RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10436
(208 letters)
>gnl|CDD|235639 PRK05899, PRK05899, transketolase; Reviewed.
Length = 586
Score = 143 bits (363), Expect = 4e-40
Identities = 63/253 (24%), Positives = 87/253 (34%), Gaps = 92/253 (36%)
Query: 44 ATRLAYGIGLAKLAA---SNSRVIALDGDTKNSTFSDKLKK------------------- 81
A LA + L L N I++DG T+ F++ +KK
Sbjct: 170 ACSLAGHLKLGNLIVIYDDNR--ISIDGPTEGW-FTEDVKKRFEAYGWHVIEVDGHDVEA 226
Query: 82 ---AFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLG----------------S 122
A EA KPT +IAKT GK PN E + HG PLG
Sbjct: 227 IDAAIEEAKAST-KPTLIIAKTIIGKGAPNKEGTHKVHGAPLGAEEIAAAKKELGWDYRK 285
Query: 123 SSADVLKA---------------------------------YPDRYIECFIAEQNLVGVA 149
+S L A Y RYI + E + +A
Sbjct: 286 ASGKALNALAKALPELVGGSADLAGSNNTKIKGSKDFAPEDYSGRYIHYGVREFAMAAIA 345
Query: 150 IGAACRNRTVPF--------------IRMGAISQTNVNFVGSHCGVSIGEDGPSQMALED 195
G A +PF IR+ A+ + V +V +H + +GEDGP+ +E
Sbjct: 346 NGLALHGGFIPFGGTFLVFSDYARNAIRLAALMKLPVIYVFTHDSIGVGEDGPTHQPVEQ 405
Query: 196 IAMFRTIPACLVF 208
+A R IP V
Sbjct: 406 LASLRAIPNLTVI 418
>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 = 121 bits (307), Expect = 3e-35
Identities = 53/175 (30%), Positives = 69/175 (39%), Gaps = 62/175 (35%)
Query: 48 AYGIGLAKLAASNSRVIALDGDTKNSTFSDKLKKAFHEASQVKGKPTALIAKTFKGKDFP 107
A+G L +LA + R++AL D ST DK K F
Sbjct: 2 AFGEALLELAKKDPRIVALSADLGGSTGLDKFAKKF------------------------ 37
Query: 108 NIEDKEEWHGKPLGSSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRN----------- 156
PDR+I+ IAEQN+VG+A G A
Sbjct: 38 ------------------------PDRFIDVGIAEQNMVGIAAGLALHGLKPFVSTFSFF 73
Query: 157 --RTVPFIR-MGAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLVF 208
R IR A+ V FVG+H G+S+GEDGP+ +EDIA+ R IP V
Sbjct: 74 LQRAYDQIRHDVALQNLPVKFVGTHAGISVGEDGPTHQGIEDIALLRAIPNMTVL 128
>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 = 106 bits (266), Expect = 5e-29
Identities = 42/181 (23%), Positives = 59/181 (32%), Gaps = 60/181 (33%)
Query: 43 VATRLAYGIGLAKLAASNSRVIALDGDTKNSTFSDKLKKAFHEASQVKGKPTALIAKTFK 102
+ATR A G LA+LA + RV+ D TF+ +
Sbjct: 3 IATRKASGEALAELAKRDPRVVGGGADVAGGTFTVTKGLLHPQG---------------- 46
Query: 103 GKDFPNIEDKEEWHGKPLGSSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRNRTVPF- 161
R I+ IAEQ +VG+A G A P
Sbjct: 47 -----------------------------DGRVIDTGIAEQAMVGIANGMALHGLLPPVE 77
Query: 162 --------------IRMGAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLV 207
A+ + V FV + + +GEDGP+ + ED+A R IP V
Sbjct: 78 ATFGDFANRADDAIRHYAALGKLPVPFVVTRDPIGVGEDGPTHQSQEDLAFLRAIPNLKV 137
Query: 208 F 208
Sbjct: 138 V 138
>gnl|CDD|226467 COG3958, COG3958, Transketolase, C-terminal subunit [Carbohydrate
transport and metabolism].
Length = 312
Score = 85.0 bits (211), Expect = 7e-20
Identities = 52/185 (28%), Positives = 66/185 (35%), Gaps = 63/185 (34%)
Query: 39 KGELVATRLAYGIGLAKLAASNSRVIALDGDTKNSTFSDKLKKAFHEASQVKGKPTALIA 98
G + R YG LA+L NS ++ LD D +ST + K F
Sbjct: 3 AGNTESLRKVYGETLAELGRKNSDIVVLDADLSSSTKTGYFAKEF--------------- 47
Query: 99 KTFKGKDFPNIEDKEEWHGKPLGSSSADVLKAYPDRYIECFIAEQNLVGVAIGAA----- 153
PDR+ IAEQ++VG A G A
Sbjct: 48 ---------------------------------PDRFFNVGIAEQDMVGTAAGLALAGKK 74
Query: 154 ---------CRNRTVPFIRMG-AISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIP 203
R IR A + NV V +H GV+ GEDG S ALEDIA+ R +P
Sbjct: 75 PFVSTFAAFLSRRAWEQIRNSIAYNNLNVKIVATHAGVTYGEDGSSHQALEDIAIMRGLP 134
Query: 204 ACLVF 208
V
Sbjct: 135 NMTVI 139
>gnl|CDD|223100 COG0021, TktA, Transketolase [Carbohydrate transport and
metabolism].
