RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7291
(158 letters)
>gnl|CDD|215368 PLN02683, PLN02683, pyruvate dehydrogenase E1 component subunit
beta.
Length = 356
Score = 212 bits (541), Expect = 5e-69
Identities = 93/153 (60%), Positives = 113/153 (73%), Gaps = 15/153 (9%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQ 60
V++PY+SEDA+GLLKAAIRDPDPVVFLENELLYG +P+ E L FVLPIGKAK+E++
Sbjct: 168 VLAPYSSEDARGLLKAAIRDPDPVVFLENELLYGESFPVSAEVLDSSFVLPIGKAKIERE 227
Query: 61 GEAFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIET 120
GKD+TIV SK V AL AA+ILA +GI AEVINLRS+RPLD +T
Sbjct: 228 ---------------GKDVTIVAFSKMVGYALKAAEILAKEGISAEVINLRSIRPLDRDT 272
Query: 121 ITKSVMKTNYLISVEGGWPQCGIGSEISARIME 153
I SV KTN L++VE GWPQ G+G+EI A ++E
Sbjct: 273 INASVRKTNRLVTVEEGWPQHGVGAEICASVVE 305
Score = 32.9 bits (75), Expect = 0.054
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 62 EAFYHLDAPVIRVTGKDI 79
E+F +LDAPV R+ G D+
Sbjct: 306 ESFDYLDAPVERIAGADV 323
>gnl|CDD|237011 PRK11892, PRK11892, pyruvate dehydrogenase subunit beta;
Provisional.
Length = 464
Score = 213 bits (544), Expect = 3e-68
Identities = 86/155 (55%), Positives = 112/155 (72%), Gaps = 22/155 (14%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQY--PMGDEALSKDFVLPIGKAKVE 58
VV+PY++ DAKGLLKAAIRDP+PV+FLENE+LYG + P D DFVLPIGKA++
Sbjct: 283 VVAPYSAADAKGLLKAAIRDPNPVIFLENEILYGQSFDVPKLD-----DFVLPIGKARIH 337
Query: 59 KQGEAFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDI 118
++G KD+TIV S + AL AA+ LA +GIDAEVI+LR++RP+D
Sbjct: 338 REG---------------KDVTIVSFSIGMTYALKAAEELAKEGIDAEVIDLRTIRPMDT 382
Query: 119 ETITKSVMKTNYLISVEGGWPQCGIGSEISARIME 153
ETI +SV KTN L++VE GWPQ G+G+EI+AR+ME
Sbjct: 383 ETIVESVKKTNRLVTVEEGWPQSGVGAEIAARVME 417
Score = 36.0 bits (84), Expect = 0.004
Identities = 13/18 (72%), Positives = 17/18 (94%)
Query: 62 EAFYHLDAPVIRVTGKDI 79
+AF +LDAPV+RVTGKD+
Sbjct: 418 QAFDYLDAPVLRVTGKDV 435
>gnl|CDD|185502 PTZ00182, PTZ00182, 3-methyl-2-oxobutanate dehydrogenase;
Provisional.
Length = 355
Score = 202 bits (516), Expect = 2e-65
Identities = 81/153 (52%), Positives = 99/153 (64%), Gaps = 18/153 (11%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQ 60
VV+P + EDAKGLLKAAIRDP+PVVF E +LLY + EA D+ LP+GKAKV ++
Sbjct: 176 VVAPSDPEDAKGLLKAAIRDPNPVVFFEPKLLYRESVEVVPEA---DYTLPLGKAKVVRE 232
Query: 61 GEAFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIET 120
G KD+TIVG+ V AL AA+ LA +GI EVI+LRSLRP D ET
Sbjct: 233 G---------------KDVTIVGYGSQVHVALKAAEELAKEGISCEVIDLRSLRPWDRET 277
Query: 121 ITKSVMKTNYLISVEGGWPQCGIGSEISARIME 153
I KSV KT + V P CGIG+EI+A+IME
Sbjct: 278 IVKSVKKTGRCVIVHEAPPTCGIGAEIAAQIME 310
Score = 35.7 bits (83), Expect = 0.006
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 60 QGEAFYHLDAPVIRVTGKDI 79
+ F +L+AP+ RV G D
Sbjct: 309 MEDCFLYLEAPIKRVCGADT 328
>gnl|CDD|223101 COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex,
dehydrogenase (E1) component, eukaryotic type, beta
subunit [Energy production and conversion].
