RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 014547
(423 letters)
>gnl|CDD|215181 PLN02317, PLN02317, arogenate dehydratase.
Length = 382
Score = 669 bits (1729), Expect = 0.0
Identities = 272/393 (69%), Positives = 309/393 (78%), Gaps = 14/393 (3%)
Query: 25 RVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSSNVVSQQQSGDKPAEHIAAVNGHKTSID 84
RS S FP R WQSSCAILSS V S + + + G +
Sbjct: 4 LPPRTPRSGSSSFPARWASRRAAWQSSCAILSSKVRSPEGDAPPSRPAVESSGGAGLVVA 63
Query: 85 LNLVPIEHANSAAATASNNKPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAA 144
V + LP +PL+ITDLSP+PMHGS+LRVAYQGVPGAYSEAAA
Sbjct: 64 TQSVSFH----------RDLSGLP--RPLSITDLSPSPMHGSKLRVAYQGVPGAYSEAAA 111
Query: 145 GKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEV 204
KAYPNCEA+PC+QFE AFQAVELW+ADRAVLP+ENSLGGSIHRNYDLLLRHRLHIVGEV
Sbjct: 112 RKAYPNCEAVPCEQFEAAFQAVELWLADRAVLPIENSLGGSIHRNYDLLLRHRLHIVGEV 171
Query: 205 QLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAA 264
QLPVHHCLLALPGVRKE L RVISHPQAL+QCE+TLTKLG V REAVDDTAGAA+ +AA
Sbjct: 172 QLPVHHCLLALPGVRKEELKRVISHPQALAQCENTLTKLG--VVREAVDDTAGAAKMVAA 229
Query: 265 NDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFA 324
N LRDTAAIASARAAELYG+ +L +GIQDDS NVTRF+MLAREPIIPRTDRPFKTSIVF+
Sbjct: 230 NGLRDTAAIASARAAELYGLDILAEGIQDDSDNVTRFLMLAREPIIPRTDRPFKTSIVFS 289
Query: 325 HDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEAS 384
++G VLFK L+ FA R+I+LTKIESRP R RP+R+VDD+N GTAK+F+Y+FY+DFEAS
Sbjct: 290 LEEGPGVLFKALAVFALRDINLTKIESRPQRKRPLRVVDDSNSGTAKYFDYLFYVDFEAS 349
Query: 385 MAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPW 417
MA+ RAQNALA +QEF +FLRVLGSYPMDMTP
Sbjct: 350 MADPRAQNALAHLQEFATFLRVLGSYPMDMTPL 382
>gnl|CDD|223155 COG0077, PheA, Prephenate dehydratase [Amino acid transport and
metabolism].
Length = 279
Score = 298 bits (765), Expect = 1e-99
Identities = 120/289 (41%), Positives = 165/289 (57%), Gaps = 19/289 (6%)
Query: 126 SQLRVAYQGVPGAYSEAAAGKAYP-NCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGG 184
+++AY G G +SE AA K + E +PC E F+AVE AD V+P+ENS+ G
Sbjct: 1 KTMKIAYLGPEGTFSEQAARKLFGSGAELLPCSTIEDVFKAVENGEADYGVVPIENSIEG 60
Query: 185 SIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLG 244
S++ DLL L IVGE+ LP+HHCLL GV E + V SHPQAL+QC L
Sbjct: 61 SVNETLDLLAETDLQIVGEIVLPIHHCLLVKGGVDLEEIKTVYSHPQALAQCRKFLRAHL 120
Query: 245 LNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVML 304
V E TA AA+ +A AAIAS AAELYG+ +L + I+D+ +N TRF++L
Sbjct: 121 PGVEIEYTSSTAEAAKLVAEGPDETVAAIASELAAELYGLDILAENIEDEPNNRTRFLVL 180
Query: 305 AREPIIPRTDRPFKTSIVFA--HDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLV 362
+R +D P KTS++F+ + G L+K L FA R I+LTKIESRP +
Sbjct: 181 SRRKPPSVSDGPEKTSLIFSVPNKPGA--LYKALGVFAKRGINLTKIESRPLKTGL---- 234
Query: 363 DDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYP 411
EY+F+ID E + + + AL E++E T F+++LGSYP
Sbjct: 235 ----------GEYLFFIDIEGHIDDPLVKEALEELKEITEFVKILGSYP 273
>gnl|CDD|237014 PRK11899, PRK11899, prephenate dehydratase; Provisional.
