RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|255764509|ref|YP_003065434.2| hydroxymethylglutaryl-coenzyme
A (HMG-CoA) reductase [Candidatus Liberibacter asiaticus str. psy62]
(351 letters)
>gnl|CDD|153081 cd00643, HMG-CoA_reductase_classI, Class I
hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase
(HMGR). Hydroxymethylglutaryl-coenzyme A (HMG-CoA)
reductase (HMGR), class I enzyme, homotetramer.
Catalyzes the synthesis of coenzyme A and mevalonate in
isoprenoid synthesis. In mammals this is the rate
limiting committed step in cholesterol biosynthesis.
Class I enzymes are found predominantly in eukaryotes
and contain N-terminal membrane regions. With the
exception of Archaeoglobus fulgidus, most archeae are
assigned to class I, based on sequence similarity of the
active site, even though they lack membrane regions.
Yeast and human HMGR are divergent in their N-terminal
regions, but are conserved in their active site. In
contrast, human and bacterial HMGR differ in their
active site architecture.
Length = 403
Score = 320 bits (823), Expect = 3e-88
Identities = 142/332 (42%), Positives = 188/332 (56%), Gaps = 5/332 (1%)
Query: 16 IGPMKITGNVIQDKVKVPLATYEYPLWHSVKRGAHISMLCPDGIRATLIDERMTRSIFFE 75
GP+ I G + VP+AT E L S RG L G ++ + MTR+ F
Sbjct: 75 AGPLLINGEYAGGEFYVPMATTEGALVASTNRGCKAINLS-GGATTRVLGDGMTRAPVFR 133
Query: 76 TENAEMALTALQEITLKKAEIARVIEQTSQFTRFLQLHSQIAGNLLFLRLEFATGDASGH 135
+A A I I V E TS+ R + IAG ++LR E+ TGDA G
Sbjct: 134 FPSAREAAEFKAWIEENFEAIKEVAESTSRHARLQSIKPYIAGRSVYLRFEYTTGDAMGM 193
Query: 136 NMVTKAADAVMDWILSQWSYLHYGSVSGNICSDKKATAINGIMGRGKNFVAEITINRAIC 195
NMVTKA +A DWI + + S+SGN C+DKK +AIN I GRGK+ VAE TI R +
Sbjct: 194 NMVTKATEAACDWIEENFPDMEVISLSGNFCTDKKPSAINWIEGRGKSVVAEATIPREVV 253
Query: 196 QKYLRTSPEKIILLNTQKNLIGTFLAGGIRSANAHFANMLLAYYLATGQDAANIVEGSQG 255
++ L+T+PE ++ +N KNLIG+ +A G NAH AN++ A ++ATGQDAA +VE S
Sbjct: 254 KEVLKTTPEALVEVNIAKNLIGSAMA-GSGGFNAHAANIVAAIFIATGQDAAQVVESSNC 312
Query: 256 LTYAKLH-DDSLYFSCTIPNLILGCVGNGKNIPAIKNNLTALGCIEERKT-GDNARRLAA 313
+T +L D LY S T+P+L +G VG G +P + L LGC G NAR+LA
Sbjct: 313 ITTMELTADGDLYISVTMPSLEVGTVGGGTGLPTQRECLELLGCYGAGDEPGANARKLAE 372
Query: 314 ICAATVLCGELSLLAAQTNPGELMEAHLRLER 345
I AATVL GELSLLAA G L+ +H +L R
Sbjct: 373 IVAATVLAGELSLLAALAA-GHLVRSHEKLGR 403
>gnl|CDD|144090 pfam00368, HMG-CoA_red, Hydroxymethylglutaryl-coenzyme A reductase.
The HMG-CoA reductases catalyse the conversion of
HMG-CoA to mevalonate, which is the rate-limiting step
in the synthesis of isoprenoids like cholesterol.
