RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10429
(207 letters)
>gnl|CDD|215368 PLN02683, PLN02683, pyruvate dehydrogenase E1 component subunit
beta.
Length = 356
Score = 390 bits (1003), Expect = e-138
Identities = 152/201 (75%), Positives = 174/201 (86%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
MTVRDALNSALDEEM+ D KVF++GEEV Y GAYK+++GL +KYG RVLDTPITE GF
Sbjct: 27 MTVRDALNSALDEEMSADPKVFIMGEEVGEYQGAYKITKGLLQKYGPDRVLDTPITEAGF 86
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
GI VGAA AGL+PV EFMTFNFSMQAIDHIINSAAKT YMSAG ++VPIVFRGPNGAA+
Sbjct: 87 TGIGVGAAYAGLKPVVEFMTFNFSMQAIDHIINSAAKTNYMSAGQISVPIVFRGPNGAAA 146
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
GV AQHSQCF AW++ PGLKV++PY+SEDA+GLLKAAIRDPDPVVFLENELLYG +P+
Sbjct: 147 GVGAQHSQCFAAWYSSVPGLKVLAPYSSEDARGLLKAAIRDPDPVVFLENELLYGESFPV 206
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
E L FVLPIGKAK+E++
Sbjct: 207 SAEVLDSSFVLPIGKAKIERE 227
>gnl|CDD|237011 PRK11892, PRK11892, pyruvate dehydrogenase subunit beta;
Provisional.
Length = 464
Score = 375 bits (965), Expect = e-131
Identities = 136/203 (66%), Positives = 166/203 (81%), Gaps = 7/203 (3%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
MTVR+AL A+ EEM RDE VF++GEEVA Y GAYKV++GL +++G +RV+DTPITE GF
Sbjct: 142 MTVREALRDAMAEEMRRDEDVFVMGEEVAEYQGAYKVTQGLLQEFGARRVIDTPITEHGF 201
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
AGI VGAA AGL+P+ EFMTFNF+MQAID IINSAAKT YMS G + PIVFRGPNGAA+
Sbjct: 202 AGIGVGAAFAGLKPIVEFMTFNFAMQAIDQIINSAAKTLYMSGGQMGCPIVFRGPNGAAA 261
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQY-- 178
VAAQHSQ + AW++ PGLKVV+PY++ DAKGLLKAAIRDP+PV+FLENE+LYG +
Sbjct: 262 RVAAQHSQDYAAWYSHIPGLKVVAPYSAADAKGLLKAAIRDPNPVIFLENEILYGQSFDV 321
Query: 179 PMGDEALSKDFVLPIGKAKVEKQ 201
P D DFVLPIGKA++ ++
Sbjct: 322 PKLD-----DFVLPIGKARIHRE 339
>gnl|CDD|185502 PTZ00182, PTZ00182, 3-methyl-2-oxobutanate dehydrogenase;
Provisional.
Length = 355
Score = 346 bits (889), Expect = e-121
Identities = 122/201 (60%), Positives = 144/201 (71%), Gaps = 3/201 (1%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
M VR+A+NSALDEE+ARD KVF+LGE+VA Y G YK ++GL KYG RV DTPITE GF
Sbjct: 35 MNVREAINSALDEELARDPKVFVLGEDVAQYGGVYKCTKGLLDKYGPDRVFDTPITEQGF 94
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
AG A+GAAM GLRP+ EFM +F A D I+N AAK YMS G + PIV RGPNGA
Sbjct: 95 AGFAIGAAMNGLRPIAEFMFADFIFPAFDQIVNEAAKYRYMSGGQFDCPIVIRGPNGAVG 154
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
A HSQ F A+F PGLKVV+P + EDAKGLLKAAIRDP+PVVF E +LLY +
Sbjct: 155 HGGAYHSQSFEAYFAHVPGLKVVAPSDPEDAKGLLKAAIRDPNPVVFFEPKLLYRESVEV 214
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
EA D+ LP+GKAKV ++
Sbjct: 215 VPEA---DYTLPLGKAKVVRE 232
>gnl|CDD|169719 PRK09212, PRK09212, pyruvate dehydrogenase subunit beta; Validated.
