RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 023305
(284 letters)
>gnl|CDD|215181 PLN02317, PLN02317, arogenate dehydratase.
Length = 382
Score = 560 bits (1446), Expect = 0.0
Identities = 222/282 (78%), Positives = 253/282 (89%)
Query: 3 QGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDL 62
QG+PG++SE AA KAYP CE VPC++FE F+AVELWLAD+AVLPIENS GSIHRNYDL
Sbjct: 100 QGVPGAYSEAAARKAYPNCEAVPCEQFEAAFQAVELWLADRAVLPIENSLGGSIHRNYDL 159
Query: 63 LLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDD 122
LLRHRLHIVGEVQL + CLLALPG++ ++LKRV+SHPQALA + LT+LGV RE VDD
Sbjct: 160 LLRHRLHIVGEVQLPVHHCLLALPGVRKEELKRVISHPQALAQCENTLTKLGVVREAVDD 219
Query: 123 TASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTD 182
TA AA+ VA+NGLRD A+ASARAAE+YGL+ILA+ IQD+ DN+TRFL+LAR+PIIPRTD
Sbjct: 220 TAGAAKMVAANGLRDTAAIASARAAELYGLDILAEGIQDDSDNVTRFLMLAREPIIPRTD 279
Query: 183 KLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFD 242
+ FKTSIVF+L+EGPGVLFKALAVFALR+INLTKIESRPQRKRPLRVVDDSN+GTAKYFD
Sbjct: 280 RPFKTSIVFSLEEGPGVLFKALAVFALRDINLTKIESRPQRKRPLRVVDDSNSGTAKYFD 339
Query: 243 YLFYIDFEASMADPRAQNALGHLQEFATFLRVLGCYPMDATL 284
YLFY+DFEASMADPRAQNAL HLQEFATFLRVLG YPMD T
Sbjct: 340 YLFYVDFEASMADPRAQNALAHLQEFATFLRVLGSYPMDMTP 381
>gnl|CDD|223155 COG0077, PheA, Prephenate dehydratase [Amino acid transport and
metabolism].
Length = 279
Score = 287 bits (738), Expect = 1e-97
Identities = 126/280 (45%), Positives = 162/280 (57%), Gaps = 17/280 (6%)
Query: 3 QGLPGSFSEDAALKAYPK-CETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYD 61
G G+FSE AA K + E +PC ED FKAVE AD V+PIENS GS++ D
Sbjct: 8 LGPEGTFSEQAARKLFGSGAELLPCSTIEDVFKAVENGEADYGVVPIENSIEGSVNETLD 67
Query: 62 LLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALA-SSDIVLTQL-GVAREN 119
LL L IVGE+ L + CLL G+ +++K V SHPQALA + L GV E
Sbjct: 68 LLAETDLQIVGEIVLPIHHCLLVKGGVDLEEIKTVYSHPQALAQCRKFLRAHLPGVEIEY 127
Query: 120 VDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIP 179
TA AA+ VA A+AS AAE+YGL+ILA+ I+DEP+N TRFLVL+R
Sbjct: 128 TSSTAEAAKLVAEGPDETVAAIASELAAELYGLDILAENIEDEPNNRTRFLVLSRRKPPS 187
Query: 180 RTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAK 239
+D KTS++F++ PG L+KAL VFA R INLTKIESRP +
Sbjct: 188 VSDGPEKTSLIFSVPNKPGALYKALGVFAKRGINLTKIESRPLKTGL------------- 234
Query: 240 YFDYLFYIDFEASMADPRAQNALGHLQEFATFLRVLGCYP 279
+YLF+ID E + DP + AL L+E F+++LG YP
Sbjct: 235 -GEYLFFIDIEGHIDDPLVKEALEELKEITEFVKILGSYP 273
>gnl|CDD|237013 PRK11898, PRK11898, prephenate dehydratase; Provisional.
