RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 048784
(282 letters)
>gnl|CDD|215181 PLN02317, PLN02317, arogenate dehydratase.
Length = 382
Score = 572 bits (1476), Expect = 0.0
Identities = 230/282 (81%), Positives = 249/282 (88%), Gaps = 1/282 (0%)
Query: 1 GVRGAYSESAAEKAYPNCEAVPCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRNYDLL 60
GV GAYSE+AA KAYPNCEAVPCEQF+ AF+AVE WL DRAVLPIENSLGGSIHRNYDLL
Sbjct: 101 GVPGAYSEAAARKAYPNCEAVPCEQFEAAFQAVELWLADRAVLPIENSLGGSIHRNYDLL 160
Query: 61 LRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVREAVDDT 120
LRHRLHIVGEV+ V HCLLA PGV+ E+LKRV+SHPQALAQCENTLTKLG+VREAVDDT
Sbjct: 161 LRHRLHIVGEVQLPVHHCLLALPGVRKEELKRVISHPQALAQCENTLTKLGVVREAVDDT 220
Query: 121 AGAAKYVSFEQLKDAGAVASSSAAAIYGLNILAEDIQDDCDNVTRFLMLAREPIIPGTDR 180
AGAAK V+ L+D A+AS+ AA +YGL+ILAE IQDD DNVTRFLMLAREPIIP TDR
Sbjct: 221 AGAAKMVAANGLRDTAAIASARAAELYGLDILAEGIQDDSDNVTRFLMLAREPIIPRTDR 280
Query: 181 PFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDD-NSGFGKYFDY 239
PFKTSIVFSLEEGPGVLFKALAVFALR INLTKIESRP R +PLR DD NSG KYFDY
Sbjct: 281 PFKTSIVFSLEEGPGVLFKALAVFALRDINLTKIESRPQRKRPLRVVDDSNSGTAKYFDY 340
Query: 240 LFYVDFEASMADQKAQNALRHLKEFATFLRVLGSYPIDTTIV 281
LFYVDFEASMAD +AQNAL HL+EFATFLRVLGSYP+D T +
Sbjct: 341 LFYVDFEASMADPRAQNALAHLQEFATFLRVLGSYPMDMTPL 382
>gnl|CDD|223155 COG0077, PheA, Prephenate dehydratase [Amino acid transport and
metabolism].
Length = 279
Score = 297 bits (762), Expect = e-101
Identities = 124/278 (44%), Positives = 164/278 (58%), Gaps = 16/278 (5%)
Query: 1 GVRGAYSESAAEKAYP-NCEAVPCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRNYDL 59
G G +SE AA K + E +PC + F+AVE D V+PIENS+ GS++ DL
Sbjct: 9 GPEGTFSEQAARKLFGSGAELLPCSTIEDVFKAVENGEADYGVVPIENSIEGSVNETLDL 68
Query: 60 LLRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKL--GLVREAV 117
L L IVGE+ + HCLL GV +E++K V SHPQALAQC L G+ E
Sbjct: 69 LAETDLQIVGEIVLPIHHCLLVKGGVDLEEIKTVYSHPQALAQCRKFLRAHLPGVEIEYT 128
Query: 118 DDTAGAAKYVSFEQLKDAGAVASSSAAAIYGLNILAEDIQDDCDNVTRFLMLAREPIIPG 177
TA AAK V+ + A+AS AA +YGL+ILAE+I+D+ +N TRFL+L+R
Sbjct: 129 SSTAEAAKLVAEGPDETVAAIASELAAELYGLDILAENIEDEPNNRTRFLVLSRRKPPSV 188
Query: 178 TDRPFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYF 237
+D P KTS++FS+ PG L+KAL VFA R INLTKIESRPL+
Sbjct: 189 SDGPEKTSLIFSVPNKPGALYKALGVFAKRGINLTKIESRPLKTGL-------------G 235
Query: 238 DYLFYVDFEASMADQKAQNALRHLKEFATFLRVLGSYP 275
+YLF++D E + D + AL LKE F+++LGSYP
Sbjct: 236 EYLFFIDIEGHIDDPLVKEALEELKEITEFVKILGSYP 273
>gnl|CDD|237014 PRK11899, PRK11899, prephenate dehydratase; Provisional.