Length = 324
Score = 186 bits (474), Expect = 3e-59
Identities = 72/153 (47%), Positives = 92/153 (60%), Gaps = 18/153 (11%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQ 60
VV P DAKGLLKAAIRDPDPV+FLE++ LY E +D+ +P+GKAK+ ++
Sbjct: 143 VVMPSTPYDAKGLLKAAIRDPDPVIFLEHKRLYRSF---KGEVPEEDYTIPLGKAKIVRE 199
Query: 61 GEAFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIET 120
G D+TIV + V TAL+AA+ L +GI AEVI+LR+L PLD ET
Sbjct: 200 G---------------SDVTIVTYGAMVHTALEAAEELEKEGISAEVIDLRTLSPLDKET 244
Query: 121 ITKSVMKTNYLISVEGGWPQCGIGSEISARIME 153
I SV KT L+ V GIG+EI+A I E
Sbjct: 245 IIASVKKTGRLVIVHEAPKTGGIGAEIAALIAE 277
Score = 39.4 bits (93), Expect = 3e-04
Identities = 19/41 (46%), Positives = 27/41 (65%), Gaps = 3/41 (7%)
Query: 62 EAFYHLDAPVIRVTGKDITIVGHSKAVETA--LDAAKILAG 100
EAF +LDAP++RV G D T V +S A+E A + +I+A
Sbjct: 278 EAFDYLDAPILRVAGPD-TPVPYSAALEKAYLPNPERIVAA 317
>gnl|CDD|169719 PRK09212, PRK09212, pyruvate dehydrogenase subunit beta; Validated.
Length = 327
Score = 175 bits (446), Expect = 4e-55
Identities = 77/153 (50%), Positives = 103/153 (67%), Gaps = 19/153 (12%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQ 60
VV+PY + D KGLLK AIRDP+PV+FLENE+LYG + + +E S +PIGKA + ++
Sbjct: 145 VVAPYFAADCKGLLKTAIRDPNPVIFLENEILYGHSHEVPEEEES----IPIGKAAILRE 200
Query: 61 GEAFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIET 120
G D+TIV S V+ AL+AA++L +GI EVI+LR+LRPLD ET
Sbjct: 201 G---------------SDVTIVTFSIQVKLALEAAELLEKEGISVEVIDLRTLRPLDTET 245
Query: 121 ITKSVMKTNYLISVEGGWPQCGIGSEISARIME 153
I +SV KTN L+ VE GWP G+G+EI+A IM+
Sbjct: 246 IIESVKKTNRLVVVEEGWPFAGVGAEIAALIMK 278
Score = 35.1 bits (81), Expect = 0.009
Identities = 14/20 (70%), Positives = 16/20 (80%)
Query: 60 QGEAFYHLDAPVIRVTGKDI 79
EAF +LDAPV RVTGKD+
Sbjct: 277 MKEAFDYLDAPVERVTGKDV 296
>gnl|CDD|177066 CHL00144, odpB, pyruvate dehydrogenase E1 component beta subunit;
Validated.
Length = 327
Score = 114 bits (286), Expect = 2e-31
Identities = 61/151 (40%), Positives = 91/151 (60%), Gaps = 22/151 (14%)
Query: 3 SPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQGE 62
+PYN AKGLLK+AIR +PV+F E+ LLY ++ +E +++LP+ KA+V + G
Sbjct: 150 TPYN---AKGLLKSAIRSNNPVIFFEHVLLYNLK----EEIPDNEYLLPLEKAEVVRPG- 201
Query: 63 AFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETIT 122
DITI+ +S+ L A K+L +G D E+I+L SL+PLD+ TI+
Sbjct: 202 --------------NDITILTYSRMRHHVLQAVKVLVEKGYDPEIIDLISLKPLDLGTIS 247
Query: 123 KSVMKTNYLISVEGGWPQCGIGSEISARIME 153
KSV KT+ ++ VE GIG+E+ A+I E
Sbjct: 248 KSVKKTHKVLIVEECMKTGGIGAELIAQINE 278
>gnl|CDD|217227 pfam02780, Transketolase_C, Transketolase, C-terminal domain. The
C-terminal domain of transketolase has been proposed as
a regulatory molecule binding site.