Length = 327
Score = 334 bits (858), Expect = e-116
Identities = 132/201 (65%), Positives = 162/201 (80%), Gaps = 4/201 (1%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
+TVR+AL A+ EEM RD KVFL+GEEV Y GAYKV++GL +++G KRV+DTPITE GF
Sbjct: 4 LTVREALRDAMQEEMERDPKVFLMGEEVGEYQGAYKVTQGLLEQFGPKRVIDTPITEHGF 63
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
AG+AVGAA AGLRP+ EFMTFNFSMQAID I+NSAAKT YMS G + PIVFRGPNGAA+
Sbjct: 64 AGLAVGAAFAGLRPIVEFMTFNFSMQAIDQIVNSAAKTNYMSGGQLKCPIVFRGPNGAAA 123
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
VAAQHSQC+ AW++ PGLKVV+PY + D KGLLK AIRDP+PV+FLENE+LYG + +
Sbjct: 124 RVAAQHSQCYAAWYSHIPGLKVVAPYFAADCKGLLKTAIRDPNPVIFLENEILYGHSHEV 183
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
+E S +PIGKA + ++
Sbjct: 184 PEEEES----IPIGKAAILRE 200
>gnl|CDD|223101 COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex,
dehydrogenase (E1) component, eukaryotic type, beta
subunit [Energy production and conversion].
Length = 324
Score = 329 bits (846), Expect = e-114
Identities = 107/201 (53%), Positives = 138/201 (68%), Gaps = 3/201 (1%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
MT+ +A+N A+DEEM RDE+V +LGE+V +Y G ++V++GL +K+G++RV+DTPI E G
Sbjct: 2 MTMIEAINEAMDEEMERDERVVVLGEDVGVYGGVFRVTKGLQEKFGEERVIDTPIAESGI 61
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
AGIAVGAA+ GLRP+ E +F A D I+N AAK Y S G VPIV R PNG
Sbjct: 62 AGIAVGAALTGLRPIVEIQFADFIYPAFDQIVNQAAKIRYRSGGQFTVPIVIRTPNGGGI 121
Query: 121 GVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQYPM 180
G AQHSQ A F PGLKVV P DAKGLLKAAIRDPDPV+FLE++ LY
Sbjct: 122 GGGAQHSQSLEALFAHIPGLKVVMPSTPYDAKGLLKAAIRDPDPVIFLEHKRLYRSF--- 178
Query: 181 GDEALSKDFVLPIGKAKVEKQ 201
E +D+ +P+GKAK+ ++
Sbjct: 179 KGEVPEEDYTIPLGKAKIVRE 199
>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 = 310 bits (796), Expect = e-109
Identities = 99/167 (59%), Positives = 118/167 (70%)
Query: 5 DALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGFAGIA 64
A+N ALDEEM RD +V +LGE+V Y G +KV++GL K+G RV+DTPI E G G+A
Sbjct: 1 QAINEALDEEMERDPRVVVLGEDVGDYGGVFKVTKGLLDKFGPDRVIDTPIAEAGIVGLA 60
Query: 65 VGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAASGVAA 124
VGAAM GLRP+ E M +F++ A D I+N AAK YMS G VPIV RGPNG G A
Sbjct: 61 VGAAMNGLRPIVEIMFADFALPAFDQIVNEAAKLRYMSGGQFKVPIVIRGPNGGGIGGGA 120
Query: 125 QHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENE 171
QHSQ AWF PGLKVV+P DAKGLLKAAIRD DPV+FLE++
Sbjct: 121 QHSQSLEAWFAHIPGLKVVAPSTPYDAKGLLKAAIRDDDPVIFLEHK 167
>gnl|CDD|177066 CHL00144, odpB, pyruvate dehydrogenase E1 component beta subunit;
Validated.
