 181 PTVAAYIYRNMYKDGQSI-SIDDSKDYSANFAHMLGYDSPSFQELMRLYLTIHSDHEGGN 239
Query: 269 VSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLK 328
VSAHT HLVGSALSDPYLSFAA +NGLAGPLHGLANQEVL+WLK + + G+NV++E+LK
Sbjct: 240 VSAHTGHLVGSALSDPYLSFAAALNGLAGPLHGLANQEVLLWLKSVVSECGENVTKEQLK 299
Query: 329 EFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLI 388
++IW TL SG+VVPGYGHAVLRKTDPRY CQREFA KHLPDD LFKLVS +YK+VP +L
Sbjct: 300 DYIWKTLNSGKVVPGYGHAVLRKTDPRYICQREFALKHLPDDPLFKLVSNLYKIVPGILT 359
Query: 389 ETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERP 448
E GKVKNPWPNVDAHSGVLLQYYGL E YYTVLFGVSRALG+L+ LIWDRALGLP+ERP
Sbjct: 360 ELGKVKNPWPNVDAHSGVLLQYYGLTEARYYTVLFGVSRALGILSQLIWDRALGLPLERP 419
Query: 449 KSLSTNDL 456
KS+ST L
Sbjct: 420 KSVSTEWL 427
>gnl|CDD|99859 cd06106, ScCit3_like, Saccharomyces cerevisiae (Sc) 2-methylcitrate
synthase Cit3-like. 2-methylcitrate synthase (2MCS)
catalyzes the condensation of propionyl-coenzyme A
(PrCoA) and oxaloacetate (OAA) to form 2-methylcitrate
and CoA. Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) with OAA to
form citrate and CoA, the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). ScCit3 is mitochondrial and functions
in the metabolism of PrCoA; it is a dual specificity CS
and 2MCS, having similar catalytic efficiency with both
AcCoA and PrCoA. The pattern of expression of the ScCIT3
gene follows that of the major mitochondrial CS gene
(CIT1, not included in this group) and its expression is
increased in the presence of a CIT1 deletion. This group
also contains Aspergillus nidulans 2MCS; a deletion of
the gene encoding this protein results in a strain
unable to grow on propionate. This group contains
proteins which functions exclusively as either a CS or a
2MCS, as well as those with relaxed specificity which
have dual functions as both a CS and a 2MCS.
Length = 428
Score = 608 bits (1569), Expect = 0.0
Identities = 245/428 (57%), Positives = 315/428 (73%), Gaps = 3/428 (0%)
Query: 32 LKAVLAAKIPSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGLVCETSVLDPEEGIR 91
LK L IP+++E++K + YG T VG+V V + GGMRG+K ++ E SVLD EEGIR
Sbjct: 1 LKEALKEVIPAKREQLKKLKAEYGETVVGDVKVSNVLGGMRGLKSMLWEGSVLDAEEGIR 60
Query: 92 FRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVV 151
F G +IPECQK LPKA G E LPE + WLL+TG VP+ Q + LSK A R +LP ++
Sbjct: 61 FHGKTIPECQKELPKAPIGGEMLPESMLWLLLTGKVPTFEQARGLSKELAERGKLPHYIE 120
Query: 152 TMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVV 211
+L++ P LHPM+Q S + ALN +SKFA AY G+ K++YWE EDS++LIA+LP +
Sbjct: 121 KLLDSLPKTLHPMTQLSIGVAALNHDSKFAAAYEKGIKKTEYWEPTLEDSLNLIARLPAL 180
Query: 212 AATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGF-DNHQFTELMRLYLTIHSDHEGGNVS 270
AA IYRN + G G+G ID DWS NFTSMLG+ DN F +L+RLY+ +H DHEGGNVS
Sbjct: 181 AARIYRNVYGEGHGLGKIDPEVDWSYNFTSMLGYGDNLDFVDLLRLYIALHGDHEGGNVS 240
Query: 271 AHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEF 330
AHT HLVGSALSDPYLS++AG+ GLAGPLHGLA QEVL W+ ++Q+ +G +++ ++++
Sbjct: 241 AHTTHLVGSALSDPYLSYSAGLMGLAGPLHGLAAQEVLRWILEMQKNIGSKATDQDIRDY 300
Query: 331 IWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKH--LPDDSLFKLVSQVYKVVPPVLI 388
+W TLKSG+VVPGYGHAVLRK DPR+T EFAQ L +D + +LV ++ ++ P VL
Sbjct: 301 LWKTLKSGRVVPGYGHAVLRKPDPRFTALMEFAQTRPELENDPVVQLVQKLSEIAPGVLT 360
Query: 389 ETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERP 448
E GK KNP+PNVDA SGVL +YG++E YYTV+FGVSRALG L L+WDR LGLPIERP
Sbjct: 361 EHGKTKNPFPNVDAASGVLFYHYGIREFLYYTVIFGVSRALGPLTQLVWDRILGLPIERP 420
Query: 449 KSLSTNDL 456
KSLS L
Sbjct: 421 KSLSLEGL 428
>gnl|CDD|181961 PRK09569, PRK09569, type I citrate synthase; Reviewed.
Length = 437
Score = 608 bits (1570), Expect = 0.0
Identities = 228/429 (53%), Positives = 299/429 (69%), Gaps = 4/429 (0%)
Query: 32 LKAVLAAKIPSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGLVCETSVLDPEEGIR 91
LK L KI + R K +GS + EVT++ GG R I+ LV + S LDP+EGIR
Sbjct: 3 LKETLKQKIEEHRPRTTRLVKEFGSVVIDEVTIEQCIGGARDIRSLVTDISYLDPQEGIR 62
Query: 92 FRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVV 151
FRG +IPE + LPKA G E P E ++ L+TG+VP++ QVQ + W R +P +V+
Sbjct: 63 FRGKTIPETFEALPKAPGSEYPTVESFWYFLLTGEVPTQEQVQEVVAEWKKRQNVPQYVI 122
Query: 152 TMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDG-VHKSKYWEYVYEDSMDLIAKLPV 210
+ P HPM S I A+ ESKFAK YN+G +K WEY+YED+ DL+A++PV
Sbjct: 123 DAIRALPRDSHPMVMLSVGILAMQRESKFAKFYNEGKFNKMDAWEYMYEDASDLVARIPV 182
Query: 211 VAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFTELMRLYLTIHSDHEGGNVS 270
+AA IY ++G K I D D+ ANF M+G + ++ R+Y +HSDHE GNVS
Sbjct: 183 IAAYIYNLKYKGDKQI-PSDPELDYGANFAHMIGQPK-PYKDVARMYFILHSDHESGNVS 240
Query: 271 AHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGD-NVSEEKLKE 329
AHT HLV SALSD Y S++AG+NGLAGPLHGLANQEVL W+++ Q+++G ++E++++
Sbjct: 241 AHTTHLVASALSDAYYSYSAGLNGLAGPLHGLANQEVLGWIQQFQEKLGGEEPTKEQVEQ 300
Query: 330 FIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIE 389
+W+TL +GQV+PGYGHAVLRKTDPRYT QREF KHLPDD LFKLV+ +++V P VL E
Sbjct: 301 ALWDTLNAGQVIPGYGHAVLRKTDPRYTAQREFCLKHLPDDPLFKLVAMIFEVAPGVLTE 360
Query: 390 TGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERPK 449
GK KNPWPNVDA SGV+ YYG+KE ++YTVLFGV RALGV+A++ WDR LG IERPK
Sbjct: 361 HGKTKNPWPNVDAQSGVIQWYYGVKEWDFYTVLFGVGRALGVMANITWDRGLGYAIERPK 420
Query: 450 SLSTNDLVK 458
S++T L K
Sbjct: 421 SVTTEMLEK 429
>gnl|CDD|215250 PLN02456, PLN02456, citrate synthase.
Length = 455
Score = 534 bits (1379), Expect = 0.0
Identities = 176/459 (38%), Positives = 251/459 (54%), Gaps = 42/459 (9%)
Query: 18 SNFLRTFATDASTDLKAVLAAKIPSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGL 77
S L D ++ L+ P + ER+K + G +G TVD G R +
Sbjct: 20 SGSLTIVDNRTGKDYESPLSELGPVQAERLKKIKA--GKDDLGLKTVD---PGYRNTAPV 74
Query: 78 VCETSVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQAL 136
+ E S++D +EGI RFRG I E + P E + +LL+ G++P++ Q+
Sbjct: 75 LSEISLIDGDEGILRFRGYPIEELAEKSPF---------EEVAYLLLYGNLPTKEQLADW 125
Query: 137 SKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSKYWEY 196
+ +P HV+ +++ P+ HPM+Q + + AL++ S A AY G HK K WE
Sbjct: 126 EAELRQHSAVPEHVLDVIDALPHDAHPMTQLVSGVMALSTFSPDANAYLRGQHKYKSWEV 185
Query: 197 VYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGF-------DNHQ 249
ED + LI KLP +AA IYR + G+G D + D++ NF MLG + +
Sbjct: 186 RDEDIVRLIGKLPTLAAAIYRRMY--GRGPVIPDNSLDYAENFLYMLGSLGDRSYKPDPR 243
Query: 250 FTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLI 309
L+ LY IH+DHEGG +A HLVGS+ DPY S AAG+N LAGPLHG AN+ VL
Sbjct: 244 LARLLDLYFIIHADHEGGCSTAAARHLVGSSGVDPYTSVAAGVNALAGPLHGGANEAVLK 303
Query: 310 WLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQ---KH 366
L +++G + E + E++ S +V+PG+GH V + DPR C REFA KH
Sbjct: 304 ML----KEIG---TVENIPEYVEGVKNSKKVLPGFGHRVYKNYDPRAKCIREFALEVFKH 356
Query: 367 LPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVS 426
+ DD LFK+ S + +V +L E KV+ +PNVD +SGVLL+ G E ++TVLF VS
Sbjct: 357 VGDDPLFKVASALEEVA--LLDEYFKVRKLYPNVDFYSGVLLRALGFPE-EFFTVLFAVS 413
Query: 427 RALGVLASLIWDRALGLPIER---PKSLSTNDLVKQYSK 462
RA G L+ WD ALGLP ER PK + T + ++ Y
Sbjct: 414 RAAGYLSQ--WDEALGLPDERIMRPKQVYTGEWLRHYCP 450
>gnl|CDD|99871 cd06118, citrate_synt_like_1, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism.
Length = 358
Score = 381 bits (982), Expect = e-128
Identities = 136/390 (34%), Positives = 203/390 (52%), Gaps = 38/390 (9%)
Query: 69 GGMRGIKGLVCETSVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDV 127
G+ G+K S +D +EGI R+RG I E E+ E + +LL+ G +
Sbjct: 1 PGLEGVKAKETSISYIDGDEGILRYRGYDIEELA---------EKSSFEEVAYLLLYGKL 51
Query: 128 PSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDG 187
P++ ++ K AS LP HVV +L+ P + HPM A++AL S FA
Sbjct: 52 PTKEELAEFKKKLASHRALPEHVVEILDLLPKNAHPMDVLRTAVSALGSFDPFA------ 105
Query: 188 VHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFD- 246
+ K E YE ++ LIAKLP +AA IYRN G I A D + ++ NF ML +
Sbjct: 106 --RDKSPEARYEKAIRLIAKLPTIAANIYRNR--EGLEIIAPDPDLSYAENFLYMLFGEE 161
Query: 247 -NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQ 305
+ + + M L L +H+DHE GN S T +V S LSD Y + AA + L GPLHG AN+
Sbjct: 162 PDPEEAKAMDLALILHADHE-GNASTFTARVVASTLSDMYSAIAAAIAALKGPLHGGANE 220
Query: 306 EVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQK 365
VL K+ ++G + E ++ +IW L + + + G+GH V + DPR +E A++
Sbjct: 221 AVL----KMLLEIG---TPENVEAYIWKKLANKRRIMGFGHRVYKTYDPRAKILKELAEE 273
Query: 366 HLP---DDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVL 422
DD LF++ ++ ++ VL E K +PNVD +SGV+ + G +T L
Sbjct: 274 LAEEKGDDKLFEIAEELEEIALEVLGE----KGIYPNVDFYSGVVYKALGF-PTELFTPL 328
Query: 423 FGVSRALGVLASLIWDRALGLPIERPKSLS 452
F VSRA+G LA +I R + RP++
Sbjct: 329 FAVSRAVGWLAHIIEYRENNQRLIRPRAEY 358
>gnl|CDD|215837 pfam00285, Citrate_synt, Citrate synthase.