Length = 279
Score = 249 bits (638), Expect = 1e-80
Identities = 122/298 (40%), Positives = 158/298 (53%), Gaps = 28/298 (9%)
Query: 129 RVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGG---S 185
R+A+QG PGA S A A+P+ E +PC FE AF+AVE AD A++P+ENSL G
Sbjct: 6 RIAFQGEPGANSHLACRDAFPDMEPLPCATFEDAFEAVESGEADLAMIPIENSLAGRVAD 65
Query: 186 IHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGL 245
IH LL LHIVGE LP+ H L+ALPG E + V SHP AL QC + LGL
Sbjct: 66 IHH---LLPESGLHIVGEYFLPIRHQLMALPGATLEEIKTVHSHPHALGQCRKIIRALGL 122
Query: 246 NVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLA 305
A DTAGAA +A AA+AS AAELYG+ +L + I+D N TRFV+L+
Sbjct: 123 KPVVAA--DTAGAARLVAERGDPSMAALASRLAAELYGLDILAENIEDADHNTTRFVVLS 180
Query: 306 REP-IIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDD 364
RE R D P T+ VF + L+K L FA +++TK+ES +V
Sbjct: 181 READWAARGDGPIVTTFVFRVRNIPAALYKALGGFATNGVNMTKLES--------YMVGG 232
Query: 365 ANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPWSPSRG 422
+ T FY D E + AL E++ F+ +R+LG YP P RG
Sbjct: 233 SFTAT------QFYADIEGHPEDRNVALALEELRFFSEEVRILGVYPAH-----PFRG 279
>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 = 244 bits (625), Expect = 4e-80
Identities = 88/181 (48%), Positives = 115/181 (63%), Gaps = 1/181 (0%)
Query: 130 VAYQGVPGAYSEAAAGKAYP-NCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHR 188
+AY G G +SE AA K + + E +PC E F+AVE AD AV+P+ENS+ GS++
Sbjct: 1 IAYLGPEGTFSEQAALKLFGQSVELVPCPSIEDVFEAVENGEADYAVVPIENSIEGSVNE 60
Query: 189 NYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVA 248
DLLL L IVGEV LP+HHCLLA PG E + V SHPQAL+QC L K
Sbjct: 61 TLDLLLESDLKIVGEVVLPIHHCLLARPGTDLEDIKTVYSHPQALAQCREFLEKHLPGAE 120
Query: 249 REAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREP 308
R V TA AA+ +AA + AAIAS AAELYG+++L + I+D+ +N TRF++L +EP
Sbjct: 121 RVPVSSTAAAAKIVAAEGDKGAAAIASELAAELYGLKILAENIEDNKNNTTRFLVLGKEP 180
Query: 309 I 309
Sbjct: 181 T 181
>gnl|CDD|237013 PRK11898, PRK11898, prephenate dehydratase; Provisional.