Probably because of the critical role of this enzyme in
cholesterol homeostasis, mammalian HMG-CoA reductase is
heavily regulated at the transcriptional, translational,
and post-translational levels.
Length = 370
Score = 294 bits (756), Expect = 2e-80
Identities = 135/341 (39%), Positives = 191/341 (56%), Gaps = 12/341 (3%)
Query: 6 VSSISMPMRWIGPMKITGNVIQDKVKVPLATYEYPLWHSVKRGAHISMLCPDGIRATLID 65
+ + +P+ GP+ I G + VP+AT E L S RGA G+ ++
Sbjct: 41 IGYVQVPLGVAGPLLING----KEYYVPMATTEGALVASANRGAKAIRAS-GGVTTRVLG 95
Query: 66 ERMTRSIFFETENAEMALTALQEITLKKAEIARVIEQTSQFTRFLQLHSQIAGNLLFLRL 125
+ MTR+ F + A I EI E TS+ + IAG +++LR
Sbjct: 96 DGMTRAPVFRFPSVRDAAEFKAWIEENFEEIKEAAESTSRHGGLQDIEPYIAGRMVYLRF 155
Query: 126 EFATGDASGHNMVTKAADAVMDWILSQWSYLHYGSVSGNICSDKKATAINGIMGRGKNFV 185
+ TGDA G NMVTKA +A ++I ++ + ++SGN+C+DKK +AIN I GRGK+ V
Sbjct: 156 IYDTGDAMGMNMVTKATEAACEFIEEEFPGMELLALSGNLCTDKKPSAINWIEGRGKSVV 215
Query: 186 AEITINRAICQKYLRTSPEKIILLNTQKNLIGTFLAGGIRSANAHFANMLLAYYLATGQD 245
AE I + +K L+T+PE ++ +NT KNL G+ LAG I NAH AN + A ++ATGQD
Sbjct: 216 AEAVIPAEVVEKVLKTTPEALVEINTAKNLAGSALAGAI-GFNAHAANGVAAVFIATGQD 274
Query: 246 AANIVEGSQGLTYAKLHDDS-LYFSCTIPNLILGCVGNGKNIPAIKNNLTALGCIEERKT 304
A +VE S +T + D LY S T+P+L +G VG G +P + L LG K
Sbjct: 275 PAQVVESSHAITTMEGTYDGDLYGSVTLPSLEVGTVGGGTGLPTQRACLELLGV----KG 330
Query: 305 GDNARRLAAICAATVLCGELSLLAAQTNPGELMEAHLRLER 345
G NA++LA I AA VL GELSLLAA G L++AH++L R
Sbjct: 331 GGNAKKLAEIIAAVVLAGELSLLAALAA-GHLVKAHMKLGR 370
>gnl|CDD|37691 KOG2480, KOG2480, KOG2480, 3-hydroxy-3-methylglutaryl-CoA (HMG-CoA)
reductase [Lipid transport and metabolism].