Length = 352
Score = 363 bits (933), Expect = e-121
Identities = 126/385 (32%), Positives = 193/385 (50%), Gaps = 39/385 (10%)
Query: 70 GMRGIKGLVCETSVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVP 128
G+ G+ E S +D E+GI R+RG I + + K+ E +LL+ G++P
Sbjct: 1 GLEGVVACETEISYIDGEKGILRYRGYDIEDLAE---KSS-----FEEVA-YLLLYGELP 51
Query: 129 SEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGV 188
+ +++ S A+R ELP V +++ P HPM+ AA++AL +
Sbjct: 52 TAEELEEFSSELAARRELPEDVKEVIDALPKDAHPMAVLRAAVSALAAYDPMLY------ 105
Query: 189 HKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLG--FD 246
+ E V ED++ LIAKLP + A IYR+ G A D + ++ NF ML
Sbjct: 106 --DESPEDVLEDAIRLIAKLPTIVAAIYRHRK--GLPPIAPDPDLSYAENFLYMLFGEEP 161
Query: 247 NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQE 306
+ + + L L +H+DHE N S T +V S LSD Y + +A + L GPLHG AN+
Sbjct: 162 DPEEARALDLALILHADHEL-NASTFTARVVASTLSDLYSAISAAIGALKGPLHGGANEA 220
Query: 307 VLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQ-- 364
VL L+++ S E ++E+I L G+ + G+GH V + DPR ++FA+
Sbjct: 221 VLRMLEEIG-------SPENVEEYIEKALDKGERLMGFGHRVYKTYDPRAKILKKFAREL 273
Query: 365 -KHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLF 423
L DD L ++ ++ +V L E K +PNVD +SGVL G+ +T LF
Sbjct: 274 AAELGDDPLLEIAEKIEEVALEDLKE----KKLYPNVDFYSGVLYYALGIPT-ELFTPLF 328
Query: 424 GVSRALGVLASLIWDRALGLPIERP 448
VSR +G LA +I R + RP
Sbjct: 329 AVSRVVGWLAHIIEQRE-NNKLIRP 352
>gnl|CDD|223449 COG0372, GltA, Citrate synthase [Energy production and conversion].
Length = 390
Score = 331 bits (850), Expect = e-108
Identities = 122/409 (29%), Positives = 195/409 (47%), Gaps = 37/409 (9%)
Query: 60 GEVTVDMMYGGMRGIKGLVCET--SVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPE 116
+V G+ G+ CET S +D + GI R+RG I + E+ E
Sbjct: 9 SDVGRFTYDPGLEGV--AACETAISYIDGDGGILRYRGYDIEDLA---------EKSSFE 57
Query: 117 GLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNS 176
+ +LL+ G++P++A++ A A+R LP V+ +L + P HPM+ A++AL S
Sbjct: 58 EVAYLLLYGELPTKAELAAFFAKLAARRTLPEQVIRLLESLPRDAHPMAVLRTAVSAL-S 116
Query: 177 ESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWS 236
K + E ++ LIAKLP +AA +YR + G+ A D + ++
Sbjct: 117 AFYPDKLDLNDR---------REAALRLIAKLPTIAAAVYRYSR--GEPPIAPDPDLSYA 165
Query: 237 ANFTSMLGFDNHQ---FTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMN 293
NF ML + M L +H+DHE N S T +V S SD Y AAG+
Sbjct: 166 ENFLYMLFGEPPSPPVEARAMDRALILHADHEL-NASTFTARVVASTGSDLYACIAAGIG 224
Query: 294 GLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTD 353
L GPLHG AN+ V+ L +++G S E + ++ L + + G+GH V + D
Sbjct: 225 ALKGPLHGGANEAVMKML----EEIGS--SGESAEAYVRKALDRKERIMGFGHRVYKNYD 278
Query: 354 PRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGL 413
PR +E A+K + KL ++ L + G K +PNVD +SG++ + G+
Sbjct: 279 PRAKVLKELAEKLGKELGDLKLYEIAEELEEIALEDLGFEKKLYPNVDFYSGIVYRALGI 338
Query: 414 KEMNYYTVLFGVSRALGVLASLIWDRALGLPIERPKSLSTNDLVKQYSK 462
+ +T LF ++R +G +A I + G I RP++L T + Y
Sbjct: 339 PT-DMFTPLFAIARTVGWIAHWIEQKEDGNKIIRPRALYTGPEERDYVP 386
>gnl|CDD|99855 cd06101, citrate_synt, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and form
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism. This subgroup includes both
gram-positive and gram-negative bacteria.
Length = 265
Score = 253 bits (649), Expect = 7e-80
Identities = 92/224 (41%), Positives = 131/224 (58%), Gaps = 16/224 (7%)
Query: 234 DWSANFTSMLGFD--NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAG 291
++ NF MLG + + +F + M L L +H+DHEG N S T +VGS LSDPY + AA
Sbjct: 53 SYAENFLYMLGGEEPDPEFAKAMDLALILHADHEG-NASTFTARVVGSTLSDPYSAIAAA 111
Query: 292 MNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRK 351
+ L GPLHG AN+ VL K+ +++G + E + +I L S +V+ G+GH V +K
Sbjct: 112 IAALKGPLHGGANEAVL----KMLEEIGTPKN-EPAEAYIRKKLNSKRVLMGFGHRVYKK 166
Query: 352 TDPRYTCQREFAQKHLP---DDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLL 408
DPR T ++FA+K L D +F+L +++ K+ P VL E K +PNVD +SGVL
Sbjct: 167 YDPRATVLKKFAEKLLKEKGLDPMFELAAELEKIAPEVLYE----KKLYPNVDFYSGVLY 222
Query: 409 QYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERPKSLS 452
+ G +T LF VSRA+G LA LI R G I RP++
Sbjct: 223 KAMGF-PTELFTPLFAVSRAVGWLAHLIEQREDGQRIIRPRAEY 265
Score = 54.6 bits (132), Expect = 4e-08
Identities = 24/64 (37%), Positives = 34/64 (53%), Gaps = 10/64 (15%)
Query: 69 GGMRGIKGLVCETSVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDV 127
G+RG+ L E SV+D +EG R+RG I E E E + +LL+TG++
Sbjct: 1 PGLRGVAALESEISVIDGDEGGLRYRGYPIEELA---------ENSSFEEVAYLLLTGEL 51
Query: 128 PSEA 131
PS A
Sbjct: 52 PSYA 55
>gnl|CDD|99853 cd06099, CS_ACL-C_CCL, Citrate synthase (CS), citryl-CoA lyase
(CCL), the C-terminal portion of the single-subunit type
ATP-citrate lyase (ACL) and the C-terminal portion of
the large subunit of the two-subunit type ACL. CS
catalyzes the condensation of acetyl coenzyme A (AcCoA)
and oxalacetate (OAA) from citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. Some CS proteins function as a
2-methylcitrate synthase (2MCS). 2MCS catalyzes the
condensation of propionyl-CoA (PrCoA) and OAA to form
2-methylcitrate and CoA during propionate metabolism.
CCL cleaves citryl-CoA (CiCoA) to AcCoA and OAA. ACLs
catalyze an ATP- and a CoA- dependant cleavage of
citrate to form AcCoA and OAA; they do this in a
multistep reaction, the final step of which is likely to
involve the cleavage of CiCoA to generate AcCoA and OAA.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate CiCoA, and c) the
hydrolysis of CiCoA to produce citrate and CoA. This
group contains proteins which functions exclusively as
either a CS or a 2MCS, as well as those with relaxed
specificity which have dual functions as both a CS and a
2MCS. There are two types of CSs: type I CS and type II
CSs. Type I CSs are found in eukarya, gram-positive
bacteria, archaea, and in some gram-negative bacteria
and are homodimers with both subunits participating in
the active site. Type II CSs are unique to
gram-negative bacteria and are homohexamers of identical
subunits (approximated as a trimer of dimers). Some type
II CSs are strongly and specifically inhibited by NADH
through an allosteric mechanism. In fungi, yeast,
plants, and animals ACL is cytosolic and generates AcCoA
for lipogenesis. In several groups of autotrophic
prokaryotes and archaea, ACL carries out the
citrate-cleavage reaction of the reductive tricarboxylic
acid (rTCA) cycle. In the family Aquificaceae this
latter reaction in the rTCA cycle is carried out via a
two enzyme system the second enzyme of which is CCL.
Length = 213
Score = 243 bits (622), Expect = 1e-76
Identities = 88/224 (39%), Positives = 128/224 (57%), Gaps = 16/224 (7%)
Query: 234 DWSANFTSMLGFD--NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAG 291
++ NF MLG + + +F M L L +H+DHEG N S T +VGS SDPY + AA
Sbjct: 1 SYAENFLYMLGGEEPDPEFARAMDLALILHADHEG-NASTFTARVVGSTGSDPYSAIAAA 59
Query: 292 MNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRK 351
+ L GPLHG AN+ VL K+ +++G + E + +I L+S +V+ G+GH V +K
Sbjct: 60 IGALKGPLHGGANEAVL----KMLEEIGTPKN-EPAEAYIRKKLESKRVIMGFGHRVYKK 114
Query: 352 TDPRYTCQREFAQKHLP---DDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLL 408
DPR T ++FA++ L DD +F+L +++ K+ VL E K +PNVD +SGVL
Sbjct: 115 YDPRATVLKKFAEELLKEDGDDPMFELAAELEKIAEEVLYE----KKLYPNVDFYSGVLY 170
Query: 409 QYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLPIERPKSLS 452
+ G +T LF V+RA+G LA LI I RP+S
Sbjct: 171 KAMGF-PTELFTPLFAVARAVGWLAHLIEQLEDNFKIIRPRSEY 213
>gnl|CDD|99867 cd06114, EcCS_like, Escherichia coli (Ec) citrate synthase (CS)
GltA_like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate
and coenzyme A (CoA), the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. There are two types of CSs:
type I CS and type II CSs. Type I CSs are found in
eukarya, gram-positive bacteria, archaea, and in some
gram-negative bacteria and are homodimers with both
subunits participating in the active site. Type II CSs
are unique to gram-negative bacteria and are
homohexamers of identical subunits (approximated as a
trimer of dimers). Some type II CSs including EcCS are
strongly and specifically inhibited by NADH through an
allosteric mechanism. Included in this group is an
NADH-insensitive type II Acetobacter acetii CS which has
retained many of the residues used by EcCS for NADH
binding.
Length = 400
Score = 148 bits (375), Expect = 6e-39
Identities = 121/431 (28%), Positives = 197/431 (45%), Gaps = 77/431 (17%)
Query: 60 GEVTVDMMYGGMRGIKGLV-----------CETSV--LDPEEGI-RFRGLSIPECQKVLP 105
GE +D+ +R G+ CE+++ +D E+GI R+RG I + L
Sbjct: 9 GEKVIDI--SSLRKKTGVFTYDPGFMNTASCESAITYIDGEKGILRYRGYPIEQ----LA 62
Query: 106 KAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMS 165
+ E + +LL+ G++P+ Q+Q + + + N FP HPM+
Sbjct: 63 EKSSFLE-----VCYLLLYGELPTAEQLQEFREEITRHTLVHEQMKRFFNGFPRDAHPMA 117
Query: 166 QFSAAITALNSESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKG 225
SA + AL++ + ND E ++ LIAK+P +AA YR + G
Sbjct: 118 ILSAMVNALSAFYPDSLDVNDP-------EQRELAAIRLIAKVPTIAAMAYRYS----IG 166
Query: 226 IGAIDTNKDWS--ANFTSMLGFD--------NHQFTELMRLYLTIHSDHEGGNVSAHTVH 275
I + D S NF M+ F + + + L +H+DHE N S TV
Sbjct: 167 QPFIYPDNDLSYVENFLHMM-FAVPYEPYEVDPVVVKALDTILILHADHEQ-NASTSTVR 224
Query: 276 LVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSE--EKLKEFIWN 333
+VGS+ ++ + S +AG+ L GPLHG AN+ VL L+++ NV + K K+
Sbjct: 225 MVGSSGANLFASISAGIAALWGPLHGGANEAVLEMLEEIGSV--GNVDKYIAKAKD---- 278
Query: 334 TLKSGQV-VPGYGHAVLRKTDPRYTCQREFAQKHLP----DDSLFKLVSQVYKVV--PPV 386
K+ + G+GH V + DPR ++ + L DD L ++ ++ ++
Sbjct: 279 --KNDPFRLMGFGHRVYKNYDPRAKILKKTCDEVLAELGKDDPLLEIAMELEEIALKDDY 336
Query: 387 LIETGKVKNPWPNVDAHSGVLLQYYGL-KEMNYYTVLFGVSRALGVLASLIWDRAL---G 442
IE + +PNVD +SG++L+ G+ EM +TVLF + R G +A W
Sbjct: 337 FIE----RKLYPNVDFYSGIILRALGIPTEM--FTVLFALGRTPGWIAQ--WREMHEDPE 388
Query: 443 LPIERPKSLST 453
L I RP+ L T
Sbjct: 389 LKIGRPRQLYT 399
>gnl|CDD|99865 cd06112, citrate_synt_like_1_1, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism.