Length = 283
Score = 238 bits (610), Expect = 3e-76
Identities = 112/290 (38%), Positives = 155/290 (53%), Gaps = 21/290 (7%)
Query: 128 LRVAYQGVPGAYSEAAAGKAYPNCEA---IPCDQFEVAFQAVELWIADRAVLPVENSLGG 184
+++AY G G ++EAAA K +P +P D AVE D AV+P+ENS+ G
Sbjct: 2 MKIAYLGPEGTFTEAAALKFFPADGEAELVPYDSIPDVLDAVEAGEVDYAVVPIENSIEG 61
Query: 185 SIHRNYDLLLRH-RLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKL 243
S++ D L L IV E+ LP+ LL PG + + V SHPQAL+QC L +
Sbjct: 62 SVNPTLDYLAHGSPLQIVAEIVLPIAQHLLVHPGHAAK-IRTVYSHPQALAQCRKWLAEH 120
Query: 244 GLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVM 303
E + TA AA+Y+A + AAIAS AAELYG+++L + IQD +N TRF +
Sbjct: 121 LPGAELEPANSTAAAAQYVAEHPDEPIAAIASELAAELYGLEILAEDIQDYPNNRTRFWL 180
Query: 304 LARE-PIIPRTDRPFKTSIVFAHDKGTS-VLFKVLSAFAFRNISLTKIESRPHRNRPIRL 361
L R+ P P KTS+V L+K LS FA+R I+LT+IESRP +
Sbjct: 181 LGRKKPPPPLRTGGDKTSLVLTLPNNLPGALYKALSEFAWRGINLTRIESRPTKTG---- 236
Query: 362 VDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYP 411
+GT Y F+ID E + +V AL E++ ++VLGSYP
Sbjct: 237 -----LGT-----YFFFIDVEGHIDDVLVAEALKELEALGEDVKVLGSYP 276
>gnl|CDD|182594 PRK10622, pheA, bifunctional chorismate mutase/prephenate
dehydratase; Provisional.
Length = 386
Score = 177 bits (452), Expect = 9e-52
Identities = 107/316 (33%), Positives = 155/316 (49%), Gaps = 22/316 (6%)
Query: 110 QKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAA----GKAYPNCEAIPCDQFEVAFQA 165
Q+ L L+ H + R+A+ G G+YS AA + + C +F F
Sbjct: 88 QQALLQQHLNKTNPHSA--RIAFLGPKGSYSHLAARQYAARHFEQFIESGCAKFADIFNQ 145
Query: 166 VELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTR 225
VE AD AVLP+EN+ G+I+ YDLL L IVGE+ LP+ HC+L +
Sbjct: 146 VETGQADYAVLPIENTSSGAINDVYDLLQHTSLSIVGEMTLPIDHCVLVSGTTDLSTIET 205
Query: 226 VISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQ 285
V SHPQ QC L + + E + TA A E +A + AA+ S LYG+Q
Sbjct: 206 VYSHPQPFQQCSQFLNRYP-HWKIEYTESTAAAMEKVAQANSPHVAALGSEAGGALYGLQ 264
Query: 286 VLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNIS 345
VLE + + N+TRF++LAR+ I P KT+++ A + L + L N+
Sbjct: 265 VLERNLANQQQNITRFIVLARKAINVSDQVPAKTTLLMATGQQAGALVEALLVLRNHNLI 324
Query: 346 LTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLR 405
+TK+ESRP P +E MFY+D +A++ Q AL E+ E T L+
Sbjct: 325 MTKLESRPIHGNP--------------WEEMFYLDVQANLRSAEMQKALKELGEITRSLK 370
Query: 406 VLGSYPMD-MTPWSPS 420
VLG YP + + P P+
Sbjct: 371 VLGCYPSENVVPVDPT 386
>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 = 110 bits (278), Expect = 5e-30
Identities = 39/94 (41%), Positives = 51/94 (54%), Gaps = 14/94 (14%)
Query: 318 KTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMF 377
KTSIVF L+ VL FA R I+LTKIESRP + +EY+F
Sbjct: 1 KTSIVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGL--------------WEYVF 46
Query: 378 YIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYP 411
+IDFE + + AL E++ T F++VLGSYP
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 = 89.1 bits (222), Expect = 4e-22
Identities = 32/89 (35%), Positives = 45/89 (50%), Gaps = 14/89 (15%)
Query: 320 SIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYI 379
S+VF+ L K L FA R I+LTKIESRP R +EY F++
Sbjct: 1 SLVFSLKNKPGALAKALKVFAERGINLTKIESRPSRKGL--------------WEYEFFV 46
Query: 380 DFEASMAEVRAQNALAEVQEFTSFLRVLG 408
DFE + + + AL E++ T ++VLG