Length = 283
Score = 235 bits (601), Expect = 6e-77
Identities = 122/284 (42%), Positives = 150/284 (52%), Gaps = 23/284 (8%)
Query: 4 GLPGSFSEDAALKAYPKC---ETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNY 60
G G+F+E AALK +P E VP D D AVE D AV+PIENS GS++
Sbjct: 8 GPEGTFTEAAALKFFPADGEAELVPYDSIPDVLDAVEAGEVDYAVVPIENSIEGSVNPTL 67
Query: 61 DLLLRH-RLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQ--LGVAR 117
D L L IV E+ L LL PG A ++ V SHPQALA L + G
Sbjct: 68 DYLAHGSPLQIVAEIVLPIAQHLLVHPGHAAK-IRTVYSHPQALAQCRKWLAEHLPGAEL 126
Query: 118 ENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARD-P 176
E + TA+AAQYVA + A+AS AAE+YGL ILA+ IQD P+N TRF +L R P
Sbjct: 127 EPANSTAAAAQYVAEHPDEPIAAIASELAAELYGLEILAEDIQDYPNNRTRFWLLGRKKP 186
Query: 177 IIPRTDKLFKTSIVFTLDE-GPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNN 235
P KTS+V TL PG L+KAL+ FA R INLT+IESRP +
Sbjct: 187 PPPLRTGGDKTSLVLTLPNNLPGALYKALSEFAWRGINLTRIESRPTKTGL--------- 237
Query: 236 GTAKYFDYLFYIDFEASMADPRAQNALGHLQEFATFLRVLGCYP 279
GT Y F+ID E + D AL L+ ++VLG YP
Sbjct: 238 GT-----YFFFIDVEGHIDDVLVAEALKELEALGEDVKVLGSYP 276
>gnl|CDD|237014 PRK11899, PRK11899, prephenate dehydratase; Provisional.
Length = 279
Score = 228 bits (584), Expect = 2e-74
Identities = 115/283 (40%), Positives = 149/283 (52%), Gaps = 21/283 (7%)
Query: 3 QGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSG---SIHRN 59
QG PG+ S A A+P E +PC FED F+AVE AD A++PIENS +G IH
Sbjct: 10 QGEPGANSHLACRDAFPDMEPLPCATFEDAFEAVESGEADLAMIPIENSLAGRVADIHH- 68
Query: 60 YDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVAREN 119
LL LHIVGE L L+ALPG +++K V SHP AL ++ LG+
Sbjct: 69 --LLPESGLHIVGEYFLPIRHQLMALPGATLEEIKTVHSHPHALGQCRKIIRALGLKPVV 126
Query: 120 VDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDP-II 178
DTA AA+ VA G A+AS AAE+YGL+ILA+ I+D N TRF+VL+R+
Sbjct: 127 AADTAGAARLVAERGDPSMAALASRLAAELYGLDILAENIEDADHNTTRFVVLSREADWA 186
Query: 179 PRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTA 238
R D T+ VF + P L+KAL FA +N+TK+ES +V S T
Sbjct: 187 ARGDGPIVTTFVFRVRNIPAALYKALGGFATNGVNMTKLES--------YMVGGSFTAT- 237
Query: 239 KYFDYLFYIDFEASMADPRAQNALGHLQEFATFLRVLGCYPMD 281
FY D E D AL L+ F+ +R+LG YP
Sbjct: 238 -----QFYADIEGHPEDRNVALALEELRFFSEEVRILGVYPAH 275
>gnl|CDD|216127 pfam00800, PDT, Prephenate dehydratase. This protein is involved
in Phenylalanine biosynthesis. This protein catalyzes
the decarboxylation of prephenate to phenylpyruvate.
Length = 181
Score = 219 bits (560), Expect = 3e-72
Identities = 90/178 (50%), Positives = 112/178 (62%), Gaps = 3/178 (1%)
Query: 3 QGLPGSFSEDAALKAYPK-CETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYD 61
G G+FSE AALK + + E VPC ED F+AVE AD AV+PIENS GS++ D
Sbjct: 4 LGPEGTFSEQAALKLFGQSVELVPCPSIEDVFEAVENGEADYAVVPIENSIEGSVNETLD 63
Query: 62 LLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQL--GVAREN 119
LLL L IVGEV L + CLLA PG + +K V SHPQALA L + G R
Sbjct: 64 LLLESDLKIVGEVVLPIHHCLLARPGTDLEDIKTVYSHPQALAQCREFLEKHLPGAERVP 123
Query: 120 VDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPI 177
V TA+AA+ VA+ G + A A+AS AAE+YGL ILA+ I+D +N TRFLVL ++P
Sbjct: 124 VSSTAAAAKIVAAEGDKGAAAIASELAAELYGLKILAENIEDNKNNTTRFLVLGKEPT 181
>gnl|CDD|182594 PRK10622, pheA, bifunctional chorismate mutase/prephenate
dehydratase; Provisional.