Length = 373
Score = 145 bits (367), Expect = 3e-38
Identities = 107/403 (26%), Positives = 182/403 (45%), Gaps = 44/403 (10%)
Query: 70 GMRGIKGLVCETSVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVP 128
G+ G+ S +D + GI +RG I E L + EE + LL+ GD+P
Sbjct: 4 GLAGVPAAESSISYIDGKNGILEYRGYDIEE----LAEYSSFEE-----VALLLLDGDLP 54
Query: 129 SEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGV 188
+ A+++ K + ++ M+ FP HPM A + AL +
Sbjct: 55 TAAELEEFDKELRQHRRVKYNIRDMMKCFPETGHPMDMLQATVAALGMFYPKPEVLKPNP 114
Query: 189 HKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWS--ANFTSML-GF 245
+Y+ ++ LIAK+P + A R G I+ D NF ML G
Sbjct: 115 ------DYIDAATVKLIAKMPTLVAMWARIRN----GDDPIEPRPDLDYAENFLYMLFGE 164
Query: 246 DNHQFT-ELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLAN 304
+ T +++ L +H++H N S + + GS L+DPY ++ + L+GPLHG AN
Sbjct: 165 EPDPATAKILDACLILHAEHTM-NASTFSALVTGSTLADPYAVISSAIGTLSGPLHGGAN 223
Query: 305 QEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQR---- 360
++VL L+++ S E +K ++ L + Q + G+GH V + DPR T +
Sbjct: 224 EDVLEMLEEIG-------SPENVKAYLDKKLANKQKIWGFGHRVYKTKDPRATILQKLAE 276
Query: 361 EFAQKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYT 420
+ K L+++ +V ++ E K +PNVD +SG++ + G+ + +T
Sbjct: 277 DLFAKMGELSKLYEIALEVERLC----EELLGHKGVYPNVDFYSGIVYKELGIPA-DLFT 331
Query: 421 VLFGVSRALGVLASLIWDRALGL-PIERPKSLSTNDLVKQYSK 462
+F V+R G LA W LG I RP + ++ ++Y
Sbjct: 332 PIFAVARVAGWLAH--WKEQLGDNRIFRPTQIYIGEIDRKYVP 372
>gnl|CDD|99860 cd06107, EcCS_AthCS-per_like, Escherichia coli (Ec) citrate
synthase (CS) gltA and Arabidopsis thaliana (Ath)
peroxisomal (Per) CS_like. CS catalyzes the condensation
of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to
form citrate and coenzyme A (CoA), the first step in the
citric acid cycle (TCA or Krebs cycle). The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs,
including EcCS, are strongly and specifically inhibited
by NADH through an allosteric mechanism. Included in
this group is an NADH-insensitive type II Acetobacter
acetii CS which has retained many of the residues used
by EcCS for NADH binding. C. aurantiacus is a
gram-negative thermophilic green gliding bacterium; its
CS belonging to this group may be a type I CS. It is
not inhibited by NADH or 2-oxoglutarate and is inhibited
by ATP. Both gram-positive and gram-negative bacteria
are found in this group. This group also contains three
Arabidopsis peroxisomal CS proteins, CYS-1, -2, and -3
which participate in the glyoxylate cycle. AthCYS1, in
addition to a peroxisomal targeting sequence, has a
predicted secretory signal peptide; it may be targeted
to both the secretory pathway and the peroxisomes and
perhaps is located in the extracellular matrix. AthCSY1
is expressed only in siliques and specifically in
developing seeds. AthCSY2 and 3 are active during seed
germination and seedling development and are thought to
participate in the beta-oxidation of fatty acids.
Length = 382
Score = 141 bits (358), Expect = 5e-37
Identities = 104/397 (26%), Positives = 178/397 (44%), Gaps = 50/397 (12%)
Query: 78 VCETSV--LDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQ 134
VCE+S+ +D ++GI +RG I + L ++ EE +LL+ G++P++ Q
Sbjct: 14 VCESSITYIDGDKGILLYRGYPIEQ----LAESSTYEEVA-----YLLLWGELPTQEQYD 64
Query: 135 ALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNS---ESKFAKAYNDGVHKS 191
+ + +P V ++ FP HPM A ++AL++ E+ A + +
Sbjct: 65 EFQRRLSEHMMVPESVHRLIQTFPRDAHPMGILCAGLSALSAFYPEAIPAHTGDLYQNNP 124
Query: 192 KYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGF------ 245
E + + +AK+P +AA Y + G+ N + NF M+G+
Sbjct: 125 ---EVRDKQIIRTLAKMPTIAAAAYCHRI--GRPFVYPRANLSYIENFLYMMGYVDQEPY 179
Query: 246 -DNHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLAN 304
N + + +H+DHE N S GS+L+DP AA + L GPLHG AN
Sbjct: 180 EPNPRLARALDRLWILHADHEM-NCSTSAARHTGSSLADPISCMAAAIAALYGPLHGGAN 238
Query: 305 QEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQ 364
+ L K+ +++G + E + FI + + G+GH V + DPR RE
Sbjct: 239 EAAL----KMLREIG---TPENVPAFIERVKNGKRRLMGFGHRVYKNYDPRAKVIREILH 291
Query: 365 ---KHLPDDSLFKLVSQVYKVV--PPVLIETGKVKNPWPNVDAHSGVLLQYYGLKEMNYY 419
+ D L K+ ++ ++ + + +PNVD +SG + + G ++
Sbjct: 292 EVLTEVEKDPLLKVAMELERIALEDEYFVS----RKLYPNVDFYSGFIYKALGF-PPEFF 346
Query: 420 TVLFGVSRALGVLASLIWDRALGLP---IERPKSLST 453
TVLF V+R G +A W + P I RP+ + T
Sbjct: 347 TVLFAVARTSGWMAH--WREMMEDPLQRIWRPRQVYT 381
>gnl|CDD|130859 TIGR01800, cit_synth_II, 2-methylcitrate synthase/citrate synthase
II. Members of this family are dimeric enzymes with
activity as 2-methylcitrate synthase, citrate synthase,
or both. Many Gram-negative species have a hexameric
citrate synthase, termed citrate synthase I (TIGR01798).
Members of this family (TIGR01800) appear as a second
citrate synthase isozyme but typically are associated
with propionate metabolism and synthesize
2-methylcitrate from propionyl-CoA; citrate synthase
activity may be incidental. A number of species,
including Thermoplasma acidophilum, Pyrococcus furiosus,
and the Antarctic bacterium DS2-3R have a bifunctional
member of this family as the only citrate synthase
isozyme.
Length = 368
Score = 140 bits (354), Expect = 2e-36
Identities = 96/374 (25%), Positives = 172/374 (45%), Gaps = 43/374 (11%)
Query: 70 GMRGIKGLVCETSV--LDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGD 126
G+ G+ + ET++ +D GI +RG I + L + EE + +LL+ G
Sbjct: 2 GLEGV--IAGETALSTIDGSGGILTYRGYDIED----LAEHASFEE-----VAYLLLHGK 50
Query: 127 VPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITAL-NSESKFAKAYN 185
+P+ ++++ A LP V+ ++ P HPM A++ L + +
Sbjct: 51 LPTRSELRKFKTELAKLRGLPDEVIELIEALPAESHPMDVLRTAVSYLGALDPEKFGHTP 110
Query: 186 DGVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSML-G 244
+ + ++ L+AKLP + A YR + G I A + + NF ML G
Sbjct: 111 EE---------ARDIAIRLLAKLPTIVAYWYR--IRHGGEIIAPKDDDSIAGNFLYMLHG 159
Query: 245 FDNHQ-FTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLA 303
+ + + + M + L ++++HE N S ++ S LSD Y + A + L GPLHG A
Sbjct: 160 EEPTKEWEKAMDIALILYAEHE-FNASTFAARVIASTLSDMYSAITAAIGALKGPLHGGA 218
Query: 304 NQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFA 363
N+ V+ + ++GD +K + +I L++ + + G+GH V + DPR +E+A
Sbjct: 219 NEAVM----AMLDEIGD---PDKAEAWIRKALENKERIMGFGHRVYKTYDPRAKILKEYA 271
Query: 364 QKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLK-EMNYYTVL 422
K L ++ + + V+ E + PNVD S + YY + + +T +
Sbjct: 272 -KKLSAKEGSSKWYEIAERLEDVMEEEKGIY---PNVDFFSASV--YYMMGIPTDLFTPI 325
Query: 423 FGVSRALGVLASLI 436
F +SR G A +I
Sbjct: 326 FAMSRVTGWTAHII 339
>gnl|CDD|99863 cd06110, BSuCS-II_like, Bacillus subtilis (Bs) citrate synthase
(CS)-II_like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate
and coenzyme A (CoA), the first step in the citric acid
cycle (TCA or Krebs cycle). 2MCS catalyzes the
condensation of propionyl-coenzyme A (PrCoA) and OAA to
form 2-methylcitrate and CoA during propionate
metabolism. The overall CS reaction is thought to
proceed through three partial reactions: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
This group contains proteins similar to BsCS-II, the
major CS of the gram-positive bacterium Bacillus
subtilis. A mutation in the gene which encodes BsCS-II
(citZ gene) has been described which resulted in a
significant loss of CS activity, partial glutamate
auxotrophy, and a sporulation deficiency, all of which
are characteristic of strains defective in the Krebs
cycle. Streptococcus mutans CS, found in this group, may
participate in a pathway for the anaerobic biosynthesis
of glutamate. This group also contains functionally
uncharacterized CSs of various gram-negative bacteria.
Some of the gram-negative species represented in this
group have a second CS isozyme found in another group.
This group contains proteins which functions exclusively
as either a CS or a 2MCS, as well as those with relaxed
specificity which have dual functions as both a CS and a
2MCS.
Length = 356
Score = 138 bits (351), Expect = 4e-36
Identities = 97/376 (25%), Positives = 170/376 (45%), Gaps = 47/376 (12%)
Query: 70 GMRGIKGLVCETSV--LDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGD 126
G+ G+ + ++ + +D + GI +RG I + L + EE +LL G+
Sbjct: 2 GLEGV--IAADSKISYIDGDAGILIYRGYDIHD----LAENSTFEEVA-----YLLWNGE 50
Query: 127 VPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYND 186
+P+ ++ A A+ ELP+ ++ +L P HPM A++AL A +
Sbjct: 51 LPTAEELDAFKAQLAAERELPAEIIDLLKLLPKDAHPMDVLRTAVSALALYDPEADDMSR 110
Query: 187 GVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWS--ANFTSMLG 244
E ++ LIAK+P + A +R G+ + + D S ANF ML
Sbjct: 111 --------EANLRKAIRLIAKMPTIVAAFHRIR----NGLEPVAPDPDLSHAANFLYMLT 158
Query: 245 FD--NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGL 302
+ + + + L +H+DHE N S +V S LSD Y + A + L GPLHG
Sbjct: 159 GEKPSEEAARAFDVALILHADHEL-NASTFAARVVASTLSDMYSAVTAAIGALKGPLHGG 217
Query: 303 ANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREF 362
AN+ V+ L ++G S + + ++ + L + + + G+GH V + DPR RE
Sbjct: 218 ANERVMKML----LEIG---SVDNVAAYVKDKLANKEKIMGFGHRVYKTGDPRAKHLREM 270
Query: 363 AQKHLPDDSLFKLVSQV--YKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLKEMNYYT 420
+++ L K + Y++ + K PNVD +S + G+ ++ +T
Sbjct: 271 SRR------LGKETGEPKWYEMSEAIEQAMRDEKGLNPNVDFYSASVYYMLGI-PVDLFT 323
Query: 421 VLFGVSRALGVLASLI 436
+F +SR G A ++
Sbjct: 324 PIFAISRVSGWCAHIL 339
>gnl|CDD|180164 PRK05614, gltA, type II citrate synthase; Reviewed.