Length = 327
Score = 213 bits (544), Expect = 4e-69
Identities = 97/207 (46%), Positives = 135/207 (65%), Gaps = 13/207 (6%)
Query: 1 MTVR---DALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITE 57
M+ +AL A+DEEMARD +VF++GE+V Y G+YKV++GL +KYGD RVLDTPI E
Sbjct: 1 MSEVFLFEALREAIDEEMARDPRVFVIGEDVGHYGGSYKVTKGLHEKYGDLRVLDTPIAE 60
Query: 58 IGFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNG 117
F G+A+GAAM GLRP+ E M F + A + I N+A Y S G +PIV RGP G
Sbjct: 61 NSFTGMAIGAAMTGLRPIVEGMNMGFLLLAFNQISNNAGMLHYTSGGNFTIPIVIRGPGG 120
Query: 118 AASGVAAQHSQCFGAWFTQCPGLKVV---SPYNSEDAKGLLKAAIRDPDPVVFLENELLY 174
+ A+HSQ ++F PGL++V +PYN AKGLLK+AIR +PV+F E+ LLY
Sbjct: 121 VGRQLGAEHSQRLESYFQSVPGLQIVACSTPYN---AKGLLKSAIRSNNPVIFFEHVLLY 177
Query: 175 GVQYPMGDEALSKDFVLPIGKAKVEKQ 201
++ +E +++LP+ KA+V +
Sbjct: 178 NLK----EEIPDNEYLLPLEKAEVVRP 200
>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 = 170 bits (433), Expect = 4e-54
Identities = 63/178 (35%), Positives = 82/178 (46%), Gaps = 9/178 (5%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
+ R A AL E RD +V G +VA G + V++GL GD RV+DT I E
Sbjct: 3 IATRKASGEALAELAKRDPRVVGGGADVA--GGTFTVTKGLLHPQGDGRVIDTGIAEQAM 60
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVP-IVFRGPNGAA 119
GIA G A+ GL P E +F+ A Y + G + VP +V R P G
Sbjct: 61 VGIANGMALHGLLPPVEATFGDFAN------RADDAIRHYAALGKLPVPFVVTRDPIGVG 114
Query: 120 SGVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVFLENELLYGVQ 177
SQ A+ P LKVV P ++ + KGLL+AAI D PVV L +
Sbjct: 115 EDGPTHQSQEDLAFLRAIPNLKVVRPSDAAETKGLLRAAIEDDGPVVLRLPRQLLRHK 172
>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 = 109 bits (275), Expect = 8e-31
Identities = 59/178 (33%), Positives = 72/178 (40%), Gaps = 47/178 (26%)
Query: 1 MTVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGF 60
+ R A AL E +DT I E
Sbjct: 3 IATRKAFGEALAELA-----------------------------------IDTGIAEQAM 27
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
G A G A+ GLRPV E F F +A D I ++ A NVP+VFR G
Sbjct: 28 VGFAAGLALHGLRPVVEIF-FTFFDRAKDQIRSAGA----SG----NVPVVFRHDGGGGV 78
Query: 121 GV--AAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDP-VVFLENELLYG 175
G HS A PGLKVV+P + +AKGLL+AAIRD P V+ LE + LY
Sbjct: 79 GEDGPTHHSIEDEALLRAIPGLKVVAPSDPAEAKGLLRAAIRDDGPVVIRLERKSLYR 136
>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 = 100 bits (252), Expect = 3e-27
Identities = 40/172 (23%), Positives = 62/172 (36%), Gaps = 23/172 (13%)
Query: 5 DALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGFAGIA 64
A L + G ++ GDKR++DT I E+G AG A
Sbjct: 1 AAFAEVLTAW----GVRHVFGYPG----DEISSLLDALRE-GDKRIIDTVIHELGAAGAA 51
Query: 65 VGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFR-GPNGAASGV- 122
G A AG PV + + AI+ + ++AA+ ++P+VF G G ++
Sbjct: 52 AGYARAGGPPVVIVTSGTGLLNAINGLADAAAE---------HLPVVFLIGARGISAQAK 102
Query: 123 AAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAAIRD---PDPVVFLENE 171
S + P + SP +E G+ A PVV
Sbjct: 103 QTFQSMFDLGMYRSIPEANISSPSPAELPAGIDHAIRTAYASQGPVVVRLPR 154
>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 = 76.7 bits (190), Expect = 5e-18
Identities = 45/167 (26%), Positives = 67/167 (40%), Gaps = 19/167 (11%)
Query: 5 DALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGFAGIA 64
A AL E +D ++ L ++ G K KK+ D R +D I E GIA
Sbjct: 1 KAFGEALLELAKKDPRIVALSADLGGSTGLDK----FAKKFPD-RFIDVGIAEQNMVGIA 55
Query: 65 VGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAASGVA- 123
G A+ GL+P +F F +A D I + A N+P+ F G + S
Sbjct: 56 AGLALHGLKPFVSTFSF-FLQRAYDQIRHDVA---LQ-----NLPVKFVGTHAGISVGED 106
Query: 124 -AQHSQCFG--AWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPVVF 167
H Q A P + V+ P ++ + L+AA+ PV
Sbjct: 107 GPTH-QGIEDIALLRAIPNMTVLRPADANETAAALEAALEYDGPVYI 152
>gnl|CDD|226467 COG3958, COG3958, Transketolase, C-terminal subunit [Carbohydrate
transport and metabolism].