Length = 124
Score = 105 bits (264), Expect = 4e-30
Identities = 39/83 (46%), Positives = 55/83 (66%)
Query: 71 VIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNY 130
I G D+TIV + V AL+AA+ LA +GI AEVI+LR+++PLD +TI +SV KT
Sbjct: 4 EILREGDDVTIVAYGSMVHEALEAAEELAKEGISAEVIDLRTVKPLDEDTILESVKKTGR 63
Query: 131 LISVEGGWPQCGIGSEISARIME 153
L+ VE + G GSE++A + E
Sbjct: 64 LVVVEEAVKRGGFGSEVAAALAE 86
Score = 30.3 bits (69), Expect = 0.17
Identities = 20/41 (48%), Positives = 24/41 (58%), Gaps = 4/41 (9%)
Query: 60 QGEAFYHLDAPVIRVTGKDITIVGHSKAVETA---LDAAKI 97
E F +LDAPV+RV G D T + H A+E A L A KI
Sbjct: 85 AEEGFDYLDAPVLRVGGPD-TPIPHGPALELAYLGLTAEKI 124
>gnl|CDD|132919 cd07036, TPP_PYR_E1-PDHc-beta_like, Pyrimidine (PYR) binding domain
of the beta subunits of the E1 components of human
pyruvate dehydrogenase complex (E1- PDHc) and related
proteins. Thiamine pyrophosphate (TPP) family,
pyrimidine (PYR) binding domain of the beta subunits of
the E1 components of: human pyruvate dehydrogenase
complex (E1- PDHc), the acetoin dehydrogenase complex
(ADC), and the branched chain alpha-keto acid
dehydrogenase/2-oxoisovalerate dehydrogenase complex
(BCADC), subfamily. The PYR domain is found in many key
metabolic enzymes which use TPP (also known as thiamine
diphosphate) as a cofactor. TPP binds in the cleft
formed by a PYR domain and a PP domain. The PYR domain,
binds the aminopyrimidine ring of TPP, the PP domain
binds the diphosphate residue. A polar interaction
between the conserved glutamate of the PYR domain and
the N1' of the TPP aminopyrimidine ring is shared by
most TPP-dependent enzymes, and participates in the
activation of TPP. The PYR and PP domains have a common
fold, but do not share strong sequence conservation. The
PP domain is not included in this sub-family. E1-PDHc is
an alpha2beta2 dimer-of-heterodimers having two active
sites lying between PYR and PP domains of separate
subunits, the PYR domains are arranged on the beta
subunit, the PP domains on the alpha subunits. PDHc
catalyzes the irreversible oxidative decarboxylation of
pyruvate to produce acetyl-CoA in the bridging step
between glycolysis and the citric acid cycle. ADC
participates in the breakdown of acetoin. BCADC
catalyzes the oxidative decarboxylation of
4-methyl-2-oxopentanoate, 3-methyl-2-oxopentanoate and
3-methyl-2-oxobutanoate during the breakdown of branched
chain amino acids.
Length = 167
Score = 64.8 bits (159), Expect = 6e-14
Identities = 21/30 (70%), Positives = 25/30 (83%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENE 30
VV+P DAKGLLKAAIRD DPV+FLE++
Sbjct: 138 VVAPSTPYDAKGLLKAAIRDDDPVIFLEHK 167
>gnl|CDD|226467 COG3958, COG3958, Transketolase, C-terminal subunit [Carbohydrate
transport and metabolism].
Length = 312
Score = 63.5 bits (155), Expect = 1e-12
Identities = 32/107 (29%), Positives = 54/107 (50%), Gaps = 15/107 (14%)
Query: 47 DFVLPIGKAKVEKQGEAFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAE 106
+ IGKA V + G D+TI+ V AL+AA+IL +GI A
Sbjct: 178 GYTFEIGKANVLRDGS---------------DLTIIATGVMVAEALEAAEILKKEGISAA 222
Query: 107 VINLRSLRPLDIETITKSVMKTNYLISVEGGWPQCGIGSEISARIME 153
VIN+ +++P+D + I K+ +T +++ E G+GS ++ + E
Sbjct: 223 VINMFTIKPIDEQAILKAARETGRIVTAEEHSIIGGLGSAVAEVLSE 269
>gnl|CDD|224076 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme
metabolism / Lipid metabolism].
Length = 627
Score = 61.1 bits (149), Expect = 1e-11
Identities = 26/123 (21%), Positives = 50/123 (40%), Gaps = 19/123 (15%)
Query: 35 VQYP----MGDEALSKDFVLPIGKAKVEKQGEAFYHLDAPVIRVTGKDITIVGHSKAVET 90
++YP +G + L IGK ++ K+GE + I+ +
Sbjct: 471 IRYPRGNGVGVILTPELEPLEIGKGELLKEGE---------------KVAILAFGTMLPE 515
Query: 91 ALDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISVEGGWPQCGIGSEISAR 150
AL A+ L GI V++ R ++PLD + + + ++++E G GS +
Sbjct: 516 ALKVAEKLNAYGISVTVVDPRFVKPLDEALLLELAKSHDLVVTLEENVVDGGFGSAVLEF 575
Query: 151 IME 153
+
Sbjct: 576 LAA 578
>gnl|CDD|235470 PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 580
Score = 58.2 bits (142), Expect = 1e-10
Identities = 33/122 (27%), Positives = 57/122 (46%), Gaps = 22/122 (18%)
Query: 35 VQYPMG---DEALSKDFVLPIGKAKVEKQGEAFYHLDAPVIRVTGKDITIVGHSKAVETA 91
++YP G L + LPIGK +V ++G +D+ I+ + A
Sbjct: 434 IRYPRGNGVGVELPELEPLPIGKGEVLREG---------------EDVAILAFGTMLAEA 478
Query: 92 LDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISVEGGWPQCGIGSEISARI 151
L AA+ LA A V++ R ++PLD E + + K + +++VE G G GS + +
Sbjct: 479 LKAAERLA----SATVVDARFVKPLDEELLLELAAKHDLVVTVEEGAIMGGFGSAVLEFL 534
Query: 152 ME 153
+
Sbjct: 535 AD 536
>gnl|CDD|129308 TIGR00204, dxs, 1-deoxy-D-xylulose-5-phosphate synthase. DXP
synthase is a thiamine diphosphate-dependent enzyme
related to transketolase and the pyruvate dehydrogenase
E1-beta subunit. By an acyloin condensation of pyruvate
with glyceraldehyde 3-phosphate, it produces
1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine
diphosphate (TPP), pyridoxal phosphate, and the
isoprenoid building block isopentenyl diphosphate (IPP)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other, Biosynthesis of cofactors, prosthetic
groups, and carriers, Pyridoxine, Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine].
