RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9446
(174 letters)
>gnl|CDD|215689 pfam00067, p450, Cytochrome P450. Cytochrome P450s are
haem-thiolate proteins involved in the oxidative
degradation of various compounds. They are particularly
well known for their role in the degradation of
environmental toxins and mutagens. They can be divided
into 4 classes, according to the method by which
electrons from NAD(P)H are delivered to the catalytic
site. Sequence conservation is relatively low within the
family - there are only 3 absolutely conserved residues
- but their general topography and structural fold are
highly conserved. The conserved core is composed of a
coil termed the 'meander', a four-helix bundle, helices
J and K, and two sets of beta-sheets. These constitute
the haem-binding loop (with an absolutely conserved
cysteine that serves as the 5th ligand for the haem
iron), the proton-transfer groove and the absolutely
conserved EXXR motif in helix K. While prokaryotic P450s
are soluble proteins, most eukaryotic P450s are
associated with microsomal membranes. their general
enzymatic function is to catalyze regiospecific and
stereospecific oxidation of non-activated hydrocarbons
at physiological temperatures.
Length = 461
Score = 58.8 bits (143), Expect = 1e-10
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 15/91 (16%)
Query: 61 TSTITIILL----------QVIQETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLF 110
+ST++ L ++ +E V G + PTY+ LQ + YLD VIKETLRL
Sbjct: 278 SSTLSWALYELAKHPEVQEKLREEIDEVIGD---KRSPTYDDLQNMPYLDAVIKETLRLH 334
Query: 111 PAVPI-LGRNIEKDENVGGHILAPAKTKCQL 140
P VP+ L R + KD + G+++ P T +
Sbjct: 335 PVVPLLLPREVTKDTVIPGYLI-PKGTLVIV 364
>gnl|CDD|178524 PLN02936, PLN02936, epsilon-ring hydroxylase.
Length = 489
Score = 44.4 bits (105), Expect = 8e-06
Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 10/91 (10%)
Query: 50 VRSHIQNGAVLTSTITII------LLQVIQETLAVFGPEGLTQCPTYEQLQELKYLDKVI 103
V H G+VLT T+ ++ L + +E V + PTYE ++ELKYL + I
Sbjct: 288 VAGHETTGSVLTWTLYLLSKNPEALRKAQEELDRVLQ----GRPPTYEDIKELKYLTRCI 343
Query: 104 KETLRLFPAVPILGRNIEKDENVGGHILAPA 134
E++RL+P P+L R + ++ + G A
Sbjct: 344 NESMRLYPHPPVLIRRAQVEDVLPGGYKVNA 374
>gnl|CDD|215354 PLN02655, PLN02655, ent-kaurene oxidase.
Length = 466
Score = 42.4 bits (100), Expect = 4e-05
Identities = 22/58 (37%), Positives = 32/58 (55%), Gaps = 5/58 (8%)
Query: 73 QETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPIL-GRNIEKDENVGGH 129
+E V G E +T+ E L L YL+ V ETLR + VP+L R + +D +GG+
Sbjct: 301 REIREVCGDERVTE----EDLPNLPYLNAVFHETLRKYSPVPLLPPRFVHEDTTLGGY 354
>gnl|CDD|178773 PLN03234, PLN03234, cytochrome P450 83B1; Provisional.
Length = 499
Score = 42.4 bits (99), Expect = 4e-05
Identities = 29/70 (41%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 74 ETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPI-LGRNIEKDENVGGHILA 132
E V G +G + E + L YL VIKE+LRL P +PI L R D +GG+ +
Sbjct: 328 EVRNVIGDKGYV---SEEDIPNLPYLKAVIKESLRLEPVIPILLHRETIADAKIGGYDI- 383
Query: 133 PAKTKCQLKA 142
PAKT Q+ A
Sbjct: 384 PAKTIIQVNA 393
>gnl|CDD|215393 PLN02738, PLN02738, carotene beta-ring hydroxylase.
Length = 633
Score = 42.6 bits (100), Expect = 5e-05
Identities = 27/83 (32%), Positives = 48/83 (57%), Gaps = 10/83 (12%)
Query: 53 HIQNGAVLTSTITI------ILLQVIQETLAVFGPEGLTQCPTYEQLQELKYLDKVIKET 106
H + AVLT T + ++ ++ +E +V G + PT E +++LKY +VI E+
Sbjct: 404 HETSAAVLTWTFYLLSKEPSVVAKLQEEVDSVLG----DRFPTIEDMKKLKYTTRVINES 459
Query: 107 LRLFPAVPILGRNIEKDENVGGH 129
LRL+P P+L R +++ +GG+
Sbjct: 460 LRLYPQPPVLIRRSLENDMLGGY 482
>gnl|CDD|225035 COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 411
Score = 42.4 bits (100), Expect = 5e-05
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 92 QLQELKYLDKVIKETLRLFPAVPILGRNIEKDENVGGH 129
+ L+ V++ETLRL+P VP+ R +D +GG+
Sbjct: 275 AEPDRPLLEAVVEETLRLYPPVPLARRVATEDVELGGY 312
>gnl|CDD|165828 PLN02183, PLN02183, ferulate 5-hydroxylase.