Length = 312
Score = 40.0 bits (94), Expect = 4e-04
Identities = 40/171 (23%), Positives = 66/171 (38%), Gaps = 24/171 (14%)
Query: 2 TVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGFA 61
++R L E ++ + +L +++ K++ D R + I E
Sbjct: 8 SLRKVYGETLAELGRKNSDIVVLDADLSSSTKT----GYFAKEFPD-RFFNVGIAEQDMV 62
Query: 62 GIAVGAAMAGLRP-VCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNVPIVFRGPNGAAS 120
G A G A+AG +P V F F S +A + I NS A Y + NV IV +
Sbjct: 63 GTAAGLALAGKKPFVSTFAAF-LSRRAWEQIRNSIA---YNNL---NVKIV-----ATHA 110
Query: 121 GVAAQHS----QCFG--AWFTQCPGLKVVSPYNSEDAKGLLKAAIRDPDPV 165
GV Q A P + V++P ++ + + +L PV
Sbjct: 111 GVTYGEDGSSHQALEDIAIMRGLPNMTVIAPADAVETRAILDQIADYKGPV 161
>gnl|CDD|235470 PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 580
Score = 38.1 bits (90), Expect = 0.002
Identities = 46/181 (25%), Positives = 75/181 (41%), Gaps = 53/181 (29%)
Query: 41 LWKKYGDKRVLDTPITE---IGFAGIAVGAAMAGLRPVCE-FMTFNFSMQ-AIDHIINSA 95
K++ D R D I E + FA G A GL+PV + TF +Q A D +I
Sbjct: 315 FSKRFPD-RYFDVGIAEQHAVTFAA---GLATEGLKPVVAIYSTF---LQRAYDQVI--- 364
Query: 96 AKTFYMSAGTVNVPIVF---R----GPNGAASGVAAQHSQCFGAW---FTQC-PGLKVVS 144
N+P+ F R G +G H GA+ + +C P + +++
Sbjct: 365 -----HDVALQNLPVTFAIDRAGLVGADGPT------HQ---GAFDLSYLRCIPNMVIMA 410
Query: 145 PYNSEDAKGLLKAAIRDPD-PVVFLENELLYGVQYPMG---DEALSKDFVLPIGKAKVEK 200
P + + + +L A+ D P+ ++YP G L + LPIGK +V +
Sbjct: 411 PSDENELRQMLYTALAYDDGPIA---------IRYPRGNGVGVELPELEPLPIGKGEVLR 461
Query: 201 Q 201
+
Sbjct: 462 E 462
>gnl|CDD|217703 pfam03737, Methyltransf_6, Demethylmenaquinone methyltransferase.
Members of this family are demethylmenaquinone
methyltransferases that convert dimethylmenaquinone
(DMK) to menaquinone (MK) in the final step of
menaquinone biosynthesis. This region is also found at
the C-terminus of the DlpA protein.