Length = 419
Score = 127 bits (322), Expect = 9e-32
Identities = 120/459 (26%), Positives = 189/459 (41%), Gaps = 111/459 (24%)
Query: 41 PSEQERVKNFRKNYGSTKVGEVTVDMMYGGMRGIKGLVCETSV--LDPEEGI-RFRGLSI 97
+ V + RK YGST G T D + CE+ + +D ++GI +RG I
Sbjct: 24 GTLGPDVIDIRKLYGST--GYFTYDPGFTSTAS-----CESKITYIDGDKGILLYRGYPI 76
Query: 98 PECQKVLPKAKGGEEPLPE-GLF----WLLVTGDVPSEAQVQALSKSWASRAELPSHVVT 152
E L E F +LL+ G++P+ Q + + +
Sbjct: 77 --------------EQLAEKSDFLEVCYLLLYGELPTAEQKAEFDTTVTRHTMVHEQLKR 122
Query: 153 MLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSKYWEYVYEDSMD--------- 203
F HPM+ + AL S F Y DS+D
Sbjct: 123 FFRGFRRDAHPMAVLCGVVGAL---SAF-----------------YHDSLDINDPEHREI 162
Query: 204 ----LIAKLPVVAATIYRNTFQGGKGIGAI----DTNKDWSANFTSMLGFD--------N 247
LIAK+P +AA Y+ IG + ++ NF M+ F N
Sbjct: 163 AAIRLIAKMPTLAAMAYK------YSIGQPFVYPRNDLSYAENFLRMM-FATPCEEYEVN 215
Query: 248 HQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEV 307
+ +H+DHE N S TV L GS+ ++P+ AAG+ L GP HG AN+ V
Sbjct: 216 PVLVRALDRIFILHADHEQ-NASTSTVRLAGSSGANPFACIAAGIAALWGPAHGGANEAV 274
Query: 308 LIWLKKLQQQVGDNVSE--EKLKEFIWNTLKSGQV-VPGYGHAVLRKTDPRYTCQREFAQ 364
L L+++ DN+ E + K+ K+ + G+GH V + DPR RE
Sbjct: 275 LKMLEEIGS--VDNIPEFIARAKD------KNDGFRLMGFGHRVYKNYDPRAKIMRETCH 326
Query: 365 KHLP----DDSLFKLVSQVYKVV--PPVLIETGKVKNPWPNVDAHSGVLLQYYGL-KEMN 417
+ L +D L ++ ++ ++ IE + +PNVD +SG++L+ G+ M
Sbjct: 327 EVLKELGLNDPLLEVAMELEEIALNDEYFIE----RKLYPNVDFYSGIILKALGIPTSM- 381
Query: 418 YYTVLFGVSRALGVLASLIWDRALGLP---IERPKSLST 453
+TV+F ++R +G +A W+ P I RP+ L T
Sbjct: 382 -FTVIFALARTVGWIAH--WNEMHSDPEQKIGRPRQLYT 417
>gnl|CDD|184465 PRK14032, PRK14032, citrate synthase; Provisional.
Length = 447
Score = 126 bits (320), Expect = 2e-31
Identities = 104/374 (27%), Positives = 177/374 (47%), Gaps = 47/374 (12%)
Query: 86 PEEG-IRFRGLSIPECQKVLPKAK--GGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWAS 142
P+EG + +RG I + K K G EE + +LL+ G++P++ ++ ++
Sbjct: 63 PDEGKLYYRGYDIKDLVNGFLKEKRFGFEE-----VAYLLLFGELPTKEELAEFTELLGD 117
Query: 143 RAELPSHVV--TMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSKYWEYVYED 200
ELP +L + M+ + ++ AL S Y+D + + V
Sbjct: 118 YRELPDGFTRDMILKAPSKDI--MNSLARSVLALYS-------YDDNPDDTSI-DNVLRQ 167
Query: 201 SMDLIAKLPVVAATIYR----NTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFTEL--- 253
S+ LIA+ P +A Y+ I + N ML DN ++TEL
Sbjct: 168 SISLIARFPTLAVYAYQAYRHYHDGKSLYIHPPKPELSTAENILYMLRPDN-KYTELEAR 226
Query: 254 -MRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLK 312
+ L L +H++H GGN S T +V S+ +D Y + AA + L GP HG AN +V+ +
Sbjct: 227 LLDLALVLHAEHGGGNNSTFTTRVVSSSGTDTYSAIAAAIGSLKGPKHGGANIKVMEMFE 286
Query: 313 KLQQQVGDNVSEEKLKEFIWNTL------KSGQVVPGYGHAVLRKTDPRYTCQREFA--- 363
+++ V D E+++ +++ L KSG ++ G GHAV +DPR ++FA
Sbjct: 287 DIKENVKDWEDEDEIADYLTKILNKEAFDKSG-LIYGMGHAVYTISDPRAVILKKFAEKL 345
Query: 364 --QKHLPDDSLFKLVSQVYKVVPPVLIE-TGKVKNPWPNVDAHSGVLLQYYGL-KEMNYY 419
+K ++ F L ++ K+ P ++ E G K NVD +SG + G+ +E+ Y
Sbjct: 346 AKEKGREEE--FNLYEKIEKLAPELIAEERGIYKGVSANVDFYSGFVYDMLGIPEEL--Y 401
Query: 420 TVLFGVSRALGVLA 433
T LF ++R +G A
Sbjct: 402 TPLFAIARIVGWSA 415
>gnl|CDD|99868 cd06115, AthCS_per_like, Arabidopsis thaliana (Ath) peroxisomal
(Per) CS_like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate
and coenzyme A (CoA), the first step in the citric acid
cycle (TCA or Krebs cycle). The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. This group contains three
Arabidopsis peroxisomal CS proteins, CYS1, -2, and -3
which are involved in the glyoxylate cycle. AthCYS1, in
addition to a peroxisomal targeting sequence, has a
predicted secretory signal peptide; it may be targeted
to both the secretory pathway and the peroxisomes and is
thought to be located in the extracellular matrix.
AthCSY1 is expressed only in siliques and specifically
in developing seeds. AthCSY2 and 3 are active during
seed germination and seedling development and are
thought to participate in the beta-oxidation of fatty
acids.
Length = 410
Score = 125 bits (316), Expect = 4e-31
Identities = 108/411 (26%), Positives = 186/411 (45%), Gaps = 72/411 (17%)
Query: 82 SVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLF----WLLVTGDVPSEAQVQAL 136
S +D ++GI R+RG I EE + F +LL+ G++P+++Q+
Sbjct: 40 SYIDGDKGILRYRGYPI-------------EELAEKSTFLEVAYLLIYGNLPTKSQLSDW 86
Query: 137 SKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNS---ESKFAKAYNDGVHKSKY 193
+ + +P+ V+ M+ +FP+ HPM +AI+AL++ E+ A A D ++K+K
Sbjct: 87 EFAVSQHTAVPTGVLDMIKSFPHDAHPMGMLVSAISALSAFHPEANPALAGQD-IYKNK- 144
Query: 194 WEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSML-GFDNHQFTE 252
+ + + ++ K P +AA YR G+ + ++ NF ML ++
Sbjct: 145 -QVRDKQIVRILGKAPTIAAAAYRRR--AGRPPNLPSQDLSYTENFLYMLDSLGERKYKP 201
Query: 253 LMRL------YLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQE 306
RL +H++HE N S V + S+ D Y + A + L GPLHG AN+
Sbjct: 202 NPRLARALDILFILHAEHEM-NCSTAAVRHLASSGVDVYTAVAGAVGALYGPLHGGANEA 260
Query: 307 VLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKH 366
VL ++ ++G + E + FI + + G+GH V + DPR ++ A
Sbjct: 261 VL----RMLAEIG---TVENIPAFIEGVKNRKRKLSGFGHRVYKNYDPRAKIIKKLA--- 310
Query: 367 LPDDSLFKLVSQVYKVVPPVLIETGKV-------------KNPWPNVDAHSGVLLQYYGL 413
D +F++V P LIE + +PNVD +SG++ + G
Sbjct: 311 ---DEVFEIVG-----KDP-LIEIAVALEKAALSDEYFVKRKLYPNVDFYSGLIYRAMGF 361
Query: 414 KEMNYYTVLFGVSRALGVLASLIWDRAL---GLPIERPKSLSTNDLVKQYS 461
+++ VLF + R G LA W +L I RP+ L T ++ Y
Sbjct: 362 P-TDFFPVLFAIPRMAGYLAH--WRESLDDPDTKIMRPQQLYTGVWLRHYV 409
>gnl|CDD|99869 cd06116, CaCS_like, Chloroflexus aurantiacus (Ca) citrate synthase
(CS)_like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate
and coenzyme A (CoA), the first step in the citric acid
cycle (TCA or Krebs cycle). This group is similar to
gram-negative Escherichia coli (Ec) CS (type II, gltA)
and Arabidopsis thaliana (Ath) peroxisomal (Per) CS.
However EcCS and AthPerCS are not found in this group.
The overall CS reaction is thought to proceed through
three partial reactions and involves both closed and
open conformational forms of the enzyme: a) the
carbanion or equivalent is generated from AcCoA by base
abstraction of a proton, b) the nucleophilic attack of
this carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism. C. aurantiacus is a
gram-negative thermophilic green gliding bacterium, its
CS belonging to this group may be a type I CS; it is not
inhibited by NADH or 2-oxoglutarate and is inhibited by
ATP. Both gram-positive and gram-negative bacteria are
found in this group.
Length = 384
Score = 123 bits (309), Expect = 2e-30
Identities = 111/422 (26%), Positives = 180/422 (42%), Gaps = 95/422 (22%)
Query: 79 CETSV--LDPEEGI-RFRGLSIPE-CQK--VLPKAKGGEEPLPEGLFWLLVTGDVPSEAQ 132
C++++ +D E+GI R+RG I + ++ L A +LL+ G++P++ +
Sbjct: 15 CKSAITYIDGEKGILRYRGYPIEQLAEQSSYLEVA------------YLLLHGELPTKER 62
Query: 133 VQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVHKSK 192
+ ++ ++ F HPM +++ AL++ AK D ++K
Sbjct: 63 LAQWVYDITRHTMTHENLKKFMDGFRYDAHPMGILISSVAALSTFYPEAKNIGDEEQRNK 122
Query: 193 YWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGF------- 245
+ LI K+P +AA YR+ G D + ++ NF SML
Sbjct: 123 -------QIIRLIGKMPTIAAFAYRHRL--GLPYVLPDNDLSYTGNFLSMLFKMTEPKYE 173
Query: 246 DNHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQ 305
N + + + +H+DHE N S + VGS+ +DPY + AA + L GPLHG AN+
Sbjct: 174 PNPVLAKALDVLFILHADHEQ-NCSTSAMRSVGSSRADPYTAVAAAVAALYGPLHGGANE 232
Query: 306 EVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQV-VPGYGHAVLRKTDPRYTCQREFAQ 364
VL ++ QQ+G S + + +FI T+K G+ + G+GH V + DPR +
Sbjct: 233 AVL----RMLQQIG---SPKNIPDFI-ETVKQGKERLMGFGHRVYKNYDPRARIIK---- 280
Query: 365 KHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPW-----------------------PNVD 401
K+ V TG +NP PNVD
Sbjct: 281 ----------------KIADEVFEATG--RNPLLDIAVELEKIALEDEYFISRKLYPNVD 322
Query: 402 AHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLP---IERPKSLSTNDLVK 458
+SG++ Q G +TVLF + R G LA W L P I RP+ + T +
Sbjct: 323 FYSGLIYQALGFP-TEAFTVLFAIPRTSGWLAQ--WIEMLRDPEQKIARPRQVYTGPRDR 379
Query: 459 QY 460
Y
Sbjct: 380 DY 381
>gnl|CDD|99866 cd06113, citrate_synt_like_1_2, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) a carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) nucleophilic attack of this carbanion on
OAA to generate citryl-CoA, and c) hydrolysis of
citryl-CoA to produce citrate and CoA. CSs are found in
two structural types: type I (homodimeric) and type II
CSs (homohexameric). Type II CSs are unique to
gram-negative bacteria. Type I CSs are found in eukarya,
gram-positive bacteria, archaea, and in some
gram-negative bacteria. Type I CS is active as a
homodimer, both subunits participating in the active
site. Type II CS is a hexamer of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism. This subgroup includes both
gram-positive and gram-negative bacteria.