Length = 617
Score = 54.4 bits (131), Expect = 3e-09
Identities = 37/123 (30%), Positives = 59/123 (47%), Gaps = 19/123 (15%)
Query: 35 VQYPMGDEALSK-DFV---LPIGKAKVEKQGEAFYHLDAPVIRVTGKDITIVGHSKAVET 90
V+YP G+ + LPIGK++V ++GE I I+G V
Sbjct: 465 VRYPRGNAVGVELTPEPEKLPIGKSEVLRKGE---------------KILILGFGTLVPE 509
Query: 91 ALDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISVEGGWPQCGIGSEISAR 150
AL+ A+ L +GI+A V++ R ++PLD E I + L++VE G GS +
Sbjct: 510 ALEVAESLNEKGIEATVVDARFVKPLDEELILEIAASHEKLVTVEENAIMGGAGSAVLEF 569
Query: 151 IME 153
+M+
Sbjct: 570 LMD 572
>gnl|CDD|217226 pfam02779, Transket_pyr, Transketolase, pyrimidine binding domain.
This family includes transketolase enzymes, pyruvate
dehydrogenases, and branched chain alpha-keto acid
decarboxylases.
Length = 172
Score = 47.5 bits (114), Expect = 2e-07
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQ 36
VV P ++ + KGLL+AAI D PVV L +
Sbjct: 137 VVRPSDAAETKGLLRAAIEDDGPVVLRLPRQLLRHK 172
>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 641
Score = 44.3 bits (104), Expect = 7e-06
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 19/104 (18%)
Query: 34 GVQYPMGDEALSKDFVLPIGKAKVEKQGEAFYHLDAPVIRVTGKDITIVGHSKAVETALD 93
GV P G++ + L IG+ ++ + GE + ++G+ AV+ L+
Sbjct: 521 GVSLPPGNKGVP----LQIGRGRILRDGER---------------VALLGYGSAVQRCLE 561
Query: 94 AAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISVEGG 137
AA +L+ +G+ V + R +PLD+ I LI+VE G
Sbjct: 562 AASMLSERGLKITVADARFCKPLDVALIRSLAKSHEVLITVEEG 605
>gnl|CDD|214865 smart00861, Transket_pyr, Transketolase, pyrimidine binding domain.
Transketolase (TK) catalyzes the reversible transfer of
a two-carbon ketol unit from xylulose 5-phosphate to an
aldose receptor, such as ribose 5-phosphate, to form
sedoheptulose 7-phosphate and glyceraldehyde 3-
phosphate. This enzyme, together with transaldolase,
provides a link between the glycolytic and
pentose-phosphate pathways. TK requires thiamine
pyrophosphate as a cofactor. In most sources where TK
has been purified, it is a homodimer of approximately 70
Kd subunits. TK sequences from a variety of eukaryotic
and prokaryotic sources show that the enzyme has been
evolutionarily conserved. In the peroxisomes of
methylotrophic yeast Hansenula polymorpha, there is a
highly related enzyme, dihydroxy-acetone synthase (DHAS)
(also known as formaldehyde transketolase), which
exhibits a very unusual specificity by including
formaldehyde amongst its substrates.