Length = 279
Score = 249 bits (639), Expect = 8e-83
Identities = 115/281 (40%), Positives = 151/281 (53%), Gaps = 24/281 (8%)
Query: 1 GVRGAYSESAAEKAYPNCEAVPCEQFDTAFEAVERWLVDRAVLPIENSLGG---SIHRNY 57
G GA S A A+P+ E +PC F+ AFEAVE D A++PIENSL G IH
Sbjct: 11 GEPGANSHLACRDAFPDMEPLPCATFEDAFEAVESGEADLAMIPIENSLAGRVADIHH-- 68
Query: 58 DLLLRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVREAV 117
LL LHIVGE +RH L+A PG +E++K V SHP AL QC + LGL
Sbjct: 69 -LLPESGLHIVGEYFLPIRHQLMALPGATLEEIKTVHSHPHALGQCRKIIRALGLKPVVA 127
Query: 118 DDTAGAAKYVSFEQLKDAG--AVASSSAAAIYGLNILAEDIQDDCDNVTRFLMLAREPII 175
DTAGAA+ V+ + D A+AS AA +YGL+ILAE+I+D N TRF++L+RE
Sbjct: 128 ADTAGAARLVA--ERGDPSMAALASRLAAELYGLDILAENIEDADHNTTRFVVLSREADW 185
Query: 176 PGTDR-PFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFG 234
P T+ VF + P L+KAL FA +N+TK+ES + G
Sbjct: 186 AARGDGPIVTTFVFRVRNIPAALYKALGGFATNGVNMTKLESYMVG-------------G 232
Query: 235 KYFDYLFYVDFEASMADQKAQNALRHLKEFATFLRVLGSYP 275
+ FY D E D+ AL L+ F+ +R+LG YP
Sbjct: 233 SFTATQFYADIEGHPEDRNVALALEELRFFSEEVRILGVYP 273
>gnl|CDD|237013 PRK11898, PRK11898, prephenate dehydratase; Provisional.
Length = 283
Score = 246 bits (630), Expect = 3e-81
Identities = 115/284 (40%), Positives = 156/284 (54%), Gaps = 22/284 (7%)
Query: 1 GVRGAYSESAAEKAYPNCEAVPCEQFDT---AFEAVERWLVDRAVLPIENSLGGSIHRNY 57
G G ++E+AA K +P +D+ +AVE VD AV+PIENS+ GS++
Sbjct: 8 GPEGTFTEAAALKFFPADGEAELVPYDSIPDVLDAVEAGEVDYAVVPIENSIEGSVNPTL 67
Query: 58 DLLLRH-RLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTK-LGLVR- 114
D L L IV E+ + LL +PG ++ V SHPQALAQC L + L
Sbjct: 68 DYLAHGSPLQIVAEIVLPIAQHLLVHPGHA-AKIRTVYSHPQALAQCRKWLAEHLPGAEL 126
Query: 115 EAVDDTAGAAKYVSFEQLKDAGAVASSSAAAIYGLNILAEDIQDDCDNVTRFLMLARE-P 173
E + TA AA+YV+ + A+AS AA +YGL ILAEDIQD +N TRF +L R+ P
Sbjct: 127 EPANSTAAAAQYVAEHPDEPIAAIASELAAELYGLEILAEDIQDYPNNRTRFWLLGRKKP 186
Query: 174 IIPGTDRPFKTSIVFSL-EEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSG 232
P KTS+V +L PG L+KAL+ FA R INLT+IESRP + +G
Sbjct: 187 PPPLRTGGDKTSLVLTLPNNLPGALYKALSEFAWRGINLTRIESRPTK----------TG 236
Query: 233 FGKYFDYLFYVDFEASMADQKAQNALRHLKEFATFLRVLGSYPI 276
G YF F++D E + D AL+ L+ ++VLGSYP+
Sbjct: 237 LGTYF---FFIDVEGHIDDVLVAEALKELEALGEDVKVLGSYPV 277
>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 = 231 bits (591), Expect = 6e-77
Identities = 92/177 (51%), Positives = 112/177 (63%), Gaps = 3/177 (1%)
Query: 1 GVRGAYSESAAEKAYP-NCEAVPCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRNYDL 59
G G +SE AA K + + E VPC + FEAVE D AV+PIENS+ GS++ DL
Sbjct: 5 GPEGTFSEQAALKLFGQSVELVPCPSIEDVFEAVENGEADYAVVPIENSIEGSVNETLDL 64
Query: 60 LLRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKL--GLVREAV 117
LL L IVGEV + HCLLA PG +ED+K V SHPQALAQC L K G R V
Sbjct: 65 LLESDLKIVGEVVLPIHHCLLARPGTDLEDIKTVYSHPQALAQCREFLEKHLPGAERVPV 124
Query: 118 DDTAGAAKYVSFEQLKDAGAVASSSAAAIYGLNILAEDIQDDCDNVTRFLMLAREPI 174
TA AAK V+ E K A A+AS AA +YGL ILAE+I+D+ +N TRFL+L +EP
Sbjct: 125 SSTAAAAKIVAAEGDKGAAAIASELAAELYGLKILAENIEDNKNNTTRFLVLGKEPT 181
>gnl|CDD|182594 PRK10622, pheA, bifunctional chorismate mutase/prephenate
dehydratase; Provisional.