Length = 406
Score = 121 bits (307), Expect = 6e-30
Identities = 97/336 (28%), Positives = 168/336 (50%), Gaps = 37/336 (11%)
Query: 120 WLLVTGDVPSEAQVQALSKSWASRAELPSHVV-TMLNNFPNHLHPMSQFSAAITALNSES 178
+LL+ G +P++ +++ + +S LP + V ++ P+ M++ ++ AL S
Sbjct: 65 YLLLFGYLPNKEELEEFCEILSSYRTLPDNFVEDVILKAPSK-DIMNKLQRSVLALYSYD 123
Query: 179 KFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVVAATIYR--NTFQGGKG--IGAIDTNKD 234
K + + E V S+ LIA+LP +A Y+ + G+ I
Sbjct: 124 D--KPDDISL------ENVLRQSIQLIARLPTIAVYAYQAKRHYYDGESLYIHHPQPELS 175
Query: 235 WSANFTSMLGFDNHQFTE----LMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAA 290
+ N SML D +TE L+ L L +H++H GGN S T +V S+ +D Y + AA
Sbjct: 176 TAENILSMLRPDKK-YTELEAKLLDLCLVLHAEHGGGNNSTFTTRVVSSSGTDTYSAIAA 234
Query: 291 GMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTL------KSGQVVPGY 344
+ L GP HG AN +V+ L+ +++ V D E++++ ++ L KSG ++ G
Sbjct: 235 AIGSLKGPRHGGANIKVMEMLEDIKENVKDWTDEDEVRAYLRKILNKEAFDKSG-LIYGM 293
Query: 345 GHAVLRKTDPRYTCQREFAQ-----KHLPDDSLFKLVSQVYKVVPPVLIE-TGKVKNPWP 398
GHAV +DPR +++A+ K ++ F L ++ ++ P V+ E G K
Sbjct: 294 GHAVYTLSDPRAVVLKKYARSLAKEKGREEE--FALYERIERLAPEVIAEERGIGKTVCA 351
Query: 399 NVDAHSGVLLQYYGL-KEMNYYTVLFGVSRALGVLA 433
NVD +SG + + G+ +E+ YT LF V+R +G A
Sbjct: 352 NVDFYSGFVYKMLGIPQEL--YTPLFAVARIVGWCA 385
>gnl|CDD|237591 PRK14036, PRK14036, citrate synthase; Provisional.
Length = 377
Score = 118 bits (298), Expect = 7e-29
Identities = 102/383 (26%), Positives = 173/383 (45%), Gaps = 64/383 (16%)
Query: 70 GMRGIKGLVCETSVLDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVP 128
G+ G+ S +D ++GI +RG I E L + E +LL+ G++P
Sbjct: 7 GLEGVPATQSSISYVDGQKGILEYRGYPIEE----LAEKSSFLETA-----YLLIWGELP 57
Query: 129 SEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKF--AKAYND 186
+ +++ + + + M+ FP HPM A+ AL F +A +D
Sbjct: 58 TAEELEEFEQEVRMHRRVKYRIRDMMKCFPETGHPMDALQASAAALGL---FYSRRALDD 114
Query: 187 GVHKSKYWEYVYEDSMDLIAKLP--VVAATIYRNTFQGGKGIGAIDTNKD--WSANFTSM 242
EY+ + + LIAK+P V A + R KG I D ++ANF M
Sbjct: 115 P-------EYIRDAVVRLIAKIPTMVAAFQLIR------KGNDPIQPRDDLDYAANFLYM 161
Query: 243 LGFDNHQFTE---------LMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMN 293
L TE + L +H++H N S + + S L+DPY A+ +
Sbjct: 162 L-------TEREPDPLAARIFDRCLILHAEHTI-NASTFSARVTASTLTDPYAVIASAVG 213
Query: 294 GLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTD 353
LAGPLHG AN++VL L+ ++G S E ++ ++ L + Q + G+GH + D
Sbjct: 214 TLAGPLHGGANEDVLAMLE----EIG---SVENVRPYLDERLANKQKIMGFGHREYKVKD 266
Query: 354 PRYTCQREFAQ---KHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQY 410
PR T ++ A+ D +++ ++ +V L K +PNVD +SG++ +
Sbjct: 267 PRATILQKLAEELFARFGHDEYYEIALELERVAEERLGP----KGIYPNVDFYSGLVYRK 322
Query: 411 YGLKEMNYYTVLFGVSRALGVLA 433
G+ + +T +F ++R G LA
Sbjct: 323 LGIPR-DLFTPIFAIARVAGWLA 344
>gnl|CDD|233579 TIGR01798, cit_synth_I, citrate synthase I (hexameric type). This
model describes one of several distinct but closely
homologous classes of citrate synthase, the protein that
brings carbon (from acetyl-CoA) into the TCA cycle. This
form, class I, is known to be hexameric and
allosterically inhibited by NADH in Escherichia coli,
Acinetobacter anitratum, Azotobacter vinelandii,
Pseudomonas aeruginosa, etc. In most species with a
class I citrate synthase, a dimeric class II isozyme is
found. The class II enzyme may act primarily on
propionyl-CoA to make 2-methylcitrate or be
bifunctional, may be found among propionate utilization
enzymes, and may be constitutive or induced by
propionate. Some members of this model group as class I
enzymes, and may be hexameric, but have shown regulatory
properties more like class II enzymes [Energy
metabolism, TCA cycle].
Length = 412
Score = 116 bits (292), Expect = 5e-28
Identities = 102/356 (28%), Positives = 165/356 (46%), Gaps = 49/356 (13%)
Query: 120 WLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESK 179
+LL+ G++P+ Q + + V N F HPM+ + AL S
Sbjct: 77 YLLLNGELPTAEQKDEFDDTVTRHTMVHEQVTRFFNGFRRDAHPMAVMVGVVGAL---SA 133
Query: 180 FAKAYNDG--VHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSA 237
F Y+D ++ ++ E ++ LIAK+P +AA Y+ + G+ + ++
Sbjct: 134 F---YHDSLDINDPRHREIA---AIRLIAKIPTLAAMSYKYSI--GQPFVYPRNDLSYAE 185
Query: 238 NFTSMLGFD--------NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFA 289
NF M+ F N M +H+DHE N S TV L GS+ ++P+ A
Sbjct: 186 NFLHMM-FATPCEDYKVNPVLARAMDRIFILHADHEQ-NASTSTVRLAGSSGANPFACIA 243
Query: 290 AGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTL--KSGQVVPGYGHA 347
AG+ L GP HG AN+ L K+ +++G S + + EFI + G+GH
Sbjct: 244 AGIAALWGPAHGGANEAAL----KMLEEIG---SVKNIPEFIKKVKDKNDPFRLMGFGHR 296
Query: 348 VLRKTDPRY-----TCQREFAQKHLPDDSLFKLVSQVYKVV--PPVLIETGKVKNPWPNV 400
V + DPR TC + L DD LFKL ++ K+ P IE + +PNV
Sbjct: 297 VYKNYDPRAKVMRETCHEVLKELGLHDDPLFKLAMELEKIALNDPYFIE----RKLYPNV 352
Query: 401 DAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRALGLP---IERPKSLST 453
D +SG++L+ G+ + +TV+F ++R +G ++ W + P I RP+ L T
Sbjct: 353 DFYSGIILKAMGIP-TSMFTVIFALARTVGWISH--WSEMISDPGQKIGRPRQLYT 405
>gnl|CDD|99864 cd06111, DsCS_like, Cold-active citrate synthase (CS) from an
Antarctic bacterial strain DS2-3R (Ds)-like. CS
catalyzes the condensation of acetyl coenzyme A (AcCoA)
and oxalacetate (OAA) to form citrate and coenzyme A
(CoA), the first step in the citric acid cycle (TCA or
Krebs cycle). 2-methylcitrate synthase (2MCS) catalyzes
the condensation of propionyl-coenzyme A (PrCoA) and OAA
to form 2-methylcitrate and coenzyme A (CoA) during
propionate metabolism. The overall CS reaction is
thought to proceed through three partial reactions: a)
the carbanion or equivalent is generated from AcCoA by
base abstraction of a proton, b) the nucleophilic attack
of this carbanion on OAA to generate citryl-CoA, and c)
the hydrolysis of citryl-CoA to produce citrate and CoA.
DsCS, compared with CS from the hyperthermophile
Pyrococcus furiosus (not included in this group), has an
increase in the size of surface loops, a higher proline
content in the loop regions, a more accessible active
site, and a higher number of intramolecular ion pairs.
This group contains proteins which functions exclusively
as either a CS or a 2MCS, as well as those with relaxed
specificity which have dual functions as both a CS and a
2MCS. For example, included in this group are
Corynebacterium glutamicum (Cg) PrpC1 and -2, which are
only synthesized during growth on propionate-containing
medium, can use PrCoA, AcCoA and butyryl-CoA as
substrates, and have comparable catalytic activity with
AcCoA as the major CgCS (GltA, not included in this
group).
Length = 362
Score = 112 bits (283), Expect = 4e-27
Identities = 75/319 (23%), Positives = 145/319 (45%), Gaps = 29/319 (9%)
Query: 116 EGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALN 175
E + +LL G++P+ AQ+ S+ S L ++++++ + P + HPM A++ L
Sbjct: 40 EEVAYLLWNGELPNAAQLAEFSQRERSYRRLDRNLLSLIASLPKNCHPMDVLRTAVSVLG 99
Query: 176 SESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDW 235
+E D + ++ L+A+LP V A R + G D++
Sbjct: 100 AE--------DSETDDSSPDANLAKAIRLLAQLPTVVAADIR--RRKGLDPIPPDSDLGI 149
Query: 236 SANFTSMLGFDNHQFTELMRLY---LTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGM 292
+ NF M F E++R + L ++++H N S T ++ S LSD Y + +
Sbjct: 150 AENFLHMC-FGEVPSPEVVRAFDVSLILYAEH-SFNASTFTARVITSTLSDIYSAITGAI 207
Query: 293 NGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKT 352
L GPLHG AN+ V+ + ++ EK +++ + L + V G+GH V +
Sbjct: 208 GALKGPLHGGANEAVMHMMLEID-------DPEKAAQWMLDALARKEKVMGFGHRVYKSG 260
Query: 353 DPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYG 412
D R + ++ K + +Y + ++ +K PN+D +G YY
Sbjct: 261 DSRVPTMEKALRRVAAVHDGQKWL-AMYDALEDAMVAAKGIK---PNLDFPAGP--AYYL 314
Query: 413 LK-EMNYYTVLFGVSRALG 430
+ +++++T +F ++R G
Sbjct: 315 MGFDIDFFTPIFVMARITG 333
>gnl|CDD|184467 PRK14034, PRK14034, citrate synthase; Provisional.
Length = 372
Score = 112 bits (281), Expect = 9e-27
Identities = 101/371 (27%), Positives = 173/371 (46%), Gaps = 45/371 (12%)
Query: 72 RGIKGLVCETSVLDP--EEGIRFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPS 129
RG++G+V TS + ++ + + G +I + E E + +LL +P+
Sbjct: 5 RGLEGVVATTSSVSSIIDDTLTYVGYNIDDL---------AENASFEEVVYLLWHRKLPN 55
Query: 130 EAQVQALSKSWASRAELPSHVVTMLNNFP-NHLHPMSQFSAAITALNSESKFAKAYNDGV 188
+ ++ + + A++P ++ L + +HPMS AI+ L + A+ ++
Sbjct: 56 KQELAEFKEQLSENAKVPGEIIEHLKQYDLKKVHPMSVLRTAISMLGLYDEEAEIMDE-- 113
Query: 189 HKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWS--ANFTSMLGFD 246
E Y ++ L AK+P + A R KG+ ++ KD S ANF ML +
Sbjct: 114 ------EANYRKAVRLQAKVPTIVAAFSRIR----KGLDPVEPRKDLSLAANFLYMLNGE 163
Query: 247 --NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLAN 304
+ E L +H+DHE N S T + + LSD Y A + L GPLHG AN
Sbjct: 164 EPDEVEVEAFNKALVLHADHEL-NASTFTARVCVATLSDVYSGITAAIGALKGPLHGGAN 222
Query: 305 QEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQ 364
+ V+ K+ ++G+ EE ++ +I N L++ + + G+GH V R+ DPR RE ++
Sbjct: 223 ENVM----KMLTEIGE---EENVESYIHNKLQNKEKIMGFGHRVYRQGDPRAKHLREMSK 275
Query: 365 KHLPDDSLFKLVSQVYKVVPPVLIE--TGKVKNPWPNVDAHSGVLLQYYGLKEMNYYTVL 422
+ L L+ + + IE K K PNVD +S + G+ + +T +
Sbjct: 276 R------LTVLLGEEKWYNMSIKIEEIVTKEKGLPPNVDFYSASVYHCLGIDH-DLFTPI 328
Query: 423 FGVSRALGVLA 433
F +SR G LA
Sbjct: 329 FAISRMSGWLA 339
>gnl|CDD|237069 PRK12349, PRK12349, citrate synthase 3; Provisional.