Sbjct: 47 DFEGHIDDPDVKEALEELKRVTEDVKVLG 75
>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 = 34.4 bits (79), Expect = 0.014
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 16/64 (25%)
Query: 320 SIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHR-NRPIRLVDDANVGTAKHFEYMFY 378
S++F+ + L KVL F ++I+LT IESRP R N+ EY F+
Sbjct: 16 SLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSRLNKD---------------EYEFF 60
Query: 379 IDFE 382
I+ +
Sbjct: 61 INLD 64
>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 = 33.0 bits (76), Expect = 0.025
Identities = 15/64 (23%), Positives = 21/64 (32%), Gaps = 15/64 (23%)
Query: 331 VLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRA 390
+L KVLS A I++T IE R E +I + +
Sbjct: 11 LLAKVLSVLAEAGINITSIEQRTSG---------------DGGEADIFIVVDGDGDLEKL 55
Query: 391 QNAL 394
AL
Sbjct: 56 LEAL 59
>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 = 32.9 bits (76), Expect = 0.031
Identities = 14/37 (37%), Positives = 21/37 (56%)
Query: 319 TSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHR 355
TS++F+ + L + L F ++LT IESRP R
Sbjct: 1 TSLIFSLKEEVGALARALKLFEEFGVNLTHIESRPSR 37
>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 = 35.2 bits (81), Expect = 0.069
Identities = 25/109 (22%), Positives = 46/109 (42%), Gaps = 21/109 (19%)
Query: 318 KTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMF 377
KTS++F+ + L + L F +++LT IESRP + P EY F
Sbjct: 16 KTSLIFSLKEEAGALAETLKLFQAHDVNLTHIESRPSKTHP--------------GEYEF 61
Query: 378 YIDFEASMAEVRA-QNALAEVQE-FTSFLRVLGSYPMDMT---PWSPSR 421
+++F+ A R + + +++ + +L PW P +
Sbjct: 62 FVEFDE--ASDRKLEGVIEHLRQKAEVTVNILSRDNKQNKDSVPWFPRK 108
>gnl|CDD|218559 pfam05335, DUF745, Protein of unknown function (DUF745). This
family consists of several uncharacterized Drosophila
melanogaster proteins of unknown function.
Length = 188
Score = 33.8 bits (78), Expect = 0.092
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 246 NVAREAVDDTAGAAE---YIAANDLRDTAAIASARAAE--LYGMQVLEDGIQDDS 295
A+ A D A AAE Y A + L D A+ +A+AAE L G Q L + ++ +
Sbjct: 23 QEAKAANDAQAAAAEAAAYQAKSQLAD-KALQAAKAAEAALAGKQQLVEQLEQEV 76
>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 = 28.9 bits (65), Expect = 0.87
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 321 IVFAHDK-GTSVLFKVLSAFAFRNISLTKIESRPHR 355
V D+ G +L +V A A R I++ I
Sbjct: 4 EVGVPDRPG--LLAEVFGALADRGINIESISQSTSG 37
>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 = 29.7 bits (67), Expect = 0.98
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 316 PFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHR 355
P K +++F+ +G S L ++L F + +ESRP R
Sbjct: 39 PQKATLLFSLKEGFSSLSRILKVFETFEAKIHHLESRPSR 78
>gnl|CDD|235826 PRK06549, PRK06549, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 130
Score = 28.6 bits (64), Expect = 3.1
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 88 VPIEHANSAAATASNNKPQLPPQKPLTIT----DLSPAPMHGSQLRV 130
P + A++ + PQ+ Q P D P+PM G+ L+V
Sbjct: 29 APAQPASTPVPVPTEASPQVEAQAPQPAAAAGADAMPSPMPGTILKV 75
>gnl|CDD|215997 pfam00566, RabGAP-TBC, Rab-GTPase-TBC domain. Identification of a
TBC domain in GYP6_YEAST and GYP7_YEAST, which are
GTPase activator proteins of yeast Ypt6 and Ypt7,
implies that these domains are GTPase activator proteins
of Rab-like small GTPases.