Length = 386
Score = 163 bits (414), Expect = 7e-48
Identities = 93/287 (32%), Positives = 146/287 (50%), Gaps = 19/287 (6%)
Query: 1 GVRGAYSESAAE----KAYPNCEAVPCEQFDTAFEAVERWLVDRAVLPIENSLGGSIHRN 56
G +G+YS AA + + C +F F VE D AVLPIEN+ G+I+
Sbjct: 110 GPKGSYSHLAARQYAARHFEQFIESGCAKFADIFNQVETGQADYAVLPIENTSSGAINDV 169
Query: 57 YDLLLRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVR-E 115
YDLL L IVGE+ + HC+L + + ++ V SHPQ QC L + + E
Sbjct: 170 YDLLQHTSLSIVGEMTLPIDHCVLVSGTTDLSTIETVYSHPQPFQQCSQFLNRYPHWKIE 229
Query: 116 AVDDTAGAAKYVSFEQLKDAGAVASSSAAAIYGLNILAEDIQDDCDNVTRFLMLAREPII 175
+ TA A + V+ A+ S + A+YGL +L ++ + N+TRF++LAR+ I
Sbjct: 230 YTESTAAAMEKVAQANSPHVAALGSEAGGALYGLQVLERNLANQQQNITRFIVLARKAIN 289
Query: 176 PGTDRPFKTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGK 235
P KT+++ + + G L +AL V + +TK+ESRP+ P
Sbjct: 290 VSDQVPAKTTLLMATGQQAGALVEALLVLRNHNLIMTKLESRPIHGNP------------ 337
Query: 236 YFDYLFYVDFEASMADQKAQNALRHLKEFATFLRVLGSYPIDTTIVP 282
++ +FY+D +A++ + Q AL+ L E L+VLG YP + +VP
Sbjct: 338 -WEEMFYLDVQANLRSAEMQKALKELGEITRSLKVLGCYPSE-NVVP 382
>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 = 1e-34
Identities = 42/93 (45%), Positives = 53/93 (56%), Gaps = 13/93 (13%)
Query: 183 KTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFY 242
KTSIVF+L PG L+ L VFA R INLTKIESRP + ++Y+F+
Sbjct: 1 KTSIVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGL-------------WEYVFF 47
Query: 243 VDFEASMADQKAQNALRHLKEFATFLRVLGSYP 275
+DFE + D AL LK F++VLGSYP
Sbjct: 48 IDFEGHIEDPNVAEALEELKRLTEFVKVLGSYP 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 = 40/88 (45%), Positives = 49/88 (55%), Gaps = 13/88 (14%)
Query: 185 SIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFYVD 244
S+VFSL+ PG L KAL VFA R INLTKIESRP R ++Y F+VD
Sbjct: 1 SLVFSLKNKPGALAKALKVFAERGINLTKIESRPSRKGL-------------WEYEFFVD 47
Query: 245 FEASMADQKAQNALRHLKEFATFLRVLG 272
FE + D + AL LK ++VLG
Sbjct: 48 FEGHIDDPDVKEALEELKRVTEDVKVLG 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 = 52.9 bits (128), Expect = 2e-09
Identities = 28/80 (35%), Positives = 39/80 (48%), Gaps = 15/80 (18%)
Query: 184 TSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFYV 243
TS++FSL+E G L +AL +F +NLT IESRP R R+ +Y F+V
Sbjct: 1 TSLIFSLKEEVGALARALKLFEEFGVNLTHIESRPSR----RNGS---------EYEFFV 47
Query: 244 DFEASMADQKAQNALRHLKE 263
D E D + L+
Sbjct: 48 DCEVDRGDLD--QLISSLRR 65
>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 = 51.0 bits (122), Expect = 3e-07
Identities = 31/102 (30%), Positives = 49/102 (48%), Gaps = 16/102 (15%)
Query: 183 KTSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFY 242
KTS++FSL+E G L + L +F +NLT IESRP + P +Y F+
Sbjct: 16 KTSLIFSLKEEAGALAETLKLFQAHDVNLTHIESRPSKTHP-------------GEYEFF 62
Query: 243 VDFEASMADQKAQNALRHLKE--FATFLRVLGSYPIDTTIVP 282
V+F +D+K + + HL++ T + + VP
Sbjct: 63 VEF-DEASDRKLEGVIEHLRQKAEVTVNILSRDNKQNKDSVP 103
>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 = 25/76 (32%), Positives = 41/76 (53%), Gaps = 11/76 (14%)