Length = 663
Score = 75.3 bits (186), Expect = 5e-16
Identities = 40/185 (21%), Positives = 59/185 (31%), Gaps = 56/185 (30%)
Query: 38 KKGELVATRLAYGIGLAKLAASNSRVIALDGDTKNSTFSDKLKKAFHEASQVKGKPTALI 97
G+ +ATR A G L LA +I D S
Sbjct: 349 ANGKSIATRKASGKALNALAKKLPELIGGSADLAPSNL---------------------- 386
Query: 98 AKTFKGKDFPNIEDKEEWHGKPLGSSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRNR 157
K DF E + G RYI + E + + G A
Sbjct: 387 TKISGSGDF----SPENYAG----------------RYIHFGVREFAMAAIMNGIALHGG 426
Query: 158 TVPF--------------IRMGAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIP 203
+P+ +R+ A+ V +V +H + +GEDGP+ +E +A R IP
Sbjct: 427 FIPYGGTFLVFSDYARPAVRLAALMGLPVIYVFTHDSIGVGEDGPTHQPVEQLASLRAIP 486
Query: 204 ACLVF 208
V
Sbjct: 487 NLSVI 491
Score = 56.5 bits (137), Expect = 2e-09
Identities = 36/113 (31%), Positives = 46/113 (40%), Gaps = 32/113 (28%)
Query: 44 ATRLAYGIGLAKLAA---SNSRVIALDGDTKNSTFSDKLK-------------------- 80
A LA + L KL SN I++DGDT S F++ +
Sbjct: 168 AASLAGHLKLGKLIVLYDSND--ISIDGDTSLS-FTEDVAKRFEAYGWNVIRVIDGHDLE 224
Query: 81 ---KAFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLGSSSADVLKA 130
KA EA KPT +I KT GK PN E + HG PLG + + A
Sbjct: 225 AIDKAIEEAKASTDKPTLIIVKTIIGKGSPNKEGTHKVHGAPLG---EEEVAA 274
>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 = 69.1 bits (170), Expect = 3e-15
Identities = 31/87 (35%), Positives = 39/87 (44%), Gaps = 15/87 (17%)
Query: 136 IECFIAEQNLVGVAIGAACR-------------NRTVPFIRMGAISQTNVNFVGSH-CGV 181
I+ IAEQ +VG A G A +R IR S NV V H G
Sbjct: 18 IDTGIAEQAMVGFAAGLALHGLRPVVEIFFTFFDRAKDQIRSAGASG-NVPVVFRHDGGG 76
Query: 182 SIGEDGPSQMALEDIAMFRTIPACLVF 208
+GEDGP+ ++ED A+ R IP V
Sbjct: 77 GVGEDGPTHHSIEDEALLRAIPGLKVV 103
>gnl|CDD|238970 cd02012, TPP_TK, Thiamine pyrophosphate (TPP) family, Transketolase
(TK) subfamily, TPP-binding module; 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. In addition, the enzyme plays a central
role in the Calvin cycle in plants. Typically, TKs are
homodimers. They require TPP and divalent cations, such
as magnesium ions, for activity.
Length = 255
Score = 69.8 bits (172), Expect = 1e-14
Identities = 31/69 (44%), Positives = 40/69 (57%), Gaps = 7/69 (10%)
Query: 54 AKLAASNSRVIALDG-DTKNSTFSDKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDK 112
K A VI +DG D +++ A EA + KGKPT +IAKT KGK P +E+
Sbjct: 185 KKFEAFGWNVIEVDGHDV------EEILAALEEAKKSKGKPTLIIAKTIKGKGVPFMENT 238
Query: 113 EEWHGKPLG 121
+WHGKPLG
Sbjct: 239 AKWHGKPLG 247
>gnl|CDD|144157 pfam00456, Transketolase_N, Transketolase, thiamine diphosphate
binding domain. This family includes transketolase
enzymes EC:2.2.1.1. and also partially matches to
2-oxoisovalerate dehydrogenase beta subunit EC:1.2.4.4.
Both these enzymes utilise thiamine pyrophosphate as a
cofactor, suggesting there may be common aspects in
their mechanism of catalysis.
Length = 333
Score = 60.9 bits (148), Expect = 3e-11
Identities = 22/76 (28%), Positives = 31/76 (40%), Gaps = 4/76 (5%)
Query: 54 AKLAASNSRVIALDGDTKNSTFSDKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDKE 113
+ A VI ++ + A EA K KPT +I +T G PN +
Sbjct: 201 KRFEAYGWHVIEVEDGHDVEA----IAAAIEEAKAEKDKPTLIICRTVIGYGSPNKQGTH 256
Query: 114 EWHGKPLGSSSADVLK 129
+ HG PLG+ LK
Sbjct: 257 DVHGAPLGADEVAALK 272
>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 = 48.9 bits (117), Expect = 5e-07
Identities = 29/104 (27%), Positives = 36/104 (34%), Gaps = 29/104 (27%)
Query: 44 ATRLAYGIGLAKLAA---SNSRVIALDGDTKNSTFSDKLKKAFH---------------- 84
LA + L KL SN I++DG S F++ + K F
Sbjct: 162 VASLAGHLKLGKLIVLYDSNR--ISIDGAVDGS-FTEDVAKRFEAYGWEVLEVEDGHDLA 218
Query: 85 -------EASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLG 121
EA K KPT + T G PN HG PLG
Sbjct: 219 AIDAAIEEAKASKDKPTLIEVTTTIGFGSPNKAGTHGVHGAPLG 262
Score = 45.1 bits (107), Expect = 1e-05
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 160 PFIRMGAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLVF 208
P IR+ A+ + V +V +H + +GEDGP+ +E +A R IP V+
Sbjct: 437 PAIRLAALMKLPVIYVYTHDSIGVGEDGPTHQPIEQLASLRAIPNLSVW 485
>gnl|CDD|215424 PLN02790, PLN02790, transketolase.