Length = 386
Score = 161 bits (409), Expect = 4e-47
Identities = 89/255 (34%), Positives = 126/255 (49%), Gaps = 15/255 (5%)
Query: 26 CDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLAL 85
C +F D F VE AD AVLPIEN+SSG+I+ YDLL L IVGE+ L + C+L
Sbjct: 136 CAKFADIFNQVETGQADYAVLPIENTSSGAINDVYDLLQHTSLSIVGEMTLPIDHCVLVS 195
Query: 86 PGIKADQLKRVLSHPQALASSDIVLTQLGVAR-ENVDDTASAAQYVASNGLRDAGAVASA 144
++ V SHPQ L + + E + TA+A + VA A+ S
Sbjct: 196 GTTDLSTIETVYSHPQPFQQCSQFLNRYPHWKIEYTESTAAAMEKVAQANSPHVAALGSE 255
Query: 145 RAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKAL 204
+YGL +L + ++ NITRF+VLAR I KT+++ + G L +AL
Sbjct: 256 AGGALYGLQVLERNLANQQQNITRFIVLARKAINVSDQVPAKTTLLMATGQQAGALVEAL 315
Query: 205 AVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLFYIDFEASMADPRAQNALGH 264
V + +TK+ESRP P ++ +FY+D +A++ Q AL
Sbjct: 316 LVLRNHNLIMTKLESRPIHGNP--------------WEEMFYLDVQANLRSAEMQKALKE 361
Query: 265 LQEFATFLRVLGCYP 279
L E L+VLGCYP
Sbjct: 362 LGEITRSLKVLGCYP 376
>gnl|CDD|153177 cd04905, ACT_CM-PDT, C-terminal ACT domain of the bifunctional
chorismate mutase-prephenate dehydratase (CM-PDT) enzyme
and the prephenate dehydratase (PDT) enzyme. The
C-terminal ACT domain of the bifunctional chorismate
mutase-prephenate dehydratase (CM-PDT) enzyme and the
prephenate dehydratase (PDT) enzyme, found in plants,
fungi, bacteria, and archaea. The P-protein of E. coli
(CM-PDT, PheA) catalyzes the conversion of chorismate to
prephenate and then the decarboxylation and dehydration
to form phenylpyruvate. These are the first two steps in
the biosynthesis of L-Phe and L-Tyr via the shikimate
pathway in microorganisms and plants. The E. coli
P-protein (CM-PDT) has three domains with an N-terminal
domain with chorismate mutase activity, a middle domain
with prephenate dehydratase activity, and an ACT
regulatory C-terminal domain. The prephenate dehydratase
enzyme has a PDT and ACT domain. The ACT domain is
essential to bring about the negative allosteric
regulation by L-Phe binding. L-Phe binds with positive
cooperativity; with this binding, there is a shift in
the protein to less active tetrameric and higher
oligomeric forms from a more active dimeric form.
Members of this CD belong to the superfamily of ACT
regulatory domains.
Length = 80
Score = 119 bits (301), Expect = 2e-34
Identities = 43/94 (45%), Positives = 53/94 (56%), Gaps = 14/94 (14%)
Query: 186 KTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLF 245
KTSIVFTL PG L+ L VFA R INLTKIESRP + ++Y+F
Sbjct: 1 KTSIVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGL--------------WEYVF 46
Query: 246 YIDFEASMADPRAQNALGHLQEFATFLRVLGCYP 279
+IDFE + DP AL L+ F++VLG YP
Sbjct: 47 FIDFEGHIEDPNVAEALEELKRLTEFVKVLGSYP 80
>gnl|CDD|153152 cd04880, ACT_AAAH-PDT-like, ACT domain of the nonheme
iron-dependent, aromatic amino acid hydroxylases (AAAH).