Query: 185 SIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFYVD 244
S++FSL+E G L K L +F + INLT IESRP R + D+ +++ +D
Sbjct: 16 SLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSR----LNKDE-------YEFFINLD 64
Query: 245 FEASMADQKAQNALRH 260
+++ A +LR+
Sbjct: 65 KKSAPALDPIIKSLRN 80
>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 = 39.6 bits (93), Expect = 6e-05
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 14/74 (18%)
Query: 186 IVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFYVDF 245
+ S + PG+L K L+V A IN+T IE R G + ++
Sbjct: 1 LTVSGPDRPGLLAKVLSVLAEAGINITSIEQRTS--------------GDGGEADIFIVV 46
Query: 246 EASMADQKAQNALR 259
+ +K AL
Sbjct: 47 DGDGDLEKLLEALE 60
>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 = 23/63 (36%), Positives = 32/63 (50%), Gaps = 13/63 (20%)
Query: 184 TSIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSDDNSGFGKYFDYLFYV 243
TS++FSL+ G L KAL +F IN+ IESR + RSS ++ +V
Sbjct: 1 TSVIFSLKNEVGGLAKALKLFQELGINVVHIESRKSK---RRSS----------EFEIFV 47
Query: 244 DFE 246
D E
Sbjct: 48 DCE 50
>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 = 39.3 bits (92), Expect = 3e-04
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 7/69 (10%)
Query: 152 LAEDIQDDCDNVTRFLMLAREPIIPGTDRPFKTSIVFSLEEGPGVLFKALAVFALRQINL 211
L ED +DD D+ + E G P K +++FSL+EG L + L VF + +
Sbjct: 17 LTEDAEDDLDSE-----VFEEK--EGKAVPQKATLLFSLKEGFSSLSRILKVFETFEAKI 69
Query: 212 TKIESRPLR 220
+ESRP R
Sbjct: 70 HHLESRPSR 78
>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 = 36.2 bits (84), Expect = 0.001
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 184 TSIVFSLEEGPGVLFKALAVFALRQINLTKIESRP 218
T + + + PG+L + A R IN+ I
Sbjct: 1 TVLEVGVPDRPGLLAEVFGALADRGINIESISQST 35
>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 = 34.1 bits (78), Expect = 0.081
Identities = 18/44 (40%), Positives = 27/44 (61%)
Query: 185 SIVFSLEEGPGVLFKALAVFALRQINLTKIESRPLRNQPLRSSD 228
SI+FSL G L KA+A+F R IN+ +ESR ++ ++ D
Sbjct: 33 SIIFSLSNVVGDLSKAIAIFQDRHINILHLESRDSKDGTSKTMD 76
>gnl|CDD|223394 COG0317, SpoT, Guanosine polyphosphate
pyrophosphohydrolases/synthetases [Signal transduction
mechanisms / Transcription].
Length = 701
Score = 32.2 bits (74), Expect = 0.32
Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 5/71 (7%)
Query: 159 DCDNVTRFLMLAREPIIP-----GTDRPFKTSIVFSLEEGPGVLFKALAVFALRQINLTK 213
DC N + A E +I + + I + G+L V A +IN+
Sbjct: 598 DCPNFLQLAGHAPERVIDVSWGPEYGQVYPVDIEIRAYDRSGLLRDVSQVLANEKINVLG 657
Query: 214 IESRPLRNQPL 224
+ +R ++Q
Sbjct: 658 VNTRSDKDQFA 668
>gnl|CDD|234450 TIGR04056, OMP_RagA_SusC, TonB-linked outer membrane protein,
SusC/RagA family. This model describes a distinctive
clade among the TonB-linked outer membrane proteins
(OMP). Members of this family are restricted to the
Bacteriodetes lineage (except for Gemmatimonas
aurantiaca T-27 from the novel phylum Gemmatimonadetes)
and occur in high copy numbers, with over 100 members
from Bacteroides thetaiotaomicron VPI-5482 alone.