Length = 369
Score = 105 bits (263), Expect = 2e-24
Identities = 101/383 (26%), Positives = 163/383 (42%), Gaps = 63/383 (16%)
Query: 73 GIKGLV-CET--SVLDPEEG-IRFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVP 128
G+ G++ ET S LD +G I +G + E L K K + + LL+ +P
Sbjct: 8 GLDGVIAAETKISFLDTVKGEIVIQGYDLIE----LSKTKEYLD-----IVHLLLEEHLP 58
Query: 129 SEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYND-- 186
+E + L K +P V +L P HPM ++AL + + D
Sbjct: 59 NEDEKATLEKKLKEEYAVPEGVFNILKALPKETHPMDGLRTGVSAL---AGYDNDIEDRS 115
Query: 187 -GVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSML-- 243
V+KS+ + L++K+P + A Y + +SANF ML
Sbjct: 116 LEVNKSR--------AYKLLSKVPNIVANSYH--ILNNEEPIEPLKELSYSANFLYMLTG 165
Query: 244 ----GFDNHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPL 299
+ F + LY S+HE N S T ++ S SD Y + + L G L
Sbjct: 166 KKPTELEEKIFDRSLVLY----SEHEMPN-STFTARVIASTQSDLYGALTGAVASLKGSL 220
Query: 300 HGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAV-LRKTDPRYTC 358
HG AN+ V+ L V EK +E + L + + + G+GH V ++K DPR
Sbjct: 221 HGGANEAVMYML-----LEAGTV--EKFEELLQKKLYNKEKIMGFGHRVYMKKMDPRALM 273
Query: 359 QREFAQKHL----PDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLK 414
+E A K L D +L+++ K++ K K +PN+D ++ + Y+ L
Sbjct: 274 MKE-ALKQLCDVKGDYTLYEMCEAGEKIME-------KEKGLYPNLDYYAAPV--YWMLG 323
Query: 415 -EMNYYTVLFGVSRALGVLASLI 436
+ YT +F SR +G+ A +I
Sbjct: 324 IPIQLYTPIFFSSRTVGLCAHVI 346
>gnl|CDD|184468 PRK14035, PRK14035, citrate synthase; Provisional.
Length = 371
Score = 97.5 bits (243), Expect = 7e-22
Identities = 71/282 (25%), Positives = 124/282 (43%), Gaps = 35/282 (12%)
Query: 159 NHLHPMSQFSAAITALNSESKFAKAYNDGVH-KSKYWEYVYEDSMDLIAKLPVVAATIYR 217
+H+HPM TAL + + ++ + + E YE ++ + AK+ + R
Sbjct: 86 DHVHPM-------TALRTSVSYLAHFD--PDAEEESDEARYERAIRIQAKVASLVTAFAR 136
Query: 218 NTFQGGKGIGAIDTNKD--WSANFTSMLGFDNHQFTEL----MRLYLTIHSDHEGGNVSA 271
+G + D ++ANF ML T++ L +H+DHE N S
Sbjct: 137 VR----QGKEPLKPRPDLSYAANFLYML--RGELPTDIEVEAFNKALVLHADHEL-NAST 189
Query: 272 HTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFI 331
T S+LSD Y A + L GPLHG AN+ V+ L +++ S + ++
Sbjct: 190 FTARCAVSSLSDMYSGVVAAVGSLKGPLHGGANERVMDMLSEIR-------SIGDVDAYL 242
Query: 332 WNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIETG 391
+ + + G+GH V + DPR RE ++K + + + + ++ + + E
Sbjct: 243 DEKFANKEKIMGFGHRVYKDGDPRAKYLREMSRK-ITKGTGREELFEMSVKIEKRMKEE- 300
Query: 392 KVKNPWPNVDAHSGVLLQYYGLKEMNYYTVLFGVSRALGVLA 433
K PNVD +S + G+ + +T +F VSR G +A
Sbjct: 301 --KGLIPNVDFYSATVYHVMGIPH-DLFTPIFAVSRVAGWIA 339
>gnl|CDD|237590 PRK14033, PRK14033, citrate synthase; Provisional.
Length = 375
Score = 95.0 bits (237), Expect = 5e-21
Identities = 76/319 (23%), Positives = 145/319 (45%), Gaps = 29/319 (9%)
Query: 116 EGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALN 175
E + +LL G++P++A++ S+ + L V+++++ P HPM A++ L
Sbjct: 50 EEVAYLLWNGELPTDAELALFSQRERAYRRLDRSVLSLIDKLPTTCHPMDVVRTAVSYLG 109
Query: 176 SESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDW 235
+E D E ++ L A LP + A R + G A ++ +
Sbjct: 110 AE--------DPEADDSSPEANLAKALRLFAVLPTIVAADQR--RRRGLDPIAPRSDLGY 159
Query: 236 SANFTSMLGFDNHQFTELMRLY---LTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGM 292
+ NF M F E++R + L ++++H N S T ++ S LSD Y + +
Sbjct: 160 AENFLHMC-FGEVPEPEVVRAFEVSLILYAEH-SFNASTFTARVITSTLSDIYSAVTGAI 217
Query: 293 NGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKT 352
L GPLHG AN+ V+ + ++GD + E++ + L + V G+GH V +
Sbjct: 218 GALKGPLHGGANEAVMHTML----EIGD---PARAAEWLRDALARKEKVMGFGHRVYKHG 270
Query: 353 DPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYG 412
D R + ++ + + +Y+ + + E +K PN+D +G YY
Sbjct: 271 DSRVPTMKAALRRVAAVRDGQRWL-DIYEALEKAMAEATGIK---PNLDFPAGPA--YYL 324
Query: 413 LK-EMNYYTVLFGVSRALG 430
+ +++++T +F +SR G
Sbjct: 325 MGFDIDFFTPIFVMSRITG 343
>gnl|CDD|184470 PRK14037, PRK14037, citrate synthase; Provisional.
Length = 377
Score = 90.2 bits (224), Expect = 2e-19
Identities = 100/362 (27%), Positives = 162/362 (44%), Gaps = 44/362 (12%)
Query: 84 LDPEEGI-RFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWAS 142
+D E+GI R+RG +I + L EE +L++ G++P++ ++ L +
Sbjct: 21 IDGEKGILRYRGYNIED----LVNYGSYEE-----TIYLMLYGELPTKKELNDLKEKLNE 71
Query: 143 RAELPSHVVTMLNNFPNHLHPMSQFSAAITALNS-ESKFAKAYNDGVHKSKYWEYVYEDS 201
E+P V+ + P + AA AL S + F ND E +
Sbjct: 72 EYEVPQEVIDSIYLMPRDSDAIGLMEAAFAALASIDKNFKWKEND-----------KEKA 120
Query: 202 MDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFTE---LMRLYL 258
+ +IAK+ + A +YR + G + + ++ +F F E M L
Sbjct: 121 ISIIAKMATIVANVYRR--KEGNKPRIPEPSDSFAESFLLA-SFAREPTAEEIKAMDAAL 177
Query: 259 TIHSDHEGGNVSAHTVH-LVG-SALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQ 316
+++DHE V A T LV S LSD Y A + L GPLHG A +E K
Sbjct: 178 ILYTDHE---VPASTTAALVAASTLSDMYSCITAALAALKGPLHGGAAEEAF----KQFV 230
Query: 317 QVGD-NVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKL 375
++GD N E + I N K + G+GH V + DPR +E A+ + +S K
Sbjct: 231 EIGDPNNVEMWFNDKIINGKKR---LMGFGHRVYKTYDPRAKIFKELAETLIERNSEAKK 287
Query: 376 VSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLK-EMNYYTVLFGVSRALGVLAS 434
++ + + + I+ K +PN D +SG++ +Y L + +T LF +SR LG LA
Sbjct: 288 YFEIAQKLEELGIKQFGSKGIYPNTDFYSGIV--FYALGFPVYMFTALFALSRTLGWLAH 345
Query: 435 LI 436
+I
Sbjct: 346 II 347
>gnl|CDD|99861 cd06108, Ec2MCS_like, Escherichia coli (Ec) 2-methylcitrate
synthase (2MCS)_like. 2MCS catalyzes the condensation of
propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to
form 2-methylcitrate and coenzyme A (CoA) during
propionate metabolism. Citrate synthase (CS) catalyzes
the condensation of acetyl coenzyme A (AcCoA) and OAA to
form citrate and coenzyme A (CoA), the first step in the
citric acid cycle (TCA or Krebs cycle). This group
contains proteins similar to the E. coli 2MCS, EcPrpC.
EcPrpC is one of two CS isozymes in the gram-negative E.
coli. EcPrpC is a dimeric (type I ) CS; it is induced
during growth on propionate and prefers PrCoA as a
substrate though it has partial CS activity with AcCoA.
This group also includes Salmonella typhimurium PrpC and
Ralstonia eutropha (Re) 2-MCS1 which are also induced
during growth on propionate and prefer PrCoA as
substrate, but can also use AcCoA. Re 2-MCS1 can use
butyryl-CoA and valeryl-CoA at a lower rate. A second
Ralstonia eutropha 2MCS, Re 2-MCS2, which is induced on
propionate is also found in this group. This group may
include proteins which may function exclusively as a CS,
those which may function exclusively as a 2MCS, or those
with dual specificity which functions as both a CS and a
2MCS.
Length = 363
Score = 86.2 bits (214), Expect = 4e-18
Identities = 75/334 (22%), Positives = 149/334 (44%), Gaps = 49/334 (14%)
Query: 120 WLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQF---SAAITALNS 176
+LL+ G +P+ Q+ A + LP+ + T+L P HPM + + L
Sbjct: 44 YLLLYGKLPTRKQLDAYKTKLVALRRLPAALKTVLELIPKDSHPMDVMRTGCSMLGCLEP 103
Query: 177 ESKFAKAYNDGVHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWS 236
E++F++ Y + L+A P + +Y + +T++D
Sbjct: 104 ENEFSQQYEIAIR--------------LLAIFP--SILLYWYHYSHSGKRIETETDEDSI 147
Query: 237 A-NFTSMLGFDNHQ------FTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFA 289
A +F +L H + M + L ++++HE N S + S LSD Y +
Sbjct: 148 AGHFLHLL----HGKKPGELEIKAMDVSLILYAEHEF-NASTFAARVTASTLSDFYSAIT 202
Query: 290 AGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVL 349
+ L GPLHG AN+ + +++ + S E+ ++ + L+ +++ G+GH V
Sbjct: 203 GAIGTLRGPLHGGANEAAMELIERFK-------SPEEAEQGLLEKLERKELIMGFGHRVY 255
Query: 350 RKTDPRYTCQREFAQKHLP---DDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGV 406
++ DPR +++++K D L+++ ++ +V+ + K +PN+D +S
Sbjct: 256 KEGDPRSDIIKKWSKKLSEEGGDPLLYQISERIEEVMW-------EEKKLFPNLDFYSAS 308
Query: 407 LLQYYGLKEMNYYTVLFGVSRALGVLASLIWDRA 440
+ G+ +T +F +SR G A ++ RA
Sbjct: 309 AYHFCGIP-TELFTPIFVMSRVTGWAAHIMEQRA 341
>gnl|CDD|99862 cd06109, BsCS-I_like, Bacillus subtilis (Bs) citrate synthase
CS-I_like. CS catalyzes the condensation of acetyl
coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate
and coenzyme A (CoA), the first step in the citric acid
cycle (TCA or Krebs cycle). 2MCS catalyzes the
condensation of propionyl-coenzyme A (PrCoA) and OAA to
form 2-methylcitrate and coenzyme A (CoA) during
propionate metabolism. The overall CS reaction is
thought to proceed through three partial reactions and
involves both closed and open conformational forms of
the enzyme: a) the carbanion or equivalent is generated
from AcCoA by base abstraction of a proton, b) the
nucleophilic attack of this carbanion on OAA to generate
citryl-CoA, and c) the hydrolysis of citryl-CoA to
produce citrate and CoA. This group contains proteins
similar to BsCS-I, one of two CS isozymes in the
gram-positive B. subtilis. The majority of CS activity
in B. subtilis is provided by the other isozyme, BsCS-II
(not included in this group). BsCS-I has a lower
catalytic activity than BsCS-II, and has a Glu in place
of a key catalytic Asp residue. This change is conserved
in other members of this group. For E. coli CS (not
included in this group), site directed mutagenesis of
the key Asp residue to a Glu converts the enzyme into
citryl-CoA lyase which cleaves citryl-CoA to AcCoA and
OAA. A null mutation in the gene encoding BsCS-I (citA)
had little effect on B. subtilis CS activity or on
sporulation. However, disruption of the citA gene in a
strain null for the gene encoding BsCS-II resulted in a
sporulation deficiency, a characteristic of strains
defective in the Krebs cycle. This group contains
proteins which functions exclusively as either a CS or a
2MCS, as well as those with relaxed specificity which
have dual functions as both a CS and a 2MCS. Many of the
gram-negative species represented in this group have a
second CS isozyme which is in another group.