Length = 602
Score = 247 bits (631), Expect = 4e-66
Identities = 129/342 (37%), Positives = 187/342 (54%), Gaps = 11/342 (3%)
Query: 9 ISMPMRWIGPMKITGNVIQDKVKVPLATYEYPLWHSVKRGAHISMLCPDGIRATLIDERM 68
+ +P+ GP+ + G VP+AT E L S RG G + L + M
Sbjct: 245 MPIPVGVAGPLLLDGTEYY----VPMATTEGALVASTNRGCKAINAG-GGATSVLEKDGM 299
Query: 69 TRSIFFETENAEMALTALQEITLKKAE--IARVIEQTSQFTRFLQLHSQIAGNLLFLRLE 126
TR +A A A + + + + + TS+F R +H+ IAG L++R
Sbjct: 300 TRGPVVRFPSARRAAEAKIWLESPENQEVLKKAFNSTSRFARLQSIHTTIAGRNLYIRFC 359
Query: 127 FATGDASGHNMVTKAADAVMDWILSQWSYLHYGSVSGNICSDKKATAINGIMGRGKNFVA 186
+TGDA G NM++K + + ++ ++ + S+SGN C+DKK AIN I GRGK+ VA
Sbjct: 360 TSTGDAMGMNMISKGVENALRFLSEEFPDMQVISISGNYCTDKKPAAINWIEGRGKSVVA 419
Query: 187 EITINRAICQKYLRTSPEKIILLNTQKNLIGTFLAGGIRSANAHFANMLLAYYLATGQDA 246
E TI + +K L+T+ E ++ LN KNLIG+ +AG + NAH AN++ A +LATGQD
Sbjct: 420 EATIPGEVVRKVLKTTVEALVELNILKNLIGSAMAGSVGGFNAHAANIVTAVFLATGQDP 479
Query: 247 ANIVEGSQGLTYAKLHDD-SLYFSCTIPNLILGCVGNGKNIPAIKNNLTALGCIEERKT- 304
A VE S +T + D LY S T+P++ +G VG G + L LG KT
Sbjct: 480 AQNVESSNCITLMEASTDGDLYISVTMPSIEVGTVGGGTVLEPQGACLDLLGVRGAHKTS 539
Query: 305 -GDNARRLAAICAATVLCGELSLLAAQTNPGELMEAHLRLER 345
GDNAR+LA I AA VL GELSL+AA G L+++H++L R
Sbjct: 540 PGDNARQLARIVAAAVLAGELSLMAALAA-GHLVKSHMKLNR 580
>gnl|CDD|31449 COG1257, HMG1, Hydroxymethylglutaryl-CoA reductase [Lipid
metabolism].
Length = 436
Score = 213 bits (543), Expect = 6e-56
Identities = 121/353 (34%), Positives = 171/353 (48%), Gaps = 20/353 (5%)
Query: 6 VSSISMPMRWIGPMKITGNVIQDKVKVPLATYEYPLWHSVKRGAHISMLCPDGIRATLID 65
+ ++ +P+ GP+ I G +P+AT E L S RGA + G A + +
Sbjct: 66 IGTVQLPLGIAGPLLINGKEYY----IPMATTEGALVASASRGAKLITAS-GGATARVTE 120
Query: 66 ERMTRSIFFETENAEMALTALQEITLKK--AEIARVIEQTSQFTRFLQLHSQIAGNLLFL 123
+ MTR F + A + K+ T + + + + + GNLL+L
Sbjct: 121 DGMTRQPVFRFVSLPEAAKFAIWVKKKEIIELAKEAAPSTGRGGKLIHIEPFVEGNLLYL 180
Query: 124 RLEFATGDASGHNMVTKAADAVMDWI-LSQWSYLHYGSVSGNICSDKKATAINGIMGRGK 182
R TGDA G NMV A +AV +I + ++S N+C+DKK AIN I GRGK
Sbjct: 181 RFYVDTGDAMGMNMVNIATEAVAPFIEEETFGGAVLLAISSNLCTDKKPAAINSIEGRGK 240
Query: 183 NFVAEITINRAICQKYLRTSPEKIILLNTQKNLIGTFLAGGIRSANAHFANMLLAYYLAT 242
VAE TI + +K L+ +PE I+ +N K L G + GI NAH AN + A AT
Sbjct: 241 TVVAEATIPEEVVKKILKATPEAIVDVNRAKTLNGGAMN-GIDGFNAHTANDVRAIEAAT 299
Query: 243 GQDAANIVEGSQGLTYAKLHDDS-LYFSCTIPNLILGCVGNGKNIPAIKNNLTALGC--- 298
GQDAA + E S +T+ + D LY S T+P+L++G G G +P + L LG
Sbjct: 300 GQDAAQVGEYSPLITWMEDQRDGDLYGSVTLPSLVVGTGGGGTVLPTQREALKILGVAGA 359
Query: 299 ------IEERKTGDNARRLAAICAATVLCGELSLLAAQTNPGELMEAHLRLER 345
+ NA LAA+ A +L GE+SLLAA G L AH L R
Sbjct: 360 GELAGVLAAVGLAQNAAALAALVAEGILAGEMSLLAALAA-GHLGAAHDELGR 411
>gnl|CDD|153080 cd00365, HMG-CoA_reductase, Hydroxymethylglutaryl-coenzyme A
(HMG-CoA) reductase (HMGR).
Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase
(HMGR) is a tightly regulated enzyme, which catalyzes
the synthesis of coenzyme A and mevalonate in isoprenoid
synthesis. In mammals, this is the rate limiting
committed step in cholesterol biosynthesis. Bacteria,
such as Pseudomonas mevalonii, which rely solely on
mevalonate for their carbon source, catalyze the reverse
reaction, using an NAD-dependent HMGR to deacetylate
mevalonate into 3-hydroxy-3-methylglutaryl-CoA. There
are two classes of HMGR: class I enzymes which are found
predominantly in eukaryotes and contain N-terminal
membrane regions and class II enzymes which are found
primarily in prokaryotes and are soluble as they lack
the membrane region. With the exception of Archaeoglobus
fulgidus, most archeae are assigned to class I, based on
sequence similarity of the active site, even though they
lack membrane regions. Yeast and human HMGR are
divergent in their N-terminal regions, but are conserved
in their active site. In contrast, human and bacterial
HMGR differ in their active site architecture. While the
prokaryotic enzyme is a homodimer, the eukaryotic enzyme
is a homotetramer.
Length = 376
Score = 86.6 bits (214), Expect = 8e-18
Identities = 63/353 (17%), Positives = 109/353 (30%), Gaps = 47/353 (13%)
Query: 11 MPMRWIGPMKITGNVIQDKVKVPLATYEYPLWHSVKRGAHISMLCPDGIRATLIDERMTR 70
+P +I G + VPL T E + + A ++ ++ +
Sbjct: 53 LPYAVASNFQIDGRDVL----VPLVTEEPSIVAAASYMAKLARAGGGFTTSSSAPLMHAQ 108
Query: 71 SIFFETENAEMALTALQEITLKKAEIARVIEQTSQFT-----RFLQLHSQIAGNLLFLRL 125
++ A +L K EI + + Q + G +L L
Sbjct: 109 VQIVLIQDPLNAKLSLL--RSGKDEIIELANRKDQLLNSLGGGCRDIEVHTFGPMLVAHL 166
Query: 126 EFATGDASGHNMVTKAADAVMDWILSQWSYLHYGSVSGNICSDKKATAINGIMGRGKNFV 185
GDA G NM+ A+AV + + + S + + G G+
Sbjct: 167 IVDVGDAMGANMINTMAEAVAPLMEAYTGGMQVRLRSLSNLT-----------GDGRLAR 215
Query: 186 AEITINRAICQKYL---RTSPEKIILLNTQKNLIGTFLAGGIRSANAHFANMLLAYYLAT 242
A+ I + E I+ K + ++ A N N + +A
Sbjct: 216 AQARITPQQLETAEFSGEAVIEGILDAYAFKAAVDSYRAAT---HNKGIMNGVDPLIVAC 272
Query: 243 GQDAANIVEGSQGL---------TYAKLHDDSLYFSCTIPNLILGCVGNGKNIPAIKNNL 293
GQD + G+ T+ K ++ L + + + +G VG
Sbjct: 273 GQDWRAVEVGAHAYACRHYGSLTTWEKDNNGHLVITLEMS-MPVGLVGGA-------TKT 324
Query: 294 TALGCIEERKTG-DNARRLAAICAATVLCGELSLLAAQTNPGELMEAHLRLER 345
L R G A+ LA I A L L + A G + H+ L
Sbjct: 325 HPLAQASLRILGVKTAQALARIAVAVGLAQNLGAMRALATEG-IQRGHMALHA 376
>gnl|CDD|146977 pfam04596, Pox_F15, Poxvirus protein F15.