Published descriptions of members of this family are
available for RagA from Porphyromonas gingivalis, SusC
from Bacteroides thetaiotaomicron, and OmpW from
Bacteroides caccae. Members form pairs with members of
the SusD/RagB family (pfam07980). Transporter complexes
including these outer membrane proteins are likely to
import large degradation products of proteins (e.g.
RagA) or carbohydrates (e.g. SusC) as nutrients, rather
than siderophores [Transport and binding proteins,
Unknown substrate].
Length = 982
Score = 30.6 bits (70), Expect = 1.2
Identities = 11/21 (52%), Positives = 11/21 (52%), Gaps = 6/21 (28%)
Query: 128 SFEQLKDAGAVASSSAAAIYG 148
S LKDA SA AIYG
Sbjct: 177 SISVLKDA------SATAIYG 191
>gnl|CDD|211404 cd11550, Serine_rich_NEDD9, Serine rich Four helix bundle domain of
CAS (Crk-Associated Substrate) scaffolding protein,
Neural precursor cell Expressed, Developmentally
Down-regulated 9; a protein interaction module. NEDD9
is also called human enhancer of filamentation 1 (HEF1)
or CAS-L (Crk-associated substrate in lymphocyte). It
was first described as a gene predominantly expressed in
early embryonic brain, and was also isolated from a
screen of human proteins that regulate filamentous
budding in yeast, and as a tyrosine phosphorylated
protein in lymphocytes. It promotes metastasis in
different solid tumors. NEDD9 localizes in focal
adhesions and associates with FAK and Abl kinase. It
also interacts with SMAD3 and the proteasomal machinery
which allows its rapid turnover; these interactions are
not shared by other CAS proteins. CAS proteins function
as molecular scaffolds to regulate protein complexes
that are involved in many cellular processes. They share
a common domain structure containing protein interaction
modules that enable their scaffolding function,
including an N-terminal SH3 domain, an unstructured
substrate domain that contains many YxxP motifs, a
serine-rich four-helix bundle, and a FAT-like C-terminal
domain. CAS proteins associate with the 14-3-3 family;
this interaction is regulated by integrin-mediated cell
adhesion. The serine rich four helix bundle domain of
BCAR1, another CAS protein, has been shown to bind
14-3-3 in a phosphorylation-dependent manner. This
domain is structurally similar to other helical bundles
found in cell adhesion components such as alpha-catenin,
vinculin, and FAK, and may bind other proteins in
addition to the 14-3-3 family.
Length = 162
Score = 28.7 bits (64), Expect = 2.2
Identities = 17/54 (31%), Positives = 31/54 (57%), Gaps = 7/54 (12%)
Query: 147 YGLNILAED-IQDDCDNVTRFLMLAREPIIPGTDRPFKTSIVFSLEEGPGVLFK 199
+ LNILA + + CD++ RF+M+A+ +P + T+I + E +LF+
Sbjct: 111 WSLNILAANGHHNKCDDLDRFVMVAK--TVPDDAKQLTTTIGSNAE----LLFR 158
>gnl|CDD|130765 TIGR01704, MTA/SAH-Nsdase,
5'-methylthioadenosine/S-adenosylhomocysteine
nucleosidase. This model represents the enzyme
5-methylthioadenosine/S-adenosylhomocysteine
nucleosidase which acts on its two substrates at the
same active site. This enzyme is involved in the
recycling of the components of S-adenosylmethionine
after it has donated one of its two non-ribose sulfur
ligands to an acceptor. In the case of
5-methylthioadenosine this represents the first step of
the methionine salvage pathway in bacteria. This enzyme
is widely distributed in bacteria, especially those that
lack adenosylhomocysteinase (EC 3.3.1.1). One clade of
bacteria including Agrobacterium, Mesorhizobium,
Sinorhizobium and Brucella includes sequences annotated
as MTA/SAH nucleotidase, but differs significantly in
homology and has no independent experimental evidence.
There are homologs of this enzyme in plants, some of
which score between trusted and noise cutoffs here, but
there is no experimental evidence to validate this
function at this time [Central intermediary metabolism,
Other, Purines, pyrimidines, nucleosides, and
nucleotides, Salvage of nucleosides and nucleotides].