Length = 136
Score = 42.5 bits (101), Expect = 9e-06
Identities = 19/35 (54%), Positives = 25/35 (71%), Gaps = 1/35 (2%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDP-VVFLENELLYG 34
VV+P + +AKGLL+AAIRD P V+ LE + LY
Sbjct: 102 VVAPSDPAEAKGLLRAAIRDDGPVVIRLERKSLYR 136
>gnl|CDD|177870 PLN02225, PLN02225, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 701
Score = 41.6 bits (97), Expect = 7e-05
Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 5/82 (6%)
Query: 72 IRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYL 131
+ V G+D+ ++G+ V+ L A +L+ G++ V + R +PLDI+ + +L
Sbjct: 563 VLVEGQDVALLGYGAMVQNCLHAHSLLSKLGLNVTVADARFCKPLDIKLVRDLCQNHKFL 622
Query: 132 ISVEGGWPQC--GIGSEISARI 151
I+VE G C G GS ++ I
Sbjct: 623 ITVEEG---CVGGFGSHVAQFI 641
>gnl|CDD|178194 PLN02582, PLN02582, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 677
Score = 39.9 bits (93), Expect = 2e-04
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 19/104 (18%)
Query: 34 GVQYPMGDEALSKDFVLPIGKAKVEKQGEAFYHLDAPVIRVTGKDITIVGHSKAVETALD 93
GVQ P + K + +GK ++ +GE + ++G+ AV++ L
Sbjct: 520 GVQLPPNN----KGIPIEVGKGRILLEGE---------------RVALLGYGTAVQSCLA 560
Query: 94 AAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISVEGG 137
AA +L G+ A V + R +PLD I LI+VE G
Sbjct: 561 AASLLERHGLSATVADARFCKPLDRALIRSLAKSHEVLITVEEG 604
>gnl|CDD|183601 PRK12571, PRK12571, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 641
Score = 39.7 bits (93), Expect = 3e-04
Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 1/74 (1%)
Query: 75 TGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISV 134
G D+ I+ + LDAA +L +GI V + R ++PLD V +I
Sbjct: 503 EGPDVAILSVGAHLHECLDAADLLEAEGISVTVADPRFVKPLDEALTDLLVRHHIVVIVE 562
Query: 135 EGGWPQCGIGSEIS 148
E G G G+ +
Sbjct: 563 EQG-AMGGFGAHVL 575
>gnl|CDD|181999 PRK09622, porA, pyruvate flavodoxin oxidoreductase subunit alpha;
Reviewed.
Length = 407
Score = 39.0 bits (91), Expect = 5e-04
Identities = 16/48 (33%), Positives = 27/48 (56%)
Query: 78 DITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETITKSV 125
++ IV E+A+ AAK + +GI A V +R LRP E + +++
Sbjct: 269 EVAIVALGTTYESAIVAAKEMRKEGIKAGVATIRVLRPFPYERLGQAL 316
>gnl|CDD|235639 PRK05899, PRK05899, transketolase; Reviewed.
Length = 586
Score = 38.6 bits (91), Expect = 6e-04
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 78 DITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETIT--KSVMKTNYL--IS 133
D+ ++ V AL+AA L +GI V+++ S D + +SV+ ++
Sbjct: 474 DVILIATGSEVHLALEAADELEAEGIKVRVVSMPSTELFDEQDAAYKESVLPAAVTARVA 533
Query: 134 VEGGWPQ 140
VE G
Sbjct: 534 VEAGVAD 540
>gnl|CDD|232887 TIGR00232, tktlase_bact, transketolase, bacterial and yeast. This
model is designed to capture orthologs of bacterial
transketolases. The group includes two from the yeast
Saccharomyces cerevisiae but excludes dihydroxyactetone
synthases (formaldehyde transketolases) from various
yeasts and the even more distant mammalian
transketolases. Among the family of thiamine
diphosphate-dependent enzymes that includes
transketolases, dihydroxyacetone synthases, pyruvate
dehydrogenase E1-beta subunits, and
deoxyxylulose-5-phosphate synthases, mammalian and
bacterial transketolases seem not to be orthologous
[Energy metabolism, Pentose phosphate pathway].
Length = 653
Score = 37.8 bits (88), Expect = 0.001
Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 76 GKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDI--ETITKSVMKTN-YLI 132
G DI ++ V A++AAK LA + I V+++ S D E +SV+ N +
Sbjct: 540 GPDIILIATGSEVSLAVEAAKKLAAENIKVRVVSMPSFDLFDKQDEEYRESVLPANVTRL 599
Query: 133 SVEGG 137
+VE G
Sbjct: 600 AVEAG 604
>gnl|CDD|237053 PRK12315, PRK12315, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 581
Score = 33.1 bits (76), Expect = 0.046
Identities = 30/147 (20%), Positives = 53/147 (36%), Gaps = 24/147 (16%)
Query: 4 PYNSEDAKGLLKAAIRDPD-PVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQGE 62
P E+ +L+ A+ + PV ++ P + G
Sbjct: 409 PTTKEELIAMLEWALTQHEHPVA---------IRVPEHG--------VESGPTVDTDYST 451
Query: 63 AFYHLDAPVIRVTGKDITIVGHSKAVETALDAAKILAGQ-GIDAEVINLRSLRPLDIETI 121
Y + G+ + I+ E AK L + GIDA +IN + + LD E +
Sbjct: 452 LKYEVTKA-----GEKVAILALGDFYELGEKVAKKLKEELGIDATLINPKFITGLDEELL 506
Query: 122 TKSVMKTNYLISVEGGWPQCGIGSEIS 148
K ++++E G G G +I+
Sbjct: 507 EKLKEDHELVVTLEDGILDGGFGEKIA 533
>gnl|CDD|223100 COG0021, TktA, Transketolase [Carbohydrate transport and
metabolism].