Length = 137
Score = 30.4 bits (69), Expect = 0.78
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 256 LTYAKLHDDSLYFSCTIPNLILGCVGNGKNIPAIKNNLTALGCIEERKTGDN 307
L Y+ H + +P+ +L C+ A KNN T CI + + D+
Sbjct: 57 LLYSPFHFQQPQYQYLLPSFVLKCIDE-----ANKNNKTCKYCITNKGSDDD 103
>gnl|CDD|153082 cd00644, HMG-CoA_reductase_classII, Class II
hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase
(HMGR). Hydroxymethylglutaryl-coenzyme A (HMG-CoA)
reductase (HMGR), class II, prokaryotic enzyme is a
homodimer. Class II enzymes are found primarily in
prokaryotes and Archaeoglobus fulgidus and are soluble
as they lack the membrane region. Enzymes catalyze the
synthesis of coenzyme A and mevalonate in isoprenoid
synthesis. Bacteria, such as Pseudomonas mevalonii,
which rely solely on mevalonate for their carbon source,
catalyze the reverse reaction, using an NAD-dependent
HMGR to deacetylate mevalonate into
3-hydroxy-3-methylglutaryl-CoA. Human and bacterial HMGR
differ in their active site architecture.
Length = 417
Score = 29.8 bits (68), Expect = 1.3
Identities = 27/91 (29%), Positives = 37/91 (40%), Gaps = 23/91 (25%)
Query: 240 LATGQD-----------AANIVEGS-QGLTYAKLHDDSLYFSCTIPNLILGCVGNGKNI- 286
LATG D AA G + L+ ++ D L +P L +G VG +
Sbjct: 270 LATGNDWRAVEAGAHAYAAR--SGQYRSLSTWEIDDGKLVGELELP-LAVGTVGGSTKVH 326
Query: 287 PAIKNNLTALGCIEERKTGDNARRLAAICAA 317
P K L LG + +A+ LA I AA
Sbjct: 327 PLAKLALKILG-VP------SAKELAEIIAA 350
>gnl|CDD|185732 cd08991, GH43_bXyl_2, Glycosyl hydrolase family 43. This glycosyl
hydrolase family 43 (GH43) includes enzymes that have
been characterized with xylan-digesting beta-xylosidase
(EC 3.2.1.37) and xylanase (endo-alpha-L-arabinanase)
activities. These are all inverting enzymes (i.e. they
invert the stereochemistry of the anomeric carbon atom
of the substrate) that have an aspartate as the
catalytic general base, a glutamate as the catalytic
general acid and another aspartate that is responsible
for pKa modulation and orienting the catalytic acid.
Many of the enzymes in this family display both
alpha-L-arabinofuranosidase and beta-D-xylosidase
activity using aryl-glycosides as substrates. A common
structural feature of GH43 enzymes is a 5-bladed
beta-propeller domain that contains the catalytic acid
and catalytic base. A long V-shaped groove, partially
enclosed at one end, forms a single extended
substrate-binding surface across the face of the
propeller.
Length = 294
Score = 28.5 bits (64), Expect = 3.1
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 133 SGHNMVTKAADAVMDWI 149
+GHN V K+ D +I
Sbjct: 244 TGHNSVVKSPDGGELYI 260
>gnl|CDD|38856 KOG3651, KOG3651, KOG3651, Protein kinase C, alpha binding protein
[Signal transduction mechanisms].