Length = 349
Score = 78.9 bits (195), Expect = 8e-16
Identities = 97/388 (25%), Positives = 152/388 (39%), Gaps = 52/388 (13%)
Query: 72 RGIKGLVCETSVL---DPEEG-IRFRGLSIPECQKVLPKAKGGEEPLPEGLFWLLVTGDV 127
G++G+V +VL D E G + RG S+ + L + E+ LL G
Sbjct: 1 PGLEGVVAAETVLSDVDGEAGRLIIRGYSVED----LAGSASFEDVA-----ALLWNGFF 51
Query: 128 PSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDG 187
P +++ + A+ LP V +L L PM A + L A A
Sbjct: 52 PDLPELEEFRAALAAARALPDVVAALLPAL-AGLDPMDALRALLALLPDSPDLATA---- 106
Query: 188 VHKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWS--ANFTSML-- 243
+ L+A PV+ A + R +G I + S A++ ML
Sbjct: 107 --------------LRLLAAAPVITAALLR----LSRGKQPIAPDPSLSHAADYLRMLTG 148
Query: 244 GFDNHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLA 303
+ + YL +DH G N S T ++ S +D + + L GPLHG A
Sbjct: 149 EPPSEAHVRALDAYLVTVADH-GMNASTFTARVIASTEADLTSAVLGAIGALKGPLHGGA 207
Query: 304 NQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPRYTCQREFA 363
VL L + +N +E L+E L G+ + G+GH V R DPR + A
Sbjct: 208 PGPVLDMLDAIGTP--EN-AEAWLRE----ALARGERLMGFGHRVYRVRDPRADVLKAAA 260
Query: 364 QKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGLK-EMNYYTVL 422
++ D + V + +L E + NV+ ++ +LL+ GL E +T
Sbjct: 261 ERLGAPDERLEFAEAVEQAALALLREYKPGRPLETNVEFYTALLLEALGLPREA--FTPT 318
Query: 423 FGVSRALGVLASLIWDRALGLPIERPKS 450
F R G A ++ G I RP+S
Sbjct: 319 FAAGRTAGWTAHVLEQARTGRLI-RPQS 345
>gnl|CDD|99870 cd06117, Ec2MCS_like_1, Subgroup of Escherichia coli (Ec)
2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the
condensation of propionyl-coenzyme A (PrCoA) and
oxalacetate (OAA) to form 2-methylcitrate and coenzyme A
(CoA) during propionate metabolism. Citrate synthase
(CS) catalyzes the condensation of acetyl coenzyme A
(AcCoA) and OAA to form citrate and coenzyme A (CoA),
the first step in the citric acid cycle (TCA or Krebs
cycle). This group contains proteins similar to the E.
coli 2MCS, EcPrpC. EcPrpC is one of two CS isozymes in
the gram-negative E. coli. EcPrpC is a dimeric (type I )
CS; it is induced during growth on propionate and
prefers PrCoA as a substrate, but has a partial CS
activity with AcCoA. This group also includes Salmonella
typhimurium PrpC and Ralstonia eutropha (Re) 2-MCS1
which are also induced during growth on propionate,
prefer PrCoA as substrate, but can also can use AcCoA.
Re 2-MCS1 at a low rate can use butyryl-CoA and
valeryl-CoA. A second Ralstonia eutropha 2MCS is also
found in this group, Re 2-MCS2, which is induced on
propionate. This group contains proteins which functions
exclusively as either a CS or a 2MCS, as well as those
with relaxed specificity which have dual functions as
both a CS and a 2MCS.
Length = 366
Score = 68.3 bits (167), Expect = 3e-12
Identities = 84/337 (24%), Positives = 144/337 (42%), Gaps = 29/337 (8%)
Query: 116 EGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITALN 175
E + LLV G +P+++++ A S LP++V T L P HPM ++ L
Sbjct: 40 EEVAHLLVHGKLPTKSELAAYKTKLKSLRGLPANVKTALEQLPAAAHPMDVMRTGVSVLG 99
Query: 176 SESKFAKAYNDGVHKSKYWEYVYEDSMD-LIAKLPVVAATIYRNTFQGGKGIGAIDTNKD 234
+ + + D D L+A L + Y + GK I +
Sbjct: 100 CVLPEKEDHPVSGAR---------DIADRLMASLGSILLYWYHYS-HNGKRIEVETDDDS 149
Query: 235 WSANFTSMLGFD--NHQFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGM 292
+F +L + + + + M + L ++++HE N S T ++ SD Y + +
Sbjct: 150 IGGHFLHLLHGEKPSESWEKAMHISLILYAEHEF-NASTFTARVIAGTGSDMYSAITGAI 208
Query: 293 NGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKT 352
L GP HG AN+ ++QQ+ ++ + I +++ +VV G+GH V
Sbjct: 209 GALRGPKHGGANEVAF----EIQQRYES---ADEAEADIRRRVENKEVVIGFGHPVYTIA 261
Query: 353 DPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYG 412
DPR +E A K L + + + + + V+ E K+ +PN+D S V G
Sbjct: 262 DPRNQVIKEVA-KQLSKEGGDMKMFDIAERLETVMWEEKKM---FPNLDWFSAVSYHMMG 317
Query: 413 L-KEMNYYTVLFGVSRALGVLASLIWDRALGLPIERP 448
+ M +T LF ++R G A +I R G I RP
Sbjct: 318 VPTAM--FTPLFVIARTTGWSAHIIEQRQDG-KIIRP 351
>gnl|CDD|99856 cd06102, citrate_synt_like_2, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism. This subgroup includes both
gram-positive and gram-negative bacteria.
Length = 282
Score = 60.0 bits (146), Expect = 7e-10
Identities = 31/105 (29%), Positives = 50/105 (47%), Gaps = 8/105 (7%)
Query: 251 TELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIW 310
+L+R L + +DHE N S + S + Y + AG+ L+GP HG A V
Sbjct: 98 ADLLRRALVLLADHEL-NASTFAARVAASTGASLYAAVLAGLAALSGPRHGGATARVEAL 156
Query: 311 LKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPR 355
L + + +E ++E L+ G+ +PG+GH + DPR
Sbjct: 157 LDEALRAGD---AEAAVRE----RLRRGEALPGFGHPLYPDGDPR 194
>gnl|CDD|183463 PRK12351, PRK12351, methylcitrate synthase; Provisional.
Length = 378
Score = 56.9 bits (138), Expect = 1e-08
Identities = 87/343 (25%), Positives = 142/343 (41%), Gaps = 51/343 (14%)
Query: 121 LLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHLHPMSQFSAAITAL-NSESK 179
LLV G +P++A++ A + LP+ V T+L P HPM ++ L +
Sbjct: 54 LLVHGKLPTQAELAAYKTKLKALRGLPAAVKTVLEAIPAAAHPMDVMRTGVSVLGCLLPE 113
Query: 180 FAKAYNDGVHKSKYWEYVYEDSMD-LIAKLPVVAATIYRNTFQGGKGIGAIDTNKD---W 235
G D D L+A L + Y + G + I+ D
Sbjct: 114 KEDHNFSGAR----------DIADRLLASLGSILLYWYHYSHNGRR----IEVETDDDSI 159
Query: 236 SANFTSMLGFDNH------QFTELMRLYLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFA 289
+F +L H + + M L ++++HE N S T ++ SD Y +
Sbjct: 160 GGHFLHLL----HGKKPSESWVKAMHTSLILYAEHEF-NASTFTARVIAGTGSDMYSAIT 214
Query: 290 AGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVL 349
+ L GP HG AN EV ++QQ+ + ++ + I +++ +VV G+GH V
Sbjct: 215 GAIGALRGPKHGGAN-EVAF---EIQQRYD---TPDEAEADIRRRVENKEVVIGFGHPVY 267
Query: 350 RKTDPRYTCQREFAQK---HLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGV 406
+DPR +E A+K D L+ + ++ V+ + K +PN+D S V
Sbjct: 268 TISDPRNKVIKEVAKKLSKEAGDTKLYDIAERLETVM-------WEEKKMFPNLDWFSAV 320
Query: 407 LLQYYGL-KEMNYYTVLFGVSRALGVLASLIWDRALGLPIERP 448
G+ M +T LF +SR G A +I R I RP
Sbjct: 321 SYHMMGVPTAM--FTPLFVISRTTGWAAHVIEQRQDN-KIIRP 360
>gnl|CDD|216628 pfam01652, IF4E, Eukaryotic initiation factor 4E.
Length = 162
Score = 47.6 bits (114), Expect = 2e-06
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 491 LSTRYCYHLMRFENRPIWEEPYNQKGGTWRIKCSKRFSI 529
L YHL + +P+WE+P N+ GG W I+ K ++
Sbjct: 51 LPLGSDYHLFKKGIKPMWEDPANKNGGKWTIRLPKSQNL 89
>gnl|CDD|237070 PRK12350, PRK12350, citrate synthase 2; Provisional.
Length = 353
Score = 46.1 bits (110), Expect = 3e-05
Identities = 54/206 (26%), Positives = 90/206 (43%), Gaps = 36/206 (17%)
Query: 257 YLTIHSDHEGGNVSAHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLIWLKKLQQ 316
Y ++H G N S T ++ S +D + + + L+GPLHG A VL L + +
Sbjct: 161 YWVSAAEH-GMNASTFTARVIASTGADVAAALSGAIGALSGPLHGGAPARVLPMLDAV-E 218
Query: 317 QVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKTDPR-----YTCQR------EFAQK 365
+ GD + ++ L G+ + G+GH V R DPR T +R E A+
Sbjct: 219 RTGD------ARGWVKGALDRGERLMGFGHRVYRAEDPRARVLRATAKRLGAPRYEVAE- 271
Query: 366 HLPDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLLQYYGL-KEMNYYTVLFG 424
+ +L +L + P +ET NV+ + VLL + G+ M +T +F
Sbjct: 272 AVEQAALAELRER----RPDRPLET--------NVEFWAAVLLDFAGVPAHM--FTAMFT 317
Query: 425 VSRALGVLASLIWDRALGLPIERPKS 450
R G A ++ + G + RP +
Sbjct: 318 CGRTAGWSAHILEQKRTGRLV-RPSA 342
>gnl|CDD|178137 PLN02522, PLN02522, ATP citrate (pro-S)-lyase.
Length = 608
Score = 36.3 bits (84), Expect = 0.050
Identities = 49/213 (23%), Positives = 83/213 (38%), Gaps = 30/213 (14%)
Query: 251 TELMRLYLTIHSDHEGGNVS-AHTVHLVGSALSDPYLSFAAGMNGLAGPLHGLANQEVLI 309
T+ + + + + +DH G VS AH + A D S +G+ + GP G A +
Sbjct: 400 TKFIEMCIMLCADH-GPCVSGAHNTIVTARAGKDLVSSLVSGLLTI-GPRFGGAIDDAAR 457
Query: 310 WLKKLQQQVGDNVSEEKLKEFIWNTLKSGQVVPGYGHAVLRKT--DPRYTCQREFAQKHL 367
+ K + ++ EF+ K G VPG GH + + D R +++A+ H
Sbjct: 458 YFKDAYDR---GLTPY---EFVEGMKKKGIRVPGIGHRIKSRDNRDKRVELLQKYARTHF 511
Query: 368 PDDSLFKLVSQVYKVVPPVLIETGKVKNPWPNVDAHSGVLL-------------QYYGLK 414
P + QV K N NVD G L + +
Sbjct: 512 PSVKYMEYAVQVETYT------LSKANNLVLNVDGAIGSLFLDLLAGSGMFTKQEIDEIV 565
Query: 415 EMNYYTVLFGVSRALGVLASLIWDRALGLPIER 447
E+ Y LF ++R++G++ + L P+ R
Sbjct: 566 EIGYLNGLFVLARSIGLIGHTFDQKRLKQPLYR 598
>gnl|CDD|227386 COG5053, CDC33, Translation initiation factor 4E (eIF-4E)
[Translation, ribosomal structure and biogenesis].