ACT domain of the nonheme iron-dependent, aromatic
amino acid hydroxylases (AAAH): Phenylalanine
hydroxylases (PAH), tyrosine hydroxylases (TH) and
tryptophan hydroxylases (TPH), both peripheral (TPH1)
and neuronal (TPH2) enzymes. This family of enzymes
shares a common catalytic mechanism, in which dioxygen
is used by an active site containing a single, reduced
iron atom to hydroxylate an unactivated aromatic
substrate, concomitant with a two-electron oxidation of
tetrahydropterin (BH4) cofactor to its quinonoid
dihydropterin form. Eukaryotic AAAHs have an N-terminal
ACT (regulatory) domain, a middle catalytic domain and a
C-terminal domain which is responsible for the
oligomeric state of the enzyme forming a domain-swapped
tetrameric coiled-coil. The PAH, TH, and TPH enzymes
contain highly conserved catalytic domains but distinct
N-terminal ACT domains and differ in their mechanisms of
regulation. One commonality is that all three eukaryotic
enzymes appear to be regulated, in part, by the
phosphorylation of serine residues N-terminal of the ACT
domain. Also included in this CD are the C-terminal ACT
domains of the bifunctional chorismate mutase-prephenate
dehydratase (CM-PDT) enzyme and the prephenate
dehydratase (PDT) enzyme found in plants, fungi,
bacteria, and archaea. The P-protein of Escherichia coli
(CM-PDT) catalyzes the conversion of chorismate to
prephenate and then the decarboxylation and dehydration
to form phenylpyruvate. These are the first two steps in
the biosynthesis of L-Phe and L-Tyr via the shikimate
pathway in microorganisms and plants. The E. coli
P-protein (CM-PDT) has three domains with an N-terminal
domain with chorismate mutase activity, a middle domain
with prephenate dehydratase activity, and an ACT
regulatory C-terminal domain. The prephenate dehydratase
enzyme has a PDT and ACT domain. The ACT domain is
essential to bring about the negative allosteric
regulation by L-Phe binding. L-Phe binds with positive
cooperativity; with this binding, there is a shift in
the protein to less active tetrameric and higher
oligomeric forms from a more active dimeric form.
Members of this CD belong to the superfamily of ACT
regulatory domains.
Length = 75
Score = 101 bits (253), Expect = 2e-27
Identities = 39/89 (43%), Positives = 50/89 (56%), Gaps = 14/89 (15%)
Query: 188 SIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLFYI 247
S+VF+L PG L KAL VFA R INLTKIESRP RK ++Y F++
Sbjct: 1 SLVFSLKNKPGALAKALKVFAERGINLTKIESRPSRKGL--------------WEYEFFV 46
Query: 248 DFEASMADPRAQNALGHLQEFATFLRVLG 276
DFE + DP + AL L+ ++VLG
Sbjct: 47 DFEGHIDDPDVKEALEELKRVTEDVKVLG 75
>gnl|CDD|153176 cd04904, ACT_AAAH, ACT domain of the nonheme iron-dependent,
aromatic amino acid hydroxylases (AAAH). ACT domain of
the nonheme iron-dependent, aromatic amino acid
hydroxylases (AAAH): Phenylalanine hydroxylases (PAH),
tyrosine hydroxylases (TH) and tryptophan hydroxylases
(TPH), both peripheral (TPH1) and neuronal (TPH2)
enzymes. This family of enzymes shares a common
catalytic mechanism, in which dioxygen is used by an
active site containing a single, reduced iron atom to
hydroxylate an unactivated aromatic substrate,
concomitant with a two-electron oxidation of
tetrahydropterin (BH4) cofactor to its quinonoid
dihydropterin form. PAH catalyzes the hydroxylation of
L-Phe to L-Tyr, the first step in the catabolic
degradation of L-Phe; TH catalyses the hydroxylation of
L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting
step in the biosynthesis of catecholamines; and TPH
catalyses the hydroxylation of L-Trp to
5-hydroxytryptophan, the rate limiting step in the
biosynthesis of 5-hydroxytryptamine (serotonin) and the
first reaction in the synthesis of melatonin. Eukaryotic
AAAHs have an N-terminal ACT (regulatory) domain, a
middle catalytic domain and a C-terminal domain which is
responsible for the oligomeric state of the enzyme
forming a domain-swapped tetrameric coiled-coil. The
PAH, TH, and TPH enzymes contain highly conserved
catalytic domains but distinct N-terminal ACT domains
(this CD) and differ in their mechanisms of regulation.