Length = 516
Score = 41.4 bits (97), Expect = 1e-04
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 93 LQELKYLDKVIKETLRLFPAVPILGRNIEKDENVGGHILAPAKTKCQLK--AITPDPRAD 150
L++L YL +KETLRL P +P+L +D V G+ + P +++ + AI D +
Sbjct: 360 LEKLTYLKCTLKETLRLHPPIPLLLHETAEDAEVAGYFI-PKRSRVMINAWAIGRDKNS- 417
Query: 151 CETNEKHRP 159
E + +P
Sbjct: 418 WEDPDTFKP 426
>gnl|CDD|215627 PLN03195, PLN03195, fatty acid omega-hydroxylase; Provisional.
Length = 516
Score = 40.9 bits (96), Expect = 1e-04
Identities = 17/26 (65%), Positives = 21/26 (80%)
Query: 89 TYEQLQELKYLDKVIKETLRLFPAVP 114
TY+ L +L+YL VI ETLRL+PAVP
Sbjct: 364 TYDSLGKLQYLHAVITETLRLYPAVP 389
>gnl|CDD|215235 PLN02426, PLN02426, cytochrome P450, family 94, subfamily C
protein.
Length = 502
Score = 40.4 bits (95), Expect = 2e-04
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 74 ETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAV 113
E V GP + ++E+++E+ YL + E++RLFP V
Sbjct: 333 EADRVMGPN--QEAASFEEMKEMHYLHAALYESMRLFPPV 370
>gnl|CDD|215164 PLN02290, PLN02290, cytokinin trans-hydroxylase.
Length = 516
Score = 37.9 bits (88), Expect = 0.001
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 88 PTYEQLQELKYLDKVIKETLRLFPAVPILGRNIEKDENVGG 128
P+ + L +L L+ VI E+LRL+P +L R +D +G
Sbjct: 366 PSVDHLSKLTLLNMVINESLRLYPPATLLPRMAFEDIKLGD 406
>gnl|CDD|215371 PLN02687, PLN02687, flavonoid 3'-monooxygenase.
Length = 517
Score = 37.5 bits (87), Expect = 0.002
Identities = 30/85 (35%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Query: 67 ILLQVIQETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPI-LGRNIEKDEN 125
IL + +E AV G + L + L +L YL VIKET RL P+ P+ L R ++
Sbjct: 330 ILKKAQEELDAVVGRDRLV---SESDLPQLTYLQAVIKETFRLHPSTPLSLPRMAAEECE 386
Query: 126 VGG-HILAPAKTKCQLKAITPDPRA 149
+ G HI A + AI DP
Sbjct: 387 INGYHIPKGATLLVNVWAIARDPEQ 411
>gnl|CDD|215221 PLN02394, PLN02394, trans-cinnamate 4-monooxygenase.
Length = 503
Score = 36.6 bits (85), Expect = 0.004
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 73 QETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPIL 116
E V GP P +L YL V+KETLRL A+P+L
Sbjct: 332 DELDTVLGPGNQVTEPD---THKLPYLQAVVKETLRLHMAIPLL 372
>gnl|CDD|215583 PLN03112, PLN03112, cytochrome P450 family protein; Provisional.
Length = 514
Score = 34.8 bits (80), Expect = 0.017
Identities = 30/94 (31%), Positives = 44/94 (46%), Gaps = 17/94 (18%)
Query: 57 GAVLTSTIT-------II----LLQVIQETL-AVFGPEGLTQCPTYEQLQELKYLDKVIK 104
A TS +T +I +L+ IQE L +V G + Q L L YL V++
Sbjct: 307 AATDTSAVTNEWAMAEVIKNPRVLRKIQEELDSVVGRNRMVQ---ESDLVHLNYLRCVVR 363
Query: 105 ETLRLFPAVPIL-GRNIEKDENVGGHILAPAKTK 137
ET R+ PA P L + + G+ + PAKT+
Sbjct: 364 ETFRMHPAGPFLIPHESLRATTINGYYI-PAKTR 396
>gnl|CDD|215171 PLN02302, PLN02302, ent-kaurenoic acid oxidase.
Length = 490
Score = 34.3 bits (79), Expect = 0.025
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 11/100 (11%)
Query: 73 QETLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPILGRNIEKDENVGGHILA 132
QE +A P G + T + +++++YL +VI ETLRL + R + D V G+