Length = 154
Score = 35.7 bits (83), Expect = 0.006
Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 11/88 (12%)
Query: 27 EVALYDGAYKVSRGLWKKYGDKRVLDTPITEIGFAGIAVGAAMAGLRPVCEFMTFNFSMQ 86
V + DG + R LW GD +L T + G+ G+ V + R V + +
Sbjct: 60 RVLVVDGGGSLRRALW---GD--LLSTLAKKNGWEGVVVYGCV---RDVDALRELDLPIF 111
Query: 87 AIDHIINSAAKTFYMSAGTVNVPIVFRG 114
A+ +A KT G VNVP+ G
Sbjct: 112 ALGTTPCAAVKT---GIGEVNVPVTCGG 136
>gnl|CDD|224076 COG1154, Dxs, Deoxyxylulose-5-phosphate synthase [Coenzyme
metabolism / Lipid metabolism].
Length = 627
Score = 33.7 bits (78), Expect = 0.058
Identities = 57/212 (26%), Positives = 88/212 (41%), Gaps = 56/212 (26%)
Query: 10 ALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWK---KYGDKRVLDTPITE---IGFAGI 63
L E A+DEK+ VA+ A GL K K+ D R D I E + FA
Sbjct: 325 TLCELAAKDEKI------VAI-TAAMPEGTGLVKFSKKFPD-RFFDVGIAEQHAVTFAA- 375
Query: 64 AVGAAMAGLRPVCE-FMTFNFSMQ-AIDHIINSAAKTFYMSAGTVNVPIVF---RGPNGA 118
G A G++PV + TF +Q A D +I+ A N+P+ F R G
Sbjct: 376 --GLAAEGMKPVVAIYSTF---LQRAYDQLIHDVAIQ--------NLPVTFAIDRA--GI 420
Query: 119 ASGVAAQHSQCFGAW---FTQC-PGLKVVSPYNSEDAKGLLKAAIR-DPDPVVFLENELL 173
H G + F +C P + +++P + E+ + +L A+ D PV
Sbjct: 421 VGADGPTHQ---GLFDLSFLRCIPNMVIMAPRDEEELRQMLYTALAQDDGPVA------- 470
Query: 174 YGVQYP----MGDEALSKDFVLPIGKAKVEKQ 201
++YP +G + L IGK ++ K+
Sbjct: 471 --IRYPRGNGVGVILTPELEPLEIGKGELLKE 500
>gnl|CDD|237053 PRK12315, PRK12315, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 581
Score = 32.7 bits (75), Expect = 0.12
Identities = 36/126 (28%), Positives = 50/126 (39%), Gaps = 12/126 (9%)
Query: 43 KKYGDKRVLDTPITEIGFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMS 102
KKY D+ V D I E A G A G RPV F+ F +A D + + A
Sbjct: 316 KKYPDQYV-DVGIAEQESVAFASGIAANGARPVI-FVNSTFLQRAYDQLSHDLAIN---- 369
Query: 103 AGTVNVPIVFRGPNGAASGVAAQHSQCFG-AWFTQCPGLKVVSPYNSEDAKGLLKAAIRD 161
N P V G+ SG H F + P L ++P E+ +L+ A+
Sbjct: 370 ----NNPAVMIVFGGSISGNDVTHLGIFDIPMISNIPNLVYLAPTTKEELIAMLEWALTQ 425
Query: 162 PD-PVV 166
+ PV
Sbjct: 426 HEHPVA 431
>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 = 30.5 bits (69), Expect = 0.70
Identities = 34/162 (20%), Positives = 61/162 (37%), Gaps = 29/162 (17%)
Query: 48 KRVLDTPITEIGFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVN 107
R D I E A G A+ G +P + F +A D +++
Sbjct: 352 DRYFDVAIAEQHAVTFAAGMAIEGYKPFVAIYS-TFLQRAYDQVVHDVCIQ--------K 402
Query: 108 VPIVF---RGPNGAASGVAAQHSQCFGAWFTQC-PGLKVVSPYNSEDAKGLLKAAIR-DP 162
+P++F R A G H F + +C P + +++P + + + +L D
Sbjct: 403 LPVLFAIDRAGIVGADG--ETHQGAFDISYLRCIPNMVIMAPSDENELRQMLYTGYHYDD 460
Query: 163 DPVVFLENELLYGVQYPMGDEALSK-DFV---LPIGKAKVEK 200
P+ +YP G+ + LPIGK++V +
Sbjct: 461 GPIAV---------RYPRGNAVGVELTPEPEKLPIGKSEVLR 493
>gnl|CDD|183601 PRK12571, PRK12571, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 641