One commonality is that all three eukaryotic enzymes are
regulated in part by the phosphorylation of serine
residues N-terminal of the ACT domain. Members of this
CD belong to the superfamily of ACT regulatory domains.
Length = 74
Score = 53.3 bits (129), Expect = 1e-09
Identities = 19/39 (48%), Positives = 26/39 (66%)
Query: 187 TSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKR 225
TS++F+L E G L +AL +F +NLT IESRP R+
Sbjct: 1 TSLIFSLKEEVGALARALKLFEEFGVNLTHIESRPSRRN 39
>gnl|CDD|130335 TIGR01268, Phe4hydrox_tetr, phenylalanine-4-hydroxylase, tetrameric
form. This model describes the larger, tetrameric form
of phenylalanine-4-hydroxylase, as found in metazoans.
The enzyme irreversibly converts phenylalanine to
tryosine and is known to be the rate-limiting step in
phenylalanine catabolism in some systems. It is closely
related to metazoan tyrosine 3-monooxygenase and
tryptophan 5-monoxygenase, and more distantly to
monomeric phenylalanine-4-hydroxylases of some
Gram-negative bacteria. The member of this family from
Drosophila has been described as having both
phenylalanine-4-hydroxylase and tryptophan
5-monoxygenase activity (PMID:1371286). However, a
Drosophila member of the tryptophan 5-monoxygenase clade
has subsequently been discovered.
Length = 436
Score = 49.1 bits (117), Expect = 1e-06
Identities = 25/82 (30%), Positives = 43/82 (52%), Gaps = 15/82 (18%)
Query: 186 KTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLF 245
KTS++F+L E G L + L +F ++NLT IESRP + P +Y F
Sbjct: 16 KTSLIFSLKEEAGALAETLKLFQAHDVNLTHIESRPSKTHP--------------GEYEF 61
Query: 246 YIDFEASMADPRAQNALGHLQE 267
+++F +D + + + HL++
Sbjct: 62 FVEF-DEASDRKLEGVIEHLRQ 82
>gnl|CDD|153203 cd04931, ACT_PAH, ACT domain of the nonheme iron-dependent aromatic
amino acid hydroxylase, phenylalanine hydroxylases
(PAH). ACT domain of the nonheme iron-dependent
aromatic amino acid hydroxylase, phenylalanine
hydroxylases (PAH). PAH catalyzes the hydroxylation of
L-Phe to L-Tyr, the first step in the catabolic
degradation of L-Phe. In PAH, an autoregulatory
sequence, N-terminal of the ACT domain, extends across
the catalytic domain active site and regulates the
enzyme by intrasteric regulation. It appears that the
activation by L-Phe induces a conformational change that
converts the enzyme to a high-affinity and high-activity
state. Modulation of activity is achieved through
inhibition by BH4 and activation by phosphorylation of
serine residues of the autoregulatory region. The
molecular basis for the cooperative activation process
is not fully understood yet. Members of this CD belong
to the superfamily of ACT regulatory domains.
Length = 90
Score = 44.4 bits (105), Expect = 2e-06
Identities = 19/37 (51%), Positives = 25/37 (67%)
Query: 188 SIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRK 224
S++F+L E G L K L +F ++INLT IESRP R
Sbjct: 16 SLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSRL 52
>gnl|CDD|153202 cd04930, ACT_TH, ACT domain of the nonheme iron-dependent aromatic
amino acid hydroxylase, tyrosine hydroxylases (TH). ACT
domain of the nonheme iron-dependent aromatic amino acid
hydroxylase, tyrosine hydroxylases (TH). TH catalyses
the hydroxylation of L-Tyr to
3,4-dihydroxyphenylalanine, the rate limiting step in
the biosynthesis of catecholamines (dopamine,
noradrenaline and adrenaline), functioning as hormones
and neurotransmitters. The enzyme is not regulated by
its amino acid substrate, but instead by phosphorylation
at several serine residues located N-terminal of the ACT
domain, and by feedback inhibition by catecholamines at
the active site. Members of this CD belong to the
superfamily of ACT regulatory domains.