Length = 663
Score = 33.0 bits (76), Expect = 0.055
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 78 DITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLD 117
D+ ++ VE A++AAK L +GI V+++ S +
Sbjct: 550 DVILIATGSEVELAVEAAKELEAEGIKVRVVSMPSFELFE 589
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 30.2 bits (69), Expect = 0.52
Identities = 13/22 (59%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 93 DAAKILAGQGIDAEVINLRSLR 114
DAA AGQG+ AE +NL LR
Sbjct: 656 DAA--FAGQGVVAETLNLSQLR 675
>gnl|CDD|132916 cd07033, TPP_PYR_DXS_TK_like, Pyrimidine (PYR) binding domain of
1-deoxy-D-xylulose-5-phosphate synthase (DXS),
transketolase (TK), and related proteins. Thiamine
pyrophosphate (TPP) family, pyrimidine (PYR) binding
domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS),
transketolase (TK), and the beta subunits of the E1
component of the human pyruvate dehydrogenase complex
(E1- PDHc), subfamily. The PYR domain is found in many
key metabolic enzymes which use TPP (also known as
thiamine diphosphate) as a cofactor. TPP binds in the
cleft formed by a PYR domain and a PP domain. The PYR
domain, binds the aminopyrimidine ring of TPP, the PP
domain binds the diphosphate residue. A polar
interaction between the conserved glutamate of the PYR
domain and the N1' of the TPP aminopyrimidine ring is
shared by most TPP-dependent enzymes, and participates
in the activation of TPP. The PYR and PP domains have a
common fold, but do not share strong sequence
conservation. The PP domain is not included in this
sub-family. Like many TPP-dependent enzymes DXS and TK
are homodimers having a PYR and a PP domain on the same
subunit. TK has two active sites per dimer which lie
between PYR and PP domains of different subunits. For
DXS each active site is located at the interface of a
PYR and a PP domain from the same subunit. E1-PDHc is an
alpha2beta2 dimer-of-heterodimers having two active
sites but having the PYR and PP domains arranged on
separate subunits, the PYR domains on the beta subunits,
the PP domains on the alpha subunits. DXS is a
regulatory enzyme of the mevalonate-independent pathway
involved in terpenoid biosynthesis, it catalyzes a
transketolase-type condensation of pyruvate with
D-glyceraldehyde-3-phosphate to form
1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide.
TK catalyzes the transfer of a two-carbon unit from
ketose phosphates to aldose phosphates. In heterotrophic
organisms, TK provides a link between glycolysis and the
pentose phosphate pathway and provides precursors for
nucleotide, aromatic amino acid and vitamin
biosynthesis. TK also plays a central role in the Calvin
cycle in plants. PDHc catalyzes the irreversible
oxidative decarboxylation of pyruvate to produce
acetyl-CoA in the bridging step between glycolysis and
the citric acid cycle. This subfamily includes the beta
subunits of the E1 component of the acetoin
dehydrogenase complex (ADC) and the branched chain
alpha-keto acid dehydrogenase/2-oxoisovalerate
dehydrogenase complex (BCADC). ADC participates in the
breakdown of acetoin. BCADC catalyzes the oxidative
decarboxylation of 4-methyl-2-oxopentanoate,
3-methyl-2-oxopentanoate and 3-methyl-2-oxobutanoate
during the breakdown of branched chain amino acids.
Length = 156
Score = 28.6 bits (65), Expect = 0.89
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVF 26
V+ P ++ + L+AA+ PV
Sbjct: 127 VLRPADANETAAALEAALEYDGPVYI 152
>gnl|CDD|224122 COG1201, Lhr, Lhr-like helicases [General function prediction
only].
Length = 814
Score = 28.8 bits (65), Expect = 1.3
Identities = 13/46 (28%), Positives = 24/46 (52%)
Query: 77 KDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETIT 122
D +G S V + AK L G G E++++ + + L+I+ I+
Sbjct: 182 GDFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVIS 227
>gnl|CDD|236441 PRK09269, PRK09269, chorismate mutase; Provisional.
Length = 193
Score = 28.0 bits (63), Expect = 1.7
Identities = 23/65 (35%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 55 AKVEKQGEAFYHLDAP-VIRVTGKDITIVGHSKAVETALDAAKILAGQGIDAEVINLRSL 113
A VE Q A + +D V R I +K V+ AL A LAG +L S+
Sbjct: 73 ANVEAQAPA-HGVDPDYVRRFFRDQIEA---NKLVQYALLARWRLAGAAPPGPRPDLASI 128
Query: 114 RP-LD 117
RP LD
Sbjct: 129 RPRLD 133
>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional.