Score = 29.7 bits (67), Expect = 1.0
Identities = 31/129 (24%), Positives = 49/129 (37%), Gaps = 24/129 (18%)
Query: 48 KRVLDTPITEIGFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVN 107
RV D I E A G A AGL+P C + F + D ++ N
Sbjct: 361 NRVFDVGIAEQHAVTFAAGLAAAGLKPFCAVYS-TFLQRGYDQLL--------HDVALQN 411
Query: 108 VPIVF-------RGPNGAASGVAAQHSQCFGAWFTQC-PGLKVVSPYNSEDAKGLLKAAI 159
+P+ F G +GA H+ F F P + V++P + + + +L+ A
Sbjct: 412 LPVRFVLDRAGLVGADGAT------HAGAFDLAFLTNLPNMTVMAPRDEAELRHMLRTAA 465
Query: 160 -RDPDPVVF 167
D P+
Sbjct: 466 AHDDGPIAV 474
>gnl|CDD|177878 PLN02234, PLN02234, 1-deoxy-D-xylulose-5-phosphate synthase.
Length = 641
Score = 29.7 bits (66), Expect = 1.0
Identities = 35/157 (22%), Positives = 58/157 (36%), Gaps = 17/157 (10%)
Query: 49 RVLDTPITEIGFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIINSAAKTFYMSAGTVNV 108
R D I E A G A GL+P C + +F +A D +++ +
Sbjct: 400 RCFDVGIAEQHAVTFAAGLACEGLKPFCTIYS-SFMQRAYDQVVH--------DVDLQKL 450
Query: 109 PIVFRGPNGAASGV-AAQHSQCFGAWFTQC-PGLKVVSPYNSEDAKGLL--KAAIRDPDP 164
P+ F G H F F C P + V++P + + ++ AAI D
Sbjct: 451 PVRFAIDRAGLMGADGPTHCGAFDVTFMACLPNMIVMAPSDEAELFNMVATAAAIDDRPS 510
Query: 165 VVFLENELLYGVQYPMGDEALSKDFVLPIGKAKVEKQ 201
GV P G++ + L IG+ ++ +
Sbjct: 511 CFRYHRGNGIGVSLPPGNKGVP----LQIGRGRILRD 543
>gnl|CDD|214815 smart00774, WRKY, DNA binding domain. The WRKY domain is a DNA
binding domain found in one or two copies in a
superfamily of plant transcription factors. These
transcription factors are involved in the regulation of
various physiological programs that are unique to
plants, including pathogen defense, senescence and
trichome development. The domain is a 60 amino acid
region that is defined by the conserved amino acid
sequence WRKYGQK at its N-terminal end, together with a
novel zinc-finger-like motif. It binds specifically to
the DNA sequence motif (T)(T)TGAC(C/T), which is known
as the W box. The invariant TGAC core is essential for
function and WRKY binding.
Length = 59
Score = 27.1 bits (61), Expect = 1.4
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 6/25 (24%)
Query: 30 LYDGAYKVSRGLWKKYGDKRVLDTP 54
L DG Y+ W+KYG K + +P
Sbjct: 1 LDDG-YQ-----WRKYGQKVIKGSP 19
>gnl|CDD|163557 TIGR03845, sulfopyru_alph, sulfopyruvate decarboxylase, alpha
subunit. This model represents the alpha subunit, or
the N-terminal region, of sulfopyruvate decarboxylase,
an enzyme of coenzyme M biosynthesis. Coenzyme M is
found almost exclusively in the methanogenic archaea.
However, the enzyme also occurs in Roseovarius
nubinhibens ISM in a degradative pathway, where the
resulting sulfoacetaldehyde is desulfonated to acetyl
phosphate, then converted to acetyl-CoA (see
PMID:19581363) [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other, Energy metabolism,
Methanogenesis].