Length = 115
Score = 41.2 bits (97), Expect = 7e-05
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 186 KTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRK 224
K +++F+L EG L + L VF E + +ESRP RK
Sbjct: 41 KATLLFSLKEGFSSLSRILKVFETFEAKIHHLESRPSRK 79
>gnl|CDD|153201 cd04929, ACT_TPH, ACT domain of the nonheme iron-dependent aromatic
amino acid hydroxylase, tryptophan hydroxylases (TPH),
both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT
domain of the nonheme iron-dependent aromatic amino acid
hydroxylase, tryptophan hydroxylases (TPH), both
peripheral (TPH1) and neuronal (TPH2) enzymes. TPH
catalyses the hydroxylation of L-Trp to
5-hydroxytryptophan, the rate limiting step in the
biosynthesis of 5-hydroxytryptamine (serotonin) and the
first reaction in the synthesis of melatonin. Very
little is known about the role of the ACT domain in TPH,
which appears to be regulated by phosphorylation but not
by its substrate or cofactor. Members of this CD belong
to the superfamily of ACT regulatory domains.
Length = 74
Score = 39.3 bits (92), Expect = 1e-04
Identities = 17/39 (43%), Positives = 24/39 (61%)
Query: 187 TSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKR 225
TS++F+L G L KAL +F IN+ IESR ++R
Sbjct: 1 TSVIFSLKNEVGGLAKALKLFQELGINVVHIESRKSKRR 39
>gnl|CDD|153139 cd02116, ACT, ACT domains are commonly involved in specifically
binding an amino acid or other small ligand leading to
regulation of the enzyme. Members of this CD belong to
the superfamily of ACT regulatory domains. Pairs of ACT
domains are commonly involved in specifically binding an
amino acid or other small ligand leading to regulation
of the enzyme. The ACT domain has been detected in a
number of diverse proteins; some of these proteins are
involved in amino acid and purine biosynthesis,
phenylalanine hydroxylation, regulation of bacterial
metabolism and transcription, and many remain to be
characterized. ACT domain-containing enzymes involved in
amino acid and purine synthesis are in many cases
allosteric enzymes with complex regulation enforced by
the binding of ligands. The ACT domain is commonly
involved in the binding of a small regulatory molecule,
such as the amino acids L-Ser and L-Phe in the case of
D-3-phosphoglycerate dehydrogenase and the bifunctional
chorismate mutase-prephenate dehydratase enzyme
(P-protein), respectively. Aspartokinases typically
consist of two C-terminal ACT domains in a tandem
repeat, but the second ACT domain is inserted within
the first, resulting in, what is normally the terminal
beta strand of ACT2, formed from a region N-terminal of
ACT1. ACT domain repeats have been shown to have
nonequivalent ligand-binding sites with complex
regulatory patterns such as those seen in the
bifunctional enzyme, aspartokinase-homoserine
dehydrogenase (ThrA). In other enzymes, such as
phenylalanine hydroxylases, the ACT domain appears to
function as a flexible small module providing allosteric
regulation via transmission of conformational changes,
these conformational changes are not necessarily
initiated by regulatory ligand binding at the ACT domain
itself. ACT domains are present either singularly, N- or
C-terminal, or in pairs present C-terminal or between
two catalytic domains. Unique to cyanobacteria are four
ACT domains C-terminal to an aspartokinase domain. A few
proteins are composed almost entirely of ACT domain
repeats as seen in the four ACT domain protein, the ACR
protein, found in higher plants; and the two ACT domain
protein, the glycine cleavage system transcriptional
repressor (GcvR) protein, found in some bacteria. Also
seen are single ACT domain proteins similar to the
Streptococcus pneumoniae ACT domain protein
(uncharacterized pdb structure 1ZPV) found in both
bacteria and archaea. Purportedly, the ACT domain is an
evolutionarily mobile ligand binding regulatory module
that has been fused to different enzymes at various
times.