Length = 654
Score = 45.8 bits (109), Expect = 6e-06
Identities = 16/47 (34%), Positives = 29/47 (61%)
Query: 162 IRMGAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLVF 208
+R+ A+S+ V +V +H + +GEDGP+ +E +A R +P L+
Sbjct: 436 MRLSALSEAGVIYVMTHDSIGLGEDGPTHQPIEHLASLRAMPNILML 482
Score = 35.0 bits (81), Expect = 0.021
Identities = 17/54 (31%), Positives = 23/54 (42%)
Query: 77 DKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLGSSSADVLKA 130
D+++ A EA V KPT + T G PN + HG LG D +
Sbjct: 214 DEIRAAIKEAKAVTDKPTLIKVTTTIGYGSPNKANSYSVHGAALGEKEVDATRK 267
>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 = 45.5 bits (108), Expect = 8e-06
Identities = 29/105 (27%), Positives = 42/105 (40%), Gaps = 17/105 (16%)
Query: 119 PLGSSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRNRTVPFIRM-------------- 164
P GS + +PDRY + IAEQ+ V A G A PF+ +
Sbjct: 338 PEGSGLDKFSRKFPDRYFDVAIAEQHAVTFAAGMAIEGYK-PFVAIYSTFLQRAYDQVVH 396
Query: 165 -GAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLVF 208
I + V F G+ +G DG + DI+ R IP ++
Sbjct: 397 DVCIQKLPVLFAIDRAGI-VGADGETHQGAFDISYLRCIPNMVIM 440
>gnl|CDD|173383 PTZ00089, PTZ00089, transketolase; Provisional.
Length = 661
Score = 45.1 bits (107), Expect = 1e-05
Identities = 29/102 (28%), Positives = 46/102 (45%), Gaps = 15/102 (14%)
Query: 122 SSSADVLKAYPD-RYIECFIAEQNLVGVAIGAACRNRTVPF--------------IRMGA 166
+ D KA P+ RYI + E + + G A +PF +R+ A
Sbjct: 391 KEANDFTKASPEGRYIRFGVREHAMCAIMNGIAAHGGFIPFGATFLNFYGYALGAVRLAA 450
Query: 167 ISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLVF 208
+S V +V +H + +GEDGP+ +E +A+ R P LV
Sbjct: 451 LSHHPVIYVATHDSIGLGEDGPTHQPVETLALLRATPNLLVI 492
Score = 38.1 bits (89), Expect = 0.002
Identities = 23/64 (35%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 66 LDGDTKNSTFSDKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLGSSSA 125
+G+T D L+KA EA + KGKP +I KT G + E+ HG PLG
Sbjct: 218 DNGNTD----FDGLRKAIEEAKKSKGKPKLIIVKTTIGYG-SSKAGTEKVHGAPLGDEDI 272
Query: 126 DVLK 129
+K
Sbjct: 273 AQVK 276
>gnl|CDD|183723 PRK12753, PRK12753, transketolase; Reviewed.
Length = 663
Score = 44.3 bits (105), Expect = 2e-05
Identities = 21/46 (45%), Positives = 26/46 (56%)
Query: 76 SDKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLG 121
+K+A EA VK KP+ +I +T G PN KEE HG PLG
Sbjct: 221 PQAIKEAILEAQSVKDKPSLIICRTIIGFGSPNKAGKEESHGAPLG 266
Score = 38.9 bits (91), Expect = 0.001
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 162 IRMGAISQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIP 203
RM A+ + V +H + +GEDGP+ +E +A R P
Sbjct: 445 ARMAALMKARQIMVYTHDSIGLGEDGPTHQPVEQLASLRLTP 486
>gnl|CDD|224076 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme
metabolism / Lipid metabolism].