Length = 217
Score = 34.9 bits (80), Expect = 0.089
Identities = 20/84 (23%), Positives = 34/84 (40%), Gaps = 12/84 (14%)
Query: 443 LPIERPKSL----STNDLVKQYSKTQ--IISLTMIEYYLCAFYIKYGLPEGAFHLSTRYC 496
P+ +L D ++ +S II+ +E + YI + + + R
Sbjct: 37 HPLAFHWTLWFLKPPEDGLESWSDLLKSIITFETVEEFW---YILHNISD--ASRLPRKS 91
Query: 497 -YHLMRFENRPIWEEPYNQKGGTW 519
Y++ R RP WE+ N GG W
Sbjct: 92 DYNVFREGIRPEWEDEANMNGGKW 115
>gnl|CDD|99854 cd06100, CCL_ACL-C, Citryl-CoA lyase (CCL), the C-terminal portion
of the single-subunit type ATP-citrate lyase (ACL) and
the C-terminal portion of the large subunit of the
two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to
acetyl-CoA (AcCoA) and oxaloacetate (OAA). ACL catalyzes
an ATP- and a CoA- dependant cleavage of citrate to form
AcCoA and OAA in a multistep reaction, the final step of
which is likely to involve the cleavage of CiCoA to
generate AcCoA and OAA. In fungi, yeast, plants, and
animals ACL is cytosolic and generates AcCoA for
lipogenesis. ACL may be required for fruiting body
maturation in the filamentous fungus Sordaria
macrospore. In several groups of autotrophic prokaryotes
and archaea, ACL carries out the citrate-cleavage
reaction of the reductive tricarboxylic acid (rTCA)
cycle. In the family Aquificaceae this latter reaction
in the rTCA cycle is carried out via a two enzyme system
the second enzyme of which is CCL; the first enzyme is
citryl-CoA synthetase (CCS) which is not included in
this group. Chlorobium limicola ACL is an example of a
two-subunit type ACL. It is comprised of a large and a
small subunit; it has been speculated that the large
subunit arose from a fusion of the small subunit of the
two subunit CCS with CCL. The small ACL subunit is a
homolog of the larger CCS subunit. Mammalian ACL is of
the single-subunit type and may have arisen from the
two-subunit ACL by another gene fusion. Mammalian ACLs
are homotetramers; the ACLs of C. limicola and
Arabidopsis are a heterooctomers (alpha4beta4). In
cancer cells there is a shift in energy metabolism to
aerobic glycolysis, the glycolytic end product pyruvate
enters a truncated TCA cycle generating citrate which is
cleaved in the cytosol by ACL. Inhibiting ACL limits the
in-vitro proliferation and survival of these cancer
cells, reduces in vivo tumor growth, and induces
differentiation.
Length = 227
Score = 34.1 bits (79), Expect = 0.16
Identities = 44/182 (24%), Positives = 71/182 (39%), Gaps = 16/182 (8%)
Query: 270 SAHTVHLVGSALSDPYLS-FAAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDNVSEEKLK 328
SAH L SA + S AAG+ G G G A + + ++ V + +
Sbjct: 50 SAHAARLTASAGPEDLQSAVAAGLLG-IGDRFGGAGEGAA---RLFKEAVDSGDALDAAA 105
Query: 329 EFIWNTLKS-GQVVPGYGHAVLRKTDPRYTCQREFAQKHLPDDSLFKLVSQVYKVVPPVL 387
++ + +PG+GH V + DPR E A++ P V K
Sbjct: 106 AEFVAEYRAAKKRIPGFGHPVHKNPDPRVPRLLELARELGPAGPHLDYALAVEKA----- 160
Query: 388 IETGKVKNPWPNVDAHSGVLLQYYGLKE--MNYYTVLFGVSRALGVLASLIWDRALGLPI 445
+ K K NVD +L G + LF + R+ G++A + ++ LG P+
Sbjct: 161 LTAAKGKPLPLNVDGAIAAILLDLGFPPGALR---GLFVLGRSPGLIAHALEEKRLGQPL 217
Query: 446 ER 447
R
Sbjct: 218 YR 219
>gnl|CDD|217621 pfam03573, OprD, outer membrane porin, OprD family. This family
includes outer membrane proteins related to OprD. OprD
has been described as a serine type peptidase. However
the proposed catalytic residues are not conserved
suggesting that many of these proteins are not
peptidases.
Length = 391
Score = 31.0 bits (71), Expect = 1.9
Identities = 12/37 (32%), Positives = 15/37 (40%), Gaps = 3/37 (8%)
Query: 215 IYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDNHQFT 251
YR G G ID N+ +S FT H F+
Sbjct: 228 YYRTRDDGQARAGEID-NRTYSLLFT--YRHGGHTFS 261
>gnl|CDD|205036 pfam12715, Abhydrolase_7, Abhydrolase family. This is a family of
probable bacterial abhydrolases.
Length = 389
Score = 31.0 bits (70), Expect = 2.0
Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 14/73 (19%)
Query: 332 WNTLKS----GQVVPGYG--HAVLRKTDPRYTCQREFAQKHLP--DDSLFKLVSQVYKVV 383
+KS G+ + YG H +L T+P + + K P + K + ++ K
Sbjct: 7 HAVIKSDRSDGRFLSSYGIVHTMLEDTEPACAFSPDMSPKEFPKWQKKVRKAMQEIMKFP 66
Query: 384 P------PVLIET 390
P PV ++T
Sbjct: 67 PQKDIPAPVCVKT 79
>gnl|CDD|133434 cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA-
and pagL-like glycosidases. Bacillus subtilis GlvA and
Clostridium acetobutylicum pagL are
6-phospho-alpha-glucosidase, catalyzing the hydrolysis
of alpha-glucopyranoside bonds to release glucose from
oligosaccharides. The substrate specificities of other
members of this subgroup are unknown. Some bacteria
simultaneously translocate and phosphorylate
disaccharides via the phosphoenolpyruvate-dependent
phosphotransferase system (PEP_PTS). After
translocation, these phospho-disaccharides may be
hydrolyzed by the GH4 glycoside hydrolases, which
include 6-phospho-beta-glucosidases,
6-phospho-alpha-glucosidases,
alpha-glucosidases/alpha-glucuronidases (only from
Thermotoga), and alpha-galactosidases. Members of this
subfamily are part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 437
Score = 30.3 bits (69), Expect = 3.2
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 108 KGGEEPLPEGLFWLLVTGDVPSEAQVQALSKSWASRAELPSHVVTMLNNFPNHL 161
K GE+ LP+ + G +P ++ + SW + M+ +FP++L
Sbjct: 206 KQGEDLLPKLREHVKENGYLPPDSDEEHRDPSWNDTFA---NAKDMMADFPDYL 256
>gnl|CDD|235748 PRK06224, PRK06224, citrate synthase; Provisional.
Length = 263
Score = 29.8 bits (68), Expect = 3.4
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 289 AAGMNGLAGPLHGLANQEVLIWLKKLQQQVGDN-----VSEEKLKEFIWNTLKSGQVVPG 343
AAG+ L G +HG A ++ L+++ + + E+ +G+ VPG
Sbjct: 92 AAGLLAL-GSVHGGAGEQAAELLQEIAAAADAGADLDAAARAIVAEY----RAAGKRVPG 146
Query: 344 YGHAVLRKTDPR 355
+GH + + DPR
Sbjct: 147 FGHPLHKPVDPR 158
>gnl|CDD|234016 TIGR02791, VirB5, P-type DNA transfer protein VirB5. The VirB5
protein is involved in the type IV DNA secretion systems
typified by the Agrobacterium Ti plasmid vir system
where it interacts with several other proteins essential
for proper pilus formation. VirB5 is homologous to the
IncN (N-type) conjugation system protein TraC as well as
the P-type protein TrbJ and the F-type protein TraE.
Length = 220
Score = 29.9 bits (67), Expect = 3.5
Identities = 22/124 (17%), Positives = 42/124 (33%), Gaps = 4/124 (3%)
Query: 131 AQVQALSKSWASRAELP-SHVVTMLNNFPNHLHPMSQFSAAITALNSESKFAKAYNDGVH 189
A AL+ + A+ A +P + ++ N + M+ L+ + + K +
Sbjct: 9 ALTAALAAASAAVAGIPVTDPASIANALAQAIEQMAALKTQYEQLSEQIEQYKQQYGSLT 68
Query: 190 KSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSAN--FTSMLGFDN 247
++ + D L LP A IY GG D +S + S +
Sbjct: 69 GNRGMGDLLNDPA-LRRYLPFDWAAIYEGVLSGGYTGVMGDWASIYSTGRVYDSCTRYAA 127
Query: 248 HQFT 251
+
Sbjct: 128 NSDR 131
>gnl|CDD|151579 pfam11135, DUF2888, Protein of unknown function (DUF2888). Some
members in this family of proteins with unknown function
are annotated as immediate early protein ICP-18 however
this cannot be confirmed.
Length = 146
Score = 29.2 bits (65), Expect = 4.3
Identities = 23/95 (24%), Positives = 34/95 (35%), Gaps = 20/95 (21%)
Query: 510 EPYNQKGGTWRIKCSKRFSICIS--LTHSLGQITPTPKPQSGLSVYVV--LTLF------ 559
EP+ KG I + F+I + + S ++ P + +VV +F
Sbjct: 2 EPFQCKGDLCEIPFGRNFTIDLVNFMKKSEFEVKIEMSPHHDIGTFVVEPKKMFSIKRAA 61
Query: 560 -------VMMLRAWQIAPTPKPQSGLFVTRKSLHP 587
V W A TP+ S F R LHP
Sbjct: 62 KGDAAFKVARAAGWL-ADTPQTLSAFFYER--LHP 93
>gnl|CDD|216402 pfam01268, FTHFS, Formate--tetrahydrofolate ligase.
Length = 557
Score = 30.1 bits (69), Expect = 4.8
Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 7/59 (11%)
Query: 189 HKSKYWEYVYEDSMDLIAKLPVVAATIYRNTFQGGKGIGAIDTNKDWSANFTSMLGFDN 247
S + + +Y+ + L K+ +A IY G G+ K A + GF +
Sbjct: 431 QPSNF-KPLYDLELSLEEKIETIATEIY-----GADGVEFSPKAKKQLARIEKL-GFGH 482
>gnl|CDD|234623 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate
reductase/S1 RNA-binding domain protein; Reviewed.
Length = 647
Score = 29.9 bits (68), Expect = 5.5
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 324 EEKLKEFIWNTLKSGQVVPG 343
+EK KE WN+L+ G VV G
Sbjct: 464 KEKKKEETWNSLEEGDVVEG 483
>gnl|CDD|213231 cd03264, ABC_drug_resistance_like, ABC-type multidrug transport
system, ATPase component. The biological function of
this family is not well characterized, but display ABC
domains similar to members of ABCA subfamily. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 211
Score = 28.7 bits (65), Expect = 7.9
Identities = 19/40 (47%), Positives = 22/40 (55%), Gaps = 13/40 (32%)
Query: 69 GGMR---GI-KGLVCETSV---------LDPEEGIRFRGL 95
GGMR GI + LV + S+ LDPEE IRFR L
Sbjct: 133 GGMRRRVGIAQALVGDPSILIVDEPTAGLDPEERIRFRNL 172
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
0.320 0.135 0.414
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 32,773,476
Number of extensions: 3183691
Number of successful extensions: 2713
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2571
Number of HSP's successfully gapped: 55
Length of query: 645
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 542
Effective length of database: 6,369,140
Effective search space: 3452073880
Effective search space used: 3452073880
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 (21.8 bits)
S2: 62 (27.9 bits)