Length = 60
Score = 36.1 bits (84), Expect = 0.001
Identities = 16/74 (21%), Positives = 26/74 (35%), Gaps = 15/74 (20%)
Query: 189 IVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLFYID 248
+ + + PG+L K L+V A IN+T IE R + +I
Sbjct: 1 LTVSGPDRPGLLAKVLSVLAEAGINITSIEQRTSGDG---------------GEADIFIV 45
Query: 249 FEASMADPRAQNAL 262
+ + AL
Sbjct: 46 VDGDGDLEKLLEAL 59
>gnl|CDD|190133 pfam01842, ACT, ACT domain. This family of domains generally have
a regulatory role. ACT domains are linked to a wide
range of metabolic enzymes that are regulated by amino
acid concentration. Pairs of ACT domains bind
specifically to a particular amino acid leading to
regulation of the linked enzyme. The ACT domain is found
in: D-3-phosphoglycerate dehydrogenase EC:1.1.1.95,
which is inhibited by serine. Aspartokinase EC:2.7.2.4,
which is regulated by lysine. Acetolactate synthase
small regulatory subunit, which is inhibited by valine.
Phenylalanine-4-hydroxylase EC:1.14.16.1, which is
regulated by phenylalanine. Prephenate dehydrogenase
EC:4.2.1.51. formyltetrahydrofolate deformylase
EC:3.5.1.10, which is activated by methionine and
inhibited by glycine. GTP pyrophosphokinase EC:2.7.6.5.
Length = 66
Score = 32.7 bits (75), Expect = 0.024
Identities = 10/44 (22%), Positives = 17/44 (38%)
Query: 187 TSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVV 230
T + + + PG+L + A R IN+ I + V
Sbjct: 1 TVLEVGVPDRPGLLAEVFGALADRGINIESISQSTSGDKAGIVF 44
>gnl|CDD|130337 TIGR01270, Trp_5_monoox, tryptophan 5-monooxygenase, tetrameric.
This model describes tryptophan 5-monooxygenase, a
member of the family of tetrameric, biopterin-dependent
aromatic amino acid hydroxylases found in metazoans. It
is closely related to tetrameric
phenylalanine-4-hydroxylase and tyrosine
3-monooxygenase, and more distantly related to the
monomeric phenylalanine-4-hydroxylase found in some
Gram-negative bacteria [Energy metabolism, Amino acids
and amines].
Length = 464
Score = 34.4 bits (79), Expect = 0.056
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 11/61 (18%)
Query: 188 SIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLFYI 247
SI+F+L G L KA+A+F R IN+ +ESR + GT+K D L +
Sbjct: 33 SIIFSLSNVVGDLSKAIAIFQDRHINILHLESRDSKD-----------GTSKTMDVLVDV 81
Query: 248 D 248
+
Sbjct: 82 E 82
>gnl|CDD|241031 cd12587, RRM1_PSF, RNA recognition motif 1 in vertebrate
polypyrimidine tract-binding protein
(PTB)-associated-splicing factor (PSF). This subgroup
corresponds to the RRM1 of PSF, also termed proline- and
glutamine-rich splicing factor, or 100 kDa DNA-pairing
protein (POMp100), or 100 kDa subunit of DNA-binding
p52/p100 complex, a multifunctional protein that
mediates diverse activities in the cell. It is
ubiquitously expressed and highly conserved in
vertebrates. PSF binds not only RNA but also both
single-stranded DNA (ssDNA) and double-stranded DNA
(dsDNA) and facilitates the renaturation of
complementary ssDNAs. Besides, it promotes the formation
of D-loops in superhelical duplex DNA, and is involved
in cell proliferation. PSF can also interact with
multiple factors. It is an RNA-binding component of
spliceosomes and binds to insulin-like growth factor
response element (IGFRE). PSF functions as a
transcriptional repressor interacting with Sin3A and
mediating silencing through the recruitment of histone
deacetylases (HDACs) to the DNA binding domain (DBD) of
nuclear hormone receptors. Additionally, PSF is an
essential pre-mRNA splicing factor and is dissociated
from PTB and binds to U1-70K and serine-arginine (SR)
proteins during apoptosis. PSF forms a heterodimer with
the nuclear protein p54nrb, also known as non-POU
domain-containing octamer-binding protein (NonO). The
PSF/p54nrb complex displays a variety of functions, such
as DNA recombination and RNA synthesis, processing, and
transport. PSF contains two conserved RNA recognition
motifs (RRMs), also termed RBDs (RNA binding domains) or
RNPs (ribonucleoprotein domains), which are responsible
for interactions with RNA and for the localization of
the protein in speckles. It also contains an N-terminal
region rich in proline, glycine, and glutamine residues,
which may play a role in interactions recruiting other
molecules. .