Length = 627
Score = 43.7 bits (104), Expect = 3e-05
Identities = 46/192 (23%), Positives = 62/192 (32%), Gaps = 71/192 (36%)
Query: 77 DKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIE-DKEEWHG---------------KPL 120
++L A +KG P L T KGK + E D ++HG KP
Sbjct: 256 EELIPTLKNAKDLKG-PVLLHVVTKKGKGYKPAEEDPIKYHGVGPFDPIETGQSKKSKPS 314
Query: 121 GSSSADVL-------------------------------KAYPDRYIECFIAEQNLVGVA 149
S V K +PDR+ + IAEQ+ V A
Sbjct: 315 APSYTKVFGDTLCELAAKDEKIVAITAAMPEGTGLVKFSKKFPDRFFDVGIAEQHAVTFA 374
Query: 150 IGAACRNRTVPFIRMGAISQT------------------NVNFVGSHCGVSIGEDGPSQM 191
G A P + AI T V F G+ +G DGP+
Sbjct: 375 AGLAA-EGMKPVV---AIYSTFLQRAYDQLIHDVAIQNLPVTFAIDRAGI-VGADGPTHQ 429
Query: 192 ALEDIAMFRTIP 203
L D++ R IP
Sbjct: 430 GLFDLSFLRCIP 441
>gnl|CDD|235470 PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 580
Score = 39.7 bits (94), Expect = 6e-04
Identities = 46/192 (23%), Positives = 61/192 (31%), Gaps = 71/192 (36%)
Query: 77 DKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIE-DKEEWH---------GKPLGSSS-- 124
D L + A +KG P L T KGK + E D ++H G+ SS
Sbjct: 219 DALIETLKNAKDLKG-PVLLHVVTKKGKGYAPAEADPIKYHGVGKFDPETGEQPKSSKPG 277
Query: 125 --------ADVL---------------------------KAYPDRYIECFIAEQNLVGVA 149
+ L K +PDRY + IAEQ+ V A
Sbjct: 278 KPSYTKVFGETLCELAEKDPKIVAITAAMPEGTGLVKFSKRFPDRYFDVGIAEQHAVTFA 337
Query: 150 IGAACRNRTVPFIRMGAISQT------------------NVNFVGSHCGVSIGEDGPSQM 191
G A P + AI T V F G+ G DGP+
Sbjct: 338 AGLATEG-LKPVV---AIYSTFLQRAYDQVIHDVALQNLPVTFAIDRAGLV-GADGPTHQ 392
Query: 192 ALEDIAMFRTIP 203
D++ R IP
Sbjct: 393 GAFDLSYLRCIP 404
>gnl|CDD|238975 cd02017, TPP_E1_EcPDC_like, Thiamine pyrophosphate (TPP) family, E1
of E. coli PDC-like subfamily, TPP-binding module;
composed of proteins similar to the E1 component of the
Escherichia coli pyruvate dehydrogenase multienzyme
complex (PDC). PDC catalyzes the oxidative
decarboxylation of pyruvate and the subsequent
acetylation of coenzyme A to acetyl-CoA. The E1
component of PDC catalyzes the first step of the
multistep process, using TPP and a divalent cation as
cofactors. E. coli PDC is a homodimeric enzyme.
Length = 386
Score = 39.2 bits (92), Expect = 7e-04
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 78 KLKKAFHEASQVKGKPTALIAKTFKG 103
K+ A+ +A + KGKPT ++AKT KG
Sbjct: 294 KVYAAYKKAVEHKGKPTVILAKTIKG 319
>gnl|CDD|183724 PRK12754, PRK12754, transketolase; Reviewed.
Length = 663
Score = 38.8 bits (90), Expect = 0.001
Identities = 19/48 (39%), Positives = 26/48 (54%)
Query: 76 SDKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLGSS 123
+D +K+A EA V KP+ L+ KT G PN + HG PLG +
Sbjct: 221 ADSIKRAVEEARAVTDKPSLLMCKTIIGFGSPNKAGTHDSHGAPLGDA 268
Score = 36.9 bits (85), Expect = 0.005
Identities = 23/96 (23%), Positives = 39/96 (40%), Gaps = 14/96 (14%)
Query: 122 SSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRNRTVPF--------------IRMGAI 167
S S + + YI + E + +A G A +P+ +RM A+
Sbjct: 391 SGSKAINEDAAGNYIHYGVREFGMTAIANGIALHGGFLPYTSTFLMFVEYARNAVRMAAL 450
Query: 168 SQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIP 203
+ V +H + +GEDGP+ +E +A R P
Sbjct: 451 MKQRQVMVYTHDSIGLGEDGPTHQPVEQVASLRVTP 486
>gnl|CDD|225329 COG2609, AceE, Pyruvate dehydrogenase complex, dehydrogenase (E1)
component [Energy production and conversion].
Length = 887
Score = 38.1 bits (89), Expect = 0.002
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 78 KLKKAFHEASQVKGKPTALIAKTFKG 103
K+ AF +A + KG+PT ++AKT KG
Sbjct: 368 KVYAAFKKAQEHKGRPTVILAKTIKG 393
>gnl|CDD|236500 PRK09405, aceE, pyruvate dehydrogenase subunit E1; Reviewed.