Length = 584
Score = 28.5 bits (64), Expect = 1.8
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 83 GHSKAVETALDAAKILAGQGIDAEVINLRSLRP 115
G ++A E AL AA+ L G+ A VI+ S RP
Sbjct: 518 GRAQAEEDALAAARALRAAGLPALVIDT-SPRP 549
>gnl|CDD|223746 COG0674, PorA, Pyruvate:ferredoxin oxidoreductase and related
2-oxoacid:ferredoxin oxidoreductases, alpha subunit
[Energy production and conversion].
Length = 365
Score = 28.0 bits (63), Expect = 1.9
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 78 DITIVGHSKAVETALDAAKILA-GQGIDAEVINLRSLRPLDIETITKSVMKTNYL--ISV 134
+I IV + + +A L +G ++ +R+LRP E I + + KTN + + V
Sbjct: 258 EIVIVAMGSSKGSTAEAVVDLLRDKGEKVGLLKVRTLRPFPAEEIREVLPKTNAVVVLDV 317
Query: 135 E 135
E
Sbjct: 318 E 318
>gnl|CDD|215424 PLN02790, PLN02790, transketolase.
Length = 654
Score = 27.7 bits (62), Expect = 2.7
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 78 DITIVGHSKAVETALDAAKILAGQGIDAEVINL 110
D+ ++G +E A AAK L +G V+++
Sbjct: 542 DLILIGTGSELEIAAKAAKELRKEGKKVRVVSM 574
>gnl|CDD|223441 COG0364, Zwf, Glucose-6-phosphate 1-dehydrogenase [Carbohydrate
transport and metabolism].
Length = 483
Score = 27.6 bits (62), Expect = 3.5
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 90 TALDAAKILAGQGIDAEVIN-LRSLRPLDIETITKSVMKTNYLISVEGGWPQCG 142
A++ + I E + L++LRP+ E + + ++ Y G G
Sbjct: 245 VAMEPPASFSADDIRDEKVKVLKALRPISEENVKEDTVRGQYTAGEIDGKKVPG 298
>gnl|CDD|131231 TIGR02176, pyruv_ox_red, pyruvate:ferredoxin (flavodoxin)
oxidoreductase, homodimeric. This model represents a
single chain form of pyruvate:ferredoxin (or flavodoxin)
oxidoreductase. This enzyme may transfer electrons to
nitrogenase in nitrogen-fixing species. Portions of this
protein are homologous to gamma subunit of the four
subunit pyruvate:ferredoxin (flavodoxin) oxidoreductase.
Length = 1165
Score = 27.4 bits (61), Expect = 3.8
Identities = 13/54 (24%), Positives = 23/54 (42%)
Query: 81 IVGHSKAVETALDAAKILAGQGIDAEVINLRSLRPLDIETITKSVMKTNYLISV 134
I+ ET + L +G ++ +R RP ET ++ K+ I+V
Sbjct: 269 IIAMGSVAETIEETVDYLNAKGEKVGLLKVRLYRPFSAETFFAALPKSVKRIAV 322
>gnl|CDD|100017 cd02188, gamma_tubulin, Gamma-tubulin is a ubiquitous
phylogenetically conserved member of tubulin
superfamily. Gamma is a low abundance protein present
within the cells in both various types of
microtubule-organizing centers and cytoplasmic protein
complexes. Gamma-tubulin recruits the
alpha/beta-tubulin dimers that form the minus ends of
microtubules and is thought to be involved in
microtubule nucleation and capping.
Length = 431
Score = 27.2 bits (61), Expect = 4.7
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 1 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELL 32
VV PYNS LK I + D VV L+N L
Sbjct: 180 VVQPYNSILT---LKRLILNADCVVVLDNTAL 208
>gnl|CDD|240301 PTZ00166, PTZ00166, DNA polymerase delta catalytic subunit;
Provisional.
Length = 1054
Score = 26.9 bits (60), Expect = 5.1
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 8/85 (9%)
Query: 4 PYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQGEA 63
+ S GLL + +R P P + L+ +L++ D ++ G G
Sbjct: 15 FFTSSIPYGLLFSKLRRPLPPISLQKDLVFFQL----DADYTEKDDKSQGNPHNTVSGVR 70
Query: 64 FYHLDAPVIRVTGKDITIVGHSKAV 88
H++ P+IR+ G +T GHS V
Sbjct: 71 --HVEVPIIRLYG--VTKEGHSVLV 91
>gnl|CDD|238974 cd02016, TPP_E1_OGDC_like, Thiamine pyrophosphate (TPP) family, E1
of OGDC-like subfamily, TPP-binding module; composed of
proteins similar to the E1 component of the
2-oxoglutarate dehydrogenase multienzyme complex (OGDC).
OGDC catalyzes the oxidative decarboxylation of
2-oxoglutarate to succinyl-CoA and carbon dioxide, a key
reaction of the tricarboxylic acid cycle.