Length = 206
Score = 28.9 bits (65), Expect = 3.6
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 3/34 (8%)
Query: 310 IPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRN 343
+PRT F F + +G L ++L A++ N
Sbjct: 46 VPRT---FPHHFFFKNGEGQQQLRRILKAYSIYN 76
>gnl|CDD|176189 cd05286, QOR2, Quinone oxidoreductase (QOR). Quinone
oxidoreductase (QOR) and 2-haloacrylate reductase. QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. 2-haloacrylate reductase,
a member of this subgroup, catalyzes the NADPH-dependent
reduction of a carbon-carbon double bond in
organohalogen compounds. Although similar to QOR,
Burkholderia 2-haloacrylate reductase does not act on
the quinones 1,4-benzoquinone and 1,4-naphthoquinone.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding domains
at the active site, and coenzyme binding induces a
conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 320
Score = 29.3 bits (67), Expect = 3.9
Identities = 11/19 (57%), Positives = 12/19 (63%)
Query: 129 RVAYQGVPGAYSEAAAGKA 147
RVAY G PGAY+E A
Sbjct: 81 RVAYAGPPGAYAEYRVVPA 99
>gnl|CDD|234115 TIGR03132, malonate_mdcB, triphosphoribosyl-dephospho-CoA synthase
MdcB. This protein acts in cofactor biosynthesis,
preparing the coenzyme A derivative that becomes
attached to the malonate decarboxylase acyl carrier
protein (or delta subunit). The closely related protein
CitG of citrate lyase produces the same molecule, but
the two families are nonetheless readily separated
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 272
Score = 29.2 bits (66), Expect = 4.1
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 124 HGSQLRVAYQGVPGAYSEAAAGKAYP 149
HG ++R Y GV GA EAA G +P
Sbjct: 145 HGQRVRRRY-GVGGAREEAAQG--FP 167
>gnl|CDD|150556 pfam09897, DUF2124, Uncharacterized protein conserved in archaea
(DUF2124). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 147
Score = 27.6 bits (62), Expect = 6.8
Identities = 12/43 (27%), Positives = 16/43 (37%), Gaps = 8/43 (18%)
Query: 315 RPFKT--------SIVFAHDKGTSVLFKVLSAFAFRNISLTKI 349
RPFK IV+ G F L +A R+ L +
Sbjct: 8 RPFKELVELKDGEKIVYYGSPGVCTPFAELFGYAIRDTVLEQY 50
>gnl|CDD|235783 PRK06349, PRK06349, homoserine dehydrogenase; Provisional.
Length = 426
Score = 28.1 bits (64), Expect = 9.0
Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 12/84 (14%)
Query: 324 AHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEA 383
DK VL K+ + FA IS+ I + +V + T + E A
Sbjct: 355 VADK-PGVLAKIAAIFAENGISIESILQKGAGGEGAEIV----IVTHETSEA----ALRA 405
Query: 384 SMAEVRAQNALAEVQEFTSFLRVL 407
++A + AL V S +RV
Sbjct: 406 ALAAIE---ALDVVLGIPSVIRVE 426
>gnl|CDD|180604 PRK06523, PRK06523, short chain dehydrogenase; Provisional.
Length = 260
Score = 27.9 bits (63), Expect = 9.5
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 245 LNVAREAVDDTAGAAEYIAANDLRD---TAAIASARAAELYGMQVL 287
+ AR DD E++AA DL AA+A A L G+ +L
Sbjct: 37 VTTARSRPDDLPEGVEFVAA-DLTTAEGCAAVARAVLERLGGVDIL 81
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
0.319 0.132 0.391
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,128,954
Number of extensions: 2026664
Number of successful extensions: 1556
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1533
Number of HSP's successfully gapped: 30
Length of query: 423
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 323
Effective length of database: 6,502,202
Effective search space: 2100211246
Effective search space used: 2100211246
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: 60 (26.9 bits)