Length = 891
Score = 36.7 bits (86), Expect = 0.006
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 78 KLKKAFHEASQVKGKPTALIAKTFKG 103
K+ A+ A + KG+PT ++AKT KG
Sbjct: 371 KVYAAYKAAVEHKGQPTVILAKTIKG 396
>gnl|CDD|237053 PRK12315, PRK12315, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 581
Score = 36.1 bits (84), Expect = 0.009
Identities = 38/162 (23%), Positives = 53/162 (32%), Gaps = 68/162 (41%)
Query: 52 GLAKLAASNSRVIALDGDTKNSTFSD---------------KLKKAFHEASQVKGKPTAL 96
L +L +N G ++N+ F L +AF E + P L
Sbjct: 187 NLKELRDTN-------GQSENNLFKAMGLDYRYVEDGNDIESLIEAFKEVKDID-HPIVL 238
Query: 97 IAKTFKGKDF-PNIEDKEEWH---------GKPL--------GSSSADVL---------- 128
T KGK + P E+KE +H G+ S + D L
Sbjct: 239 HIHTLKGKGYQPAEENKEAFHWHMPFDLETGQSKVPASGESYSSVTLDYLLKKIKEGKPV 298
Query: 129 -----------------KAYPDRYIECFIAEQNLVGVAIGAA 153
K YPD+Y++ IAEQ V A G A
Sbjct: 299 VAINAAIPGVFGLKEFRKKYPDQYVDVGIAEQESVAFASGIA 340
>gnl|CDD|183601 PRK12571, PRK12571, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 641
Score = 35.1 bits (81), Expect = 0.024
Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 17/90 (18%)
Query: 129 KAYPDRYIECFIAEQNLVGVAIGAACRNRTVP-------FIRMG--------AISQTNVN 173
K +P+R + IAEQ+ V A G A P F++ G A+ V
Sbjct: 357 KRFPNRVFDVGIAEQHAVTFAAGLAAAG-LKPFCAVYSTFLQRGYDQLLHDVALQNLPVR 415
Query: 174 FVGSHCGVSIGEDGPSQMALEDIAMFRTIP 203
FV G+ +G DG + D+A +P
Sbjct: 416 FVLDRAGL-VGADGATHAGAFDLAFLTNLP 444
>gnl|CDD|132230 TIGR03186, AKGDH_not_PDH, alpha-ketoglutarate dehydrogenase.
Several bacterial species have a paralog to homodimeric
form of the pyruvate dehydrogenase E1 component (see
model TIGR00759), often encoded next to L-methionine
gamma-lyase gene (mdeA). The member from a strain of
Pseudomonas putida was shown to act on
alpha-ketobutyrate, which is produced by MdeA.This model
serves as an exception model to TIGR00759, as other
proteins hitting TIGR00759 should be identified as the
pyruvate dehydrogenase E1 component.
Length = 889
Score = 34.9 bits (80), Expect = 0.027
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 78 KLKKAFHEASQVKGKPTALIAKTFKG 103
KL A+ A + +G+PT ++AKT KG
Sbjct: 365 KLYAAYDRAVRHEGRPTVILAKTMKG 390
>gnl|CDD|237267 PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1;
Provisional.
Length = 896
Score = 33.8 bits (78), Expect = 0.051
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 78 KLKKAFHEASQVKGKPTALIAKTFKG 103
K+ A+ A + KG+PT ++AKT KG
Sbjct: 379 KVYAAYAAAVRHKGQPTVILAKTKKG 404
>gnl|CDD|233117 TIGR00759, aceE, pyruvate dehydrogenase E1 component, homodimeric
type. Most members of this family are pyruvate
dehydrogenase complex, E1 component. Note: this family
was classified as subfamily rather than equivalog
because it includes a counterexample from Pseudomonas
putida, MdeB, that is active as an E1 component of an
alpha-ketoglutarate dehydrogenase complex rather than a
pyruvate dehydrogase complex. The second pyruvate
dehydrogenase complex E1 protein from Alcaligenes
eutrophus, PdhE, complements an aceE mutant of E. coli
but is not part of a pyruvate dehydrogenase complex
operon, is more similar to the Pseudomonas putida MdeB
than to E. coli AceE, and may have also have a different
primary specificity.
Length = 885
Score = 33.6 bits (77), Expect = 0.075
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 78 KLKKAFHEASQVKGKPTALIAKTFKG 103
K+ A+ A + KG+PT ++AKT KG
Sbjct: 365 KVYAAYAAAQEHKGQPTVILAKTIKG 390
>gnl|CDD|197332 cd09098, INPP5c_Synj1, Catalytic inositol polyphosphate
5-phosphatase (INPP5c) domain of synaptojanin 1. This
subfamily contains the INPP5c domains of human
synaptojanin 1 (Synj1) and related proteins. It belongs
to a family of Mg2+-dependent inositol polyphosphate
5-phosphatases, which hydrolyze the 5-phosphate from the
inositol ring of various 5-position phosphorylated
phosphoinositides (PIs) and inositol phosphates (IPs),
and to the large EEP
(exonuclease/endonuclease/phosphatase) superfamily that
contains functionally diverse enzymes that share a
common catalytic mechanism of cleaving phosphodiester
bonds. Synj1 occurs as two main isoforms: a brain
enriched 145 KDa protein (Synj1-145) and a ubiquitously
expressed 170KDa protein (Synj1-170). Synj1-145
participates in clathrin-mediated endocytosis. The
primary substrate of the Synj1-145 INPP5c domain is
PI(4,5)P2, which it converts to PI4P. Synj1-145 may work
with membrane curvature sensors/generators (such as
endophilin) to remove PI(4,5)P2 from curved membranes.
The recruitment of the INPP5c domain of Synj1-145 to
endophilin-induced membranes leads to a fragmentation
and condensation of these structures. The PI(4,5)P2 to
PI4P conversion may cooperate with dynamin to produce
membrane fission. In addition to this INPP5c domain,
these proteins contain an N-terminal Sac1-like domain;
the Sac1 domain can dephosphorylate a variety of
phosphoinositides in vitro.