Length = 429
Score = 28.1 bits (62), Expect = 3.4
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 199 LRTSPEKIILLNTQKNLIGTFLAGG 223
+R E + L +KNLIG + GG
Sbjct: 1 MRIQSETVELTKDEKNLIGISIGGG 25
>gnl|CDD|32461 COG2307, COG2307, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 313
Score = 28.0 bits (62), Expect = 4.2
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 63 LIDERMTRSIFFETENAEMALTALQEITLKKAEIARVIEQTSQFTRFLQLHSQIAG 118
L+DE RS+ ++ E E L+ L + R+ + L+L + A
Sbjct: 224 LLDELNPRSLLYQLEELEANLSELPGSFGSRHGAHRMAGRLR---ASLRLELEAAI 276
>gnl|CDD|32270 COG2087, CobU, Adenosyl cobinamide kinase/adenosyl cobinamide
phosphate guanylyltransferase [Coenzyme metabolism].
Length = 175
Score = 26.7 bits (59), Expect = 9.6
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 6/33 (18%)
Query: 218 TFLAGGIRSANAHFANMLLA------YYLATGQ 244
+ GG RS + FA L Y+ATG+
Sbjct: 3 ILVTGGARSGKSSFAEALAGESGGQVLYVATGR 35
>gnl|CDD|133096 cd06238, Peptidase_M14-like_1_1, Peptidase M14-like domain of a
functionally uncharacterized subgroup of the M14 family
of metallocarboxypeptidases (MCPs). The M14 family are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. Two major subfamilies of the M14 family,
defined based on sequence and structural homology, are
the A/B and N/E subfamilies. Enzymes belonging to the
A/B subfamily are normally synthesized as inactive
precursors containing preceding signal peptide, followed
by an N-terminal pro-region linked to the enzyme; these
proenzymes are called procarboxypeptidases. The A/B
enzymes can be further divided based on their substrate
specificity; Carboxypeptidase A-like (CPA-like) enzymes
favor hydrophobic residues while carboxypeptidase B-like
(CPB-like) enzymes only cleave the basic residues lysine
or arginine. The A forms have slightly different
specificities, with Carboxypeptidase A1 (CPA1)
preferring aliphatic and small aromatic residues, and
CPA2 preferring the bulky aromatic side chains. Enzymes
belonging to the N/E subfamily enzymes are not produced
as inactive precursors and instead rely on their
substrate specificity and subcellular
compartmentalization to prevent inappropriate cleavage.
They contain an extra C-terminal transthyretin-like
domain, thought to be involved in folding or formation
of oligomers. MCPs can also be classified based on
their involvement in specific physiological processes;
the pancreatic MCPs participate only in alimentary
digestion and include carboxypeptidase A and B (A/B
subfamily), while others, namely regulatory MCPs or the
N/E subfamily, are involved in more selective reactions,
mainly in non-digestive tissues and fluids, acting on
blood coagulation/fibrinolysis, inflammation and local
anaphylaxis, pro-hormone and neuropeptide processing,
cellular response and others. Another MCP subfamily,
is that of succinylglutamate desuccinylase
/aspartoacylase, which hydrolyzes N-acetyl-L-aspartate
(NAA), and deficiency in which is the established cause
of Canavan disease. Another subfamily (referred to as
subfamily C) includes an exceptional type of activity in
the MCP family, that of dipeptidyl-peptidase activity of
gamma-glutamyl-(L)-meso-diaminopimelate peptidase I
which is involved in bacterial cell wall metabolism.
Length = 271
Score = 26.8 bits (60), Expect = 9.6
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 232 ANMLLAYYLATGQDAA 247
A +L AY+LA Q
Sbjct: 67 AALLTAYHLAAAQGDE 82
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.134 0.395
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,013,608
Number of extensions: 202396
Number of successful extensions: 437
Number of sequences better than 10.0: 1
Number of HSP's gapped: 418
Number of HSP's successfully gapped: 15
Length of query: 351
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 256
Effective length of database: 4,210,882
Effective search space: 1077985792
Effective search space used: 1077985792
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 (21.9 bits)
S2: 58 (26.1 bits)