Length = 71
Score = 27.2 bits (60), Expect = 2.5
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 193 LDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRV 229
+++G G F L AL EI +++ P R R LRV
Sbjct: 33 INKGKGFGFIKLESRALAEIAKAELDDTPMRGRQLRV 69
>gnl|CDD|233451 TIGR01531, glyc_debranch, glycogen debranching enzymye. glycogen
debranching enzyme possesses two different catalytic
activities; oligo-1,4-->1,4-glucantransferase (EC
2.4.1.25) and amylo-1,6-glucosidase (EC 3.2.1.33). Site
directed mutagenesis studies in S. cerevisiae indicate
that the transferase and glucosidase activities are
independent and located in different regions of the
polypeptide chain. Proteins in this model belong to the
larger alpha-amylase family. The model covers eukaryotic
proteins with a seed composed of human, nematode and
yeast sequences. Yeast seed sequence is well
characterized. The model is quite rigorous; either query
sequence yields large bit score or it fails to hit the
model altogether. There doesn't appear to be any middle
ground [Energy metabolism, Biosynthesis and degradation
of polysaccharides].
Length = 1464
Score = 28.7 bits (64), Expect = 5.1
Identities = 13/40 (32%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 34 KAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGE 73
++V L A++ + + + GS R YD L+ H +H+V E
Sbjct: 621 RSVYDTLPSAALVSMASCAIGSN-RGYDELVPHHIHVVSE 659
>gnl|CDD|235346 PRK05111, PRK05111, acetylornithine deacetylase; Provisional.
Length = 383
Score = 27.5 bits (62), Expect = 8.1
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 20/58 (34%)
Query: 201 FKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAKYFDYLFYIDFEASMADPRA 258
F A + ALR+I+LTK+ K+PL ++ TA D E SMA RA
Sbjct: 115 FFAFILEALRDIDLTKL------KKPLYIL-----ATA---------DEETSMAGARA 152
>gnl|CDD|213754 TIGR02971, heterocyst_DevB, ABC exporter membrane fusion protein,
DevB family. Members of this protein family are found
mostly in the Cyanobacteria, but also in the
Planctomycetes. DevB from Anabaena sp. strain PCC 7120
is partially characterized as a membrane fusion protein
of the DevBCA ABC exporter, probably a glycolipid
exporter, required for heterocyst formation. Most
Cyanobacteria have one member only, but Nostoc sp. PCC
7120 has seven members.
Length = 327
Score = 27.5 bits (61), Expect = 9.1
Identities = 28/112 (25%), Positives = 47/112 (41%), Gaps = 4/112 (3%)
Query: 88 IKADQLKRVL-SHPQALASSDIVLTQLGVARENVDDTASAA---QYVASNGLRDAGAVAS 143
++A Q+ L S P+ A D+ TQL A+ + + A + A R A +
Sbjct: 38 VQAGQVLAELDSRPERTAELDVARTQLDEAKARLAQVRAGAKKGEIAAQRAARAAAKLFK 97
Query: 144 ARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDE 195
AA+ LN L ++ + R+ L RD + +D K + T +E
Sbjct: 98 DVAAQQATLNRLEAELETAQREVDRYRSLFRDGAVSASDLDSKALKLRTAEE 149
>gnl|CDD|185291 PRK15393, PRK15393, NUDIX hydrolase YfcD; Provisional.
Length = 180
Score = 27.1 bits (60), Expect = 9.6
Identities = 11/20 (55%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 23 TVPCDEF-EDTFKAVELWLA 41
T CDEF D+ KA+ LWL
Sbjct: 147 TARCDEFTPDSLKALALWLT 166
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
0.321 0.137 0.395
Gapped
Lambda K H
0.267 0.0874 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,739,562
Number of extensions: 1454216
Number of successful extensions: 1176
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1156
Number of HSP's successfully gapped: 36
Length of query: 284
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 188
Effective length of database: 6,679,618
Effective search space: 1255768184
Effective search space used: 1255768184
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (25.9 bits)