Length = 336
Score = 31.9 bits (72), Expect = 0.17
Identities = 40/155 (25%), Positives = 58/155 (37%), Gaps = 26/155 (16%)
Query: 62 RVIALDGDTKNSTFSDKLKKA-FHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPL 120
R IA T D KKA E V+ KP + A F E+ E + +
Sbjct: 17 RSIAFKNQTLTDWLLDAPKKAGIPEFQDVRSKPVDIFAIGF--------EEMVELNAGNI 68
Query: 121 GSSS--------ADVLKAYPDRYIECFIAEQNLVGVAIGAACRNRTVPFIRMGAISQTNV 172
S+S A++ K +A + LVGV + R + PFIR A V
Sbjct: 69 VSASTTNQKLWAAELQKTISRDQKYVLLASEQLVGVCLFVFIRPQHAPFIRDVA-----V 123
Query: 173 NFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLV 207
+ V + G + G G + + +F T C V
Sbjct: 124 DTVKTGMGGATGNKGAVAIRM----LFHTTSLCFV 154
>gnl|CDD|226468 COG3959, COG3959, Transketolase, N-terminal subunit [Carbohydrate
transport and metabolism].
Length = 243
Score = 31.5 bits (72), Expect = 0.21
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 79 LKKAFHEASQVKGKPTALIAKTFKG 103
+ +A +A KG+PT +IAKT KG
Sbjct: 219 IVEALEKAKGSKGRPTVIIAKTVKG 243
>gnl|CDD|217223 pfam02775, TPP_enzyme_C, Thiamine pyrophosphate enzyme,
C-terminal TPP binding domain.
Length = 151
Score = 29.5 bits (67), Expect = 0.73
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 47 LAYGIGLAKLAASNSRVIALDGD 69
L IG AKLA + V+A+ GD
Sbjct: 34 LPAAIG-AKLARPDRPVVAIAGD 55
>gnl|CDD|223101 COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex,
dehydrogenase (E1) component, eukaryotic type, beta
subunit [Energy production and conversion].
Length = 324
Score = 29.4 bits (67), Expect = 1.1
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 132 PDRYIECFIAEQNLVGVAIGAA 153
+R I+ IAE + G+A+GAA
Sbjct: 48 EERVIDTPIAESGIAGIAVGAA 69
>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 = 29.0 bits (66), Expect = 1.1
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 132 PDRYIECFIAEQNLVGVAIGAA 153
PDR I+ IAE +VG+A+GAA
Sbjct: 43 PDRVIDTPIAEAGIVGLAVGAA 64
>gnl|CDD|132915 cd06586, TPP_enzyme_PYR, Pyrimidine (PYR) binding domain of
thiamine pyrophosphate (TPP)-dependent enzymes.
Thiamine pyrophosphate (TPP) family, pyrimidine (PYR)
binding domain; 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 group. Most TPP-dependent enzymes have
the PYR and PP domains on the same subunit although
these domains can be alternatively arranged in the
primary structure. In the case of 2-oxoisovalerate
dehydrogenase (2OXO), sulfopyruvate decarboxylase
(ComDE), and the E1 component of human pyruvate
dehydrogenase complex (E1- PDHc) the PYR and PP domains
appear on different subunits. TPP-dependent enzymes are
multisubunit proteins, the smallest catalytic unit being
a dimer-of-active sites. For many of these enzymes the
active sites lie between PP and PYR domains on different
subunits. However, for the homodimeric enzymes
1-deoxy-D-xylulose 5-phosphate synthase (DXS) and
Desulfovibrio africanus pyruvate:ferredoxin
oxidoreductase (PFOR), each active site lies at the
interface of the PYR and PP domains from the same
subunit.
Length = 154
Score = 28.8 bits (65), Expect = 1.1
Identities = 27/96 (28%), Positives = 36/96 (37%), Gaps = 13/96 (13%)
Query: 121 GSSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRN-RTVPFIRMGAISQTNVNFVGS-- 177
SS D L+ R I+ I E G A G A V + G +N +
Sbjct: 23 ISSLLDALREGDKRIIDTVIHELGAAGAAAGYARAGGPPVVIVTSGTGLLNAINGLADAA 82
Query: 178 --HCGV--SIGEDGPSQMALE------DIAMFRTIP 203
H V IG G S A + D+ M+R+IP
Sbjct: 83 AEHLPVVFLIGARGISAQAKQTFQSMFDLGMYRSIP 118
>gnl|CDD|212581 cd11708, DHR2_DOCK5, Dock Homology Region 2, a GEF domain, of Class
A Dedicator of Cytokinesis 5. Dock5 is an atypical
guanine nucleotide exchange factor (GEF) that lacks the
conventional Dbl homology (DH) domain. As a GEF, it
activates small GTPases by exchanging bound GDP for free
GTP. It functions upstream of Rac1 to regulate
osteoclast function. DOCK proteins are divided into four
classes (A-D) based on sequence similarity and domain
architecture; class A includes Dock1, 2 and 5. All DOCKs
contain two homology domains: the DHR-1 (Dock homology
region-1), also called CZH1 (CED-5, Dock180, and
MBC-zizimin homology 1), and DHR-2 (also called CZH2 or
Docker). The DHR-1 domain binds
phosphatidylinositol-3,4,5-triphosphate. This alignment
model represents the DHR-2 domain of Dock5, which
contains the catalytic GEF activity for Rac and/or
Cdc42. Class A DOCKs, like Dock5, are specific GEFs for
Rac and they contain an SH3 domain at the N-terminal
region and a PxxP motif at the C-terminus.