Length = 265
Score = 26.7 bits (60), Expect = 5.3
Identities = 11/22 (50%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 93 DAAKILAGQGIDAEVINLRSLR 114
DAA AGQG+ E +NL +L
Sbjct: 149 DAA--FAGQGVVYETLNLSNLP 168
>gnl|CDD|240632 cd12155, PGDH_1, Phosphoglycerate Dehydrogenase, 2-hydroxyacid
dehydrogenase family. Phosphoglycerate Dehydrogenase
(PGDH) catalyzes the NAD-dependent conversion of
3-phosphoglycerate into 3-phosphohydroxypyruvate, which
is the first step in serine biosynthesis.
Over-expression of PGDH has been implicated as
supporting proliferation of certain breast cancers,
while PGDH deficiency is linked to defects in mammalian
central nervous system development. PGDH is a member of
the 2-hydroxyacid dehydrogenase family, enzymes that
catalyze the conversion of a wide variety of D-2-hydroxy
acids to their corresponding keto acids. The general
mechanism is (R)-lactate + acceptor to pyruvate +
reduced acceptor. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann-fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. While many members of
this family are dimeric, alanine DH is hexameric and
phosphoglycerate DH is tetrameric.
Length = 314
Score = 26.8 bits (60), Expect = 5.5
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 57 VEKQGEAFYHLDAPVIRVTGKDITIVGHSK-AVETALDAAKILAGQGIDAEVI 108
+ Q E + +D+ ++ + GK I +G E AK L + +VI
Sbjct: 116 YKNQKEKKWKMDSSLLELYGKTILFLGTGSIGQEI----AKRL--KAFGMKVI 162
>gnl|CDD|223871 COG0800, Eda, 2-keto-3-deoxy-6-phosphogluconate aldolase
[Carbohydrate transport and metabolism].
Length = 211
Score = 26.4 bits (59), Expect = 6.9
Identities = 16/37 (43%), Positives = 19/37 (51%), Gaps = 1/37 (2%)
Query: 88 VETALDAAKILAGQGIDAEVINLRSLRPLD-IETITK 123
VE AL AK L GI A I LR+ L+ I + K
Sbjct: 24 VEEALPLAKALIEGGIPAIEITLRTPAALEAIRALAK 60
>gnl|CDD|233198 TIGR00938, thrB_alt, homoserine kinase, Neisseria type. Homoserine
kinase is required in the biosynthesis of threonine from
aspartate.The member of this family from Pseudomonas
aeruginosa was shown by direct assay and complementation
to act specifically as a homoserine kinase [Amino acid
biosynthesis, Aspartate family].
Length = 307
Score = 26.3 bits (58), Expect = 7.7
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 114 RPLDIETITKSVMKTNYLISVEGG 137
L ++ I + V +NYL++ + G
Sbjct: 23 ELLSLKGIAEGVENSNYLLTTDVG 46
>gnl|CDD|236499 PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component;
Reviewed.
Length = 924
Score = 26.2 bits (59), Expect = 8.3
Identities = 13/22 (59%), Positives = 15/22 (68%), Gaps = 2/22 (9%)
Query: 93 DAAKILAGQGIDAEVINLRSLR 114
DAA AGQG+ AE +NL LR
Sbjct: 351 DAA--FAGQGVVAETLNLSQLR 370
>gnl|CDD|224254 COG1335, PncA, Amidases related to nicotinamidase [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 205
Score = 26.0 bits (57), Expect = 8.8
Identities = 22/103 (21%), Positives = 31/103 (30%), Gaps = 14/103 (13%)
Query: 10 AKGLLKAAIRDPDPVVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQGEAFYHLD- 68
L+ AA PV+ ++ + G SK F + + +G L
Sbjct: 38 IAALVDAARAAGQPVIATQDWHPADISSLAGSPESSKLF----PWPRHDVKGTPGAELLG 93
Query: 69 ----APVIRVTGKDITIVGH---SKAVETALDAAKILAGQGID 104
A + I S T LD IL GID
Sbjct: 94 ELPPAVDDAQLVPEDVIFKKHGYSAFAGTDLDD--ILRNLGID 134
>gnl|CDD|239856 cd04391, RhoGAP_ARHGAP18, RhoGAP_ARHGAP18: RhoGAP (GTPase-activator
protein [GAP] for Rho-like small GTPases) domain of
ArhGAP18-like proteins. The function of ArhGAP18 is
unknown. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 216
Score = 26.2 bits (58), Expect = 9.0
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 3/25 (12%)
Query: 9 DAKGLLKAAIRD-PDPVVFLENELL 32
DA LLK IR+ P P+ L E L
Sbjct: 78 DAASLLKLFIRELPQPL--LTVEYL 100
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.136 0.385
Gapped
Lambda K H
0.267 0.0795 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,088,236
Number of extensions: 753284
Number of successful extensions: 932
Number of sequences better than 10.0: 1
Number of HSP's gapped: 916
Number of HSP's successfully gapped: 73
Length of query: 158
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 69
Effective length of database: 6,990,096
Effective search space: 482316624
Effective search space used: 482316624
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.8 bits)