Length = 228
Score = 28.5 bits (63), Expect = 3.2
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 2/57 (3%)
Query: 86 KVEDLKRVLSHPQALAQ-CENTLTKLGLVREAVDDTAGAAKYVSFEQLKDAGAVASS 141
V A+A C N +VR A+ D A ++SF++ A SS
Sbjct: 163 NFPQAIAVEMEATAIAHVCHNFNVPFVVVR-AISDVADQQSHLSFDEFLAVAAKQSS 218
>gnl|CDD|233563 TIGR01766, tspaseT_teng_C, transposase, IS605 OrfB family,
central region. This model represents a region of a
sequence similarity between a family of putative
transposases of Thermoanaerobacter tengcongensis,
smaller related proteins from Bacillus anthracis,
putative transposes described by Pfam model pfam01385,
and other proteins [Mobile and extrachromosomal element
functions, Transposon functions].
Length = 82
Score = 26.9 bits (60), Expect = 3.5
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 71 VKFAVRHCLLANPGVKVEDLKRV 93
VK V + N + +EDLK +
Sbjct: 13 VKQIVEYAKENNGTIVLEDLKNI 35
>gnl|CDD|114493 pfam05770, Ins134_P3_kin, Inositol 1, 3, 4-trisphosphate
5/6-kinase. This family consists of several inositol 1,
3, 4-trisphosphate 5/6-kinase proteins. Inositol
1,3,4-trisphosphate is at a branch point in inositol
phosphate metabolism. It is dephosphorylated by specific
phosphatases to either inositol 3,4-bisphosphate or
inositol 1,3-bisphosphate. Alternatively, it is
phosphorylated to inositol 1,3,4,6-tetrakisphosphate or
inositol 1,3,4,5-tetrakisphosphate by inositol
trisphosphate 5/6-kinase.
Length = 307
Score = 28.6 bits (64), Expect = 3.5
Identities = 48/200 (24%), Positives = 76/200 (38%), Gaps = 58/200 (29%)
Query: 53 IHRNYDLLLRHRLHIVGEVKFAVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGL 112
IH+ D RHRL E A+P V V D P A+ + N + L +
Sbjct: 57 IHKLTDKEWRHRLEEFRE----------AHPEVPVLDP------PPAIRRLHNRQSMLQV 100
Query: 113 VRE----AVDDTAGAAKYVSFEQLKDAGAVASSSAAAIYGLNILAEDIQDDCDNVTRFLM 168
V + D G V +KDA +++ + A A GL F +
Sbjct: 101 VADLNLSMEDGRFGVPPQV--VVMKDASSLSRAGAKA--GL---------------TFPL 141
Query: 169 LAREPIIPGTDRPFKTSIVFSLE-----EGP----------GVLFKALAVFALRQINLTK 213
+A+ + GT + + S+V+ E + P GVLFK V ++T
Sbjct: 142 IAKPLVADGTAKSHEMSLVYDQEGLNKLQPPLVLQEFVNHGGVLFKVYVVGE----HVTV 197
Query: 214 IESRPLRNQPLRSSDDNSGF 233
++ R L + + D +SG
Sbjct: 198 VKRRSLPDVSAGTLDRSSGS 217
>gnl|CDD|237393 PRK13477, PRK13477, bifunctional pantoate ligase/cytidylate kinase;
Provisional.
Length = 512
Score = 27.9 bits (63), Expect = 7.1
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 74 AVRHCLLANPGVKVEDLKRVLSHPQALAQCENTLTKLGLVREAV 117
AV+ LL+ PG++VE L+ V PQ L E +GL+ AV
Sbjct: 227 AVQEELLSEPGLEVEYLELV--DPQTLQPLEQI-ENIGLLAIAV 267
>gnl|CDD|235017 PRK02255, PRK02255, putrescine carbamoyltransferase; Provisional.
Length = 338
Score = 27.3 bits (61), Expect = 8.8
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 71 VKFAVRHCLLANPGVKVEDLKRVLSHPQALA--QCENTLT 108
KF HCL A G +V D V+ P+++ + EN LT
Sbjct: 266 AKFM--HCLPATRGEEVTD--EVMDSPRSICFDEAENRLT 301
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 0.397
Gapped
Lambda K H
0.267 0.0654 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,636,482
Number of extensions: 1442136
Number of successful extensions: 1180
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1159
Number of HSP's successfully gapped: 28
Length of query: 282
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 186
Effective length of database: 6,679,618
Effective search space: 1242408948
Effective search space used: 1242408948
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: 58 (26.3 bits)