Length = 400
Score = 29.5 bits (66), Expect = 1.4
Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 10/61 (16%)
Query: 90 KGKPTALIAKTF--KGKDFPNIEDKEEW------HGKPLGSSS--ADVLKAYPDRYIECF 139
+G P+ L K F +GK++ +ED + + + S+S D +K+ +Y++CF
Sbjct: 133 QGFPSFLRNKIFIYRGKEYERLEDFSLKLLTQFPNAEKMTSTSPPGDEIKSSTKQYVQCF 192
Query: 140 I 140
Sbjct: 193 T 193
>gnl|CDD|238318 cd00568, TPP_enzymes, Thiamine pyrophosphate (TPP) enzyme family,
TPP-binding module; found in many key metabolic enzymes
which use TPP (also known as thiamine diphosphate) as a
cofactor. These enzymes include, among others, the E1
components of the pyruvate, the acetoin and the
branched chain alpha-keto acid dehydrogenase complexes.
Length = 168
Score = 28.0 bits (63), Expect = 2.2
Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 47 LAYGIGLAKLAASNSRVIALDGD 69
L IG A LAA + V+ + GD
Sbjct: 52 LPAAIG-AALAAPDRPVVCIAGD 73
>gnl|CDD|187860 cd09729, Cse1_I-E, CRISPR/Cas system-associated protein Cse1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Large proteins, some contain Zn-finger domain; subunit
of the Cascade complex; signature gene for I-E subtype;
also known as Cse1/CasA/YgcL family.
Length = 465
Score = 28.5 bits (64), Expect = 2.5
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 110 EDKEEWHGKPLGSSSADVLKAYPDRYIECF 139
ED++EW D L AY +++ + F
Sbjct: 62 EDEDEWRDLWENGLPPDALDAYLEKWRDRF 91
>gnl|CDD|223107 COG0028, IlvB, Thiamine pyrophosphate-requiring enzymes
[acetolactate synthase, pyruvate dehydrogenase
(cytochrome), glyoxylate carboligase, phosphonopyruvate
decarboxylase] [Amino acid transport and metabolism /
Coenzyme metabolism].
Length = 550
Score = 28.4 bits (64), Expect = 2.9
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 47 LAYGIGLAKLAASNSRVIALDGD 69
L IG AKLAA + +V+A+ GD
Sbjct: 414 LPAAIG-AKLAAPDRKVVAIAGD 435
>gnl|CDD|177870 PLN02225, PLN02225, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 701
Score = 28.1 bits (62), Expect = 3.4
Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 17/102 (16%)
Query: 117 GKPLGSSSADVLKAYPDRYIECFIAEQNLVGVAIGAACRNRTVPFIRMGAI--------- 167
G + +S + +PDR+ +AEQ+ V + G + PF + +
Sbjct: 407 GMEMDASLITFQERFPDRFFNVGMAEQHAVTFSAGLSSGGLK-PFCIIPSAFLQRAYDQV 465
Query: 168 ------SQTNVNFVGSHCGVSIGEDGPSQMALEDIAMFRTIP 203
+ V FV + G+ +G DGP Q DIA ++P
Sbjct: 466 VHDVDRQRKAVRFVITSAGL-VGSDGPVQCGAFDIAFMSSLP 506
>gnl|CDD|178194 PLN02582, PLN02582, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 677
Score = 27.9 bits (62), Expect = 4.2
Identities = 23/95 (24%), Positives = 37/95 (38%), Gaps = 17/95 (17%)
Query: 128 LKAYPDRYIECFIAEQNLVGVAIGAACRNRTVPFIRMGA---------------ISQTNV 172
+ +P R + IAEQ+ V A G AC PF + + + + V
Sbjct: 393 ARRFPTRCFDVGIAEQHAVTFAAGLACEGLK-PFCAIYSSFLQRGYDQVVHDVDLQKLPV 451
Query: 173 NFVGSHCGVSIGEDGPSQMALEDIAMFRTIPACLV 207
F G+ +G DGP+ D+ +P +V
Sbjct: 452 RFAMDRAGL-VGADGPTHCGAFDVTYMACLPNMVV 485
>gnl|CDD|224281 COG1362, LAP4, Aspartyl aminopeptidase [Amino acid transport and
metabolism].
Length = 437
Score = 27.7 bits (62), Expect = 4.3
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 94 TALIAKTFKGKDFPNIEDKEEWHGKPLGS 122
A IA+ F +E+K+ W KP G
Sbjct: 27 VANIAERLLKAGFRELEEKDAWKDKPGGK 55
>gnl|CDD|236243 PRK08327, PRK08327, acetolactate synthase catalytic subunit;
Validated.