Length = 157
Score = 27.6 bits (62), Expect = 2.7
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 47 DKRVLDTPIT--EIGFAGIAVGAAMAGLRPV 75
+K P+T E G GI GA +AG +P
Sbjct: 32 EKDFRHIPLTREEEGV-GICAGAYLAGKKPA 61
>gnl|CDD|223756 COG0684, MenG, Demethylmenaquinone methyltransferase [Coenzyme
metabolism].
Length = 210
Score = 28.0 bits (63), Expect = 3.1
Identities = 27/87 (31%), Positives = 37/87 (42%), Gaps = 11/87 (12%)
Query: 28 VALYDGAYKVSRGLWKKYGDKRVLDTPITEIGFAGIAVGAAMAGLRPVCEFMTFNFSMQA 87
V + DG + R LW GD +L T G+AG+ + A+ R V E +F + A
Sbjct: 73 VLVIDGGGDLRRALW---GD--LLATLAKVRGWAGVVIDGAV---RDVDELRELDFPVFA 124
Query: 88 IDHIINSAAKTFYMSAGTVNVPIVFRG 114
A K G VNVP+ G
Sbjct: 125 RGVTPRGATKR---GIGEVNVPVTCGG 148
>gnl|CDD|234170 TIGR03336, IOR_alpha, indolepyruvate ferredoxin oxidoreductase,
alpha subunit. Indolepyruvate ferredoxin oxidoreductase
(IOR) is an alpha 2/beta 2 tetramer related to ketoacid
oxidoreductases for pyruvate (1.2.7.1, POR),
2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate
(1.2.7.7, VOR). These multi-subunit enzymes typically
are found in anaerobes and are inactiviated by oxygen.
IOR in Pyrococcus acts in fermentation of all three
aromatic amino acids, following removal of the amino
group by transamination. In Methanococcus maripaludis,
by contrast, IOR acts in the opposite direction, in
pathways of amino acid biosynthesis from phenylacetate,
indoleacetate, and p-hydroxyphenylacetate. In M.
maripaludis and many other species, iorA and iorB are
found next to an apparent phenylacetate-CoA ligase.
Length = 595
Score = 28.2 bits (63), Expect = 3.8
Identities = 45/167 (26%), Positives = 65/167 (38%), Gaps = 48/167 (28%)
Query: 19 EKVFLLGEEVALYDGAYKVSRGLWKKYGDKRVLDTPITEIG--------FAG-------- 62
K LLG E A+ GA + G+ Y TP +EI AG
Sbjct: 1 MKELLLGNE-AIARGALEAGVGVAAAYPG-----TPSSEITDTLAKVAKRAGVYFEWSVN 54
Query: 63 ------IAVGAAMAGLRPVCEFMTFNFSMQAIDHI-INSAAKTFYMSAGT-VN---VPIV 111
+A GAA +GLR C +M+ H+ +N AA A T V V +V
Sbjct: 55 EKVAVEVAAGAAWSGLRAFC-------TMK---HVGLNVAADPLMTLAYTGVKGGLVVVV 104
Query: 112 FRGPNGAASGVAAQHSQCFGAWFTQCPGLKVVSPYNSEDAKGLLKAA 158
P S Q ++ + A F + P + P ++AK ++K A
Sbjct: 105 ADDP-SMHSSQNEQDTRHY-AKFAKIP---CLEPSTPQEAKDMVKYA 146
>gnl|CDD|240245 PTZ00050, PTZ00050, 3-oxoacyl-acyl carrier protein synthase;
Provisional.