Length = 569
Score = 27.7 bits (62), Expect = 5.0
Identities = 31/128 (24%), Positives = 52/128 (40%), Gaps = 24/128 (18%)
Query: 11 IQPDKNLVSDAPKVDISNIKLSSPPSYKKGELVATRLAYGIGLA---KLAASNSRVIALD 67
+V++ P V +L+ P SY G+ A L + +G A KLA + VIA
Sbjct: 398 ADEYDAIVTEYPFV-PRQARLNKPGSYF-GDGSAGGLGWALGAALGAKLATPDRLVIATV 455
Query: 68 GDTKNSTFSDKLKKAFHEASQVKGKPTALIAKTFKGKDFPNIEDKEEWHGKPLGSSSADV 127
GD +F + +A H ++ G P ++ + + W + V
Sbjct: 456 GD---GSFIFGVPEAAHWVAERYGLPVLVV-----------VFNNGGW-----LAVKEAV 496
Query: 128 LKAYPDRY 135
L+ YP+ Y
Sbjct: 497 LEVYPEGY 504
>gnl|CDD|139245 PRK12812, flgD, flagellar basal body rod modification protein;
Reviewed.
Length = 259
Score = 27.1 bits (60), Expect = 5.9
Identities = 11/73 (15%), Positives = 24/73 (32%), Gaps = 3/73 (4%)
Query: 48 AYGIG-LAKLAASNSRVIALDGDTKNSTFSDKLKKAFHEAS-QVKGKPTALIAKTFKGKD 105
+ L K+A + + L G + + E + ++ L+ + K+
Sbjct: 104 TSALSALGKMATVSDNAVKLTGADELIALKLYFPEDSDEGTLEIYDSNNKLV-EKIDFKE 162
Query: 106 FPNIEDKEEWHGK 118
EW G+
Sbjct: 163 ISQGLFTMEWDGR 175
>gnl|CDD|238962 cd02004, TPP_BZL_OCoD_HPCL, Thiamine pyrophosphate (TPP) family,
BZL_OCoD_HPCL subfamily, TPP-binding module; composed
of proteins similar to benzaldehyde lyase (BZL),
oxalyl-CoA decarboxylase (OCoD) and
2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas
fluorescens biovar I BZL cleaves the acyloin linkage of
benzoin producing 2 molecules of benzaldehyde and
enabling the Pseudomonas to grow on benzoin as the sole
carbon and energy source. OCoD has a role in the
detoxification of oxalate, catalyzing the
decarboxylation of oxalyl-CoA to formate. 2-HPCL is a
peroxisomal enzyme which plays a role in the
alpha-oxidation of 3-methyl-branched fatty acids,
catalyzing the cleavage of 2-hydroxy-3-methylacyl-CoA
into formyl-CoA and a 2-methyl-branched fatty aldehyde.
All these enzymes depend on Mg2+ and TPP for activity.
Length = 172
Score = 26.7 bits (60), Expect = 6.0
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 49 YGIGLAKLAASNSRVIALDGD 69
Y I A LA + RV+ ++GD
Sbjct: 56 YAIA-AALARPDKRVVLVEGD 75
>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 641
Score = 27.4 bits (60), Expect = 7.7
Identities = 32/129 (24%), Positives = 51/129 (39%), Gaps = 24/129 (18%)
Query: 95 ALIAKTFKGKDFPNIEDKEEWHGKPLGSSSADVLKA-YPDRYIECFIAEQNLVGVAIGAA 153
ALIA+ KD I H G + ++ ++ +P R + IAEQ+ V A G A
Sbjct: 366 ALIAEAEADKDIVAI------HAAMGGGTMLNLFESRFPTRCFDVGIAEQHAVTFAAGLA 419
Query: 154 CRNRTVPFIRMGA---------------ISQTNVNFVGSHCGVSIGEDGPSQMALEDIAM 198
C PF + + + + V F G+ +G DGP+ D+
Sbjct: 420 CEGLK-PFCTIYSSFMQRAYDQVVHDVDLQKLPVRFAIDRAGL-MGADGPTHCGAFDVTF 477
Query: 199 FRTIPACLV 207
+P +V
Sbjct: 478 MACLPNMIV 486
>gnl|CDD|204181 pfam09251, PhageP22-tail, Salmonella phage P22 tail-spike. Members
of this family of viral domains adopt a structure
consisting of a single-stranded right-handed beta-helix,
which in turn is made of parallel beta-strands and short
turns. They are required for recognition of the
0-antigenic repeating units of the cell surface, and for
subsequent infection of the bacterial cell.
Length = 549
Score = 26.7 bits (59), Expect = 9.6
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 6 LIAVSIQPDKNLVSDAPKVDISNIKLSSPPSYKKGELVATRLAYGIGLAKLAASNSRVIA 65
L+ + P + L DAP +S I + PS VA L G+G NSR+ +
Sbjct: 390 LVGIKPTPSQGLTIDAPNSTVSGITGNVDPSRI---NVANLLDPGLG-------NSRINS 439
Query: 66 LDGDT 70
+ D+
Sbjct: 440 FNSDS 444
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
0.318 0.134 0.386
Gapped
Lambda K H
0.267 0.0843 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,360,017
Number of extensions: 948914
Number of successful extensions: 834
Number of sequences better than 10.0: 1
Number of HSP's gapped: 824
Number of HSP's successfully gapped: 63
Length of query: 208
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 115
Effective length of database: 6,812,680
Effective search space: 783458200
Effective search space used: 783458200
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 (21.7 bits)
S2: 57 (25.5 bits)