Length = 421
Score = 27.7 bits (62), Expect = 4.3
Identities = 18/78 (23%), Positives = 32/78 (41%), Gaps = 13/78 (16%)
Query: 61 AGIAVGAAMAGLRPVCEFMTF-------NFSMQAIDHIINSAAKTFYMSAGTVNVPIVFR 113
G+ +G+ + L + + M S I I+ + M+AG V + +
Sbjct: 105 IGVNIGSGIGSLADLTDEMKTLYEKGHSRVSPYFIPKILGN------MAAGLVAIKHKLK 158
Query: 114 GPNGAASGVAAQHSQCFG 131
GP+G+A A + C G
Sbjct: 159 GPSGSAVTACATGAHCIG 176
>gnl|CDD|235781 PRK06333, PRK06333, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 424
Score = 27.7 bits (62), Expect = 4.5
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 101 MSAGTVNVPIVFRGPNGAASGVAAQHSQCFGA 132
M+AG V++ F+GP GA A Q G
Sbjct: 151 MAAGHVSIRYGFKGPLGAPVTACAAGVQAIGD 182
>gnl|CDD|107347 cd06352, PBP1_NPR_GC_like, Ligand-binding domain of membrane
guanylyl-cyclase receptors. Ligand-binding domain of
membrane guanylyl-cyclase receptors. Membrane guanylyl
cyclases (GC) have a single membrane-spanning region and
are activated by endogenous and exogenous peptides. This
family can be divided into three major subfamilies: the
natriuretic peptide receptors (NPRs), sensory
organ-specific membrane GCs, and the
enterotoxin/guanylin receptors. The binding of peptide
ligands to the receptor results in the activation of the
cytosolic catalytic domain. Three types of NPRs have
been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/
GC-B, and NPR-C. In addition, two of the GCs, GC-D and
GC-G, appear to be pseudogenes in humans. Atrial
natriuretic peptide (ANP) and brain natriuretic peptide
(BNP) are produced in the heart, and both bind to the
NPR-A. NPR-C, also termed the clearance receptor, binds
each of the natriuretic peptides and can alter
circulating levels of these peptides. The ligand binding
domain of the NPRs exhibits strong structural similarity
to the type I periplasmic binding fold protein family.
Length = 389
Score = 27.3 bits (61), Expect = 5.7
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 2 TVRDALNSALDEEMARDEKVFLLGEEVALYDGAYKVSRGLWKKYGDKR 49
VR+ L +A D + + VF+L + L++ + + GD
Sbjct: 206 DVRELLLAAHDLGLTSGDYVFIL---IDLFNYSLPYQNSYPWERGDGD 250
>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 = 6.5
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 142 VVSPYNSEDAKGLLKAAIRDPDPVVFLENELL 173
VV PYNS LK I + D VV L+N L
Sbjct: 180 VVQPYNSILT---LKRLILNADCVVVLDNTAL 208
>gnl|CDD|181076 PRK07671, PRK07671, cystathionine beta-lyase; Provisional.
Length = 377
Score = 27.0 bits (60), Expect = 6.8
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 8/44 (18%)
Query: 51 LDTPITEI--GFAGIAVGAAMAGLRPVCEFMTFNFSMQAIDHII 92
L+ I + G AG A G+ MA + V M F+ DH+I
Sbjct: 55 LEELIAVLEGGHAGFAFGSGMAAITAV--MMLFSSG----DHVI 92
>gnl|CDD|218447 pfam05123, S_layer_N, S-layer like family, N-terminal region.
Length = 279
Score = 27.0 bits (60), Expect = 7.8
Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 9/64 (14%)
Query: 61 AGIAVGAAMAGLRPVCEFMTFNFSMQAIDHIIN-SAAKTFYMSAGTVNVPIVFRGPNGAA 119
IAVG AM A + + + ++ G NV IV G N AA
Sbjct: 4 GAIAVGGAMVA-------SALASGAFAAEKVGDVDKFMDDFVKDGNPNVDIVV-GSNAAA 55
Query: 120 SGVA 123
V
Sbjct: 56 MDVV 59
>gnl|CDD|236147 PRK08071, PRK08071, L-aspartate oxidase; Provisional.
Length = 510
Score = 26.9 bits (60), Expect = 8.7
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 4 RDALNSALDEEMARDEKVFL 23
RD + A+ EE+ EKV+L
Sbjct: 272 RDVVARAIHEELLSGEKVYL 291
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 0.137 0.403
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: 10,776,840
Number of extensions: 1022961
Number of successful extensions: 1020
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1001
Number of HSP's successfully gapped: 46
Length of query: 207
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 115
Effective length of database: 6,857,034
Effective search space: 788558910
Effective search space used: 788558910
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: 57 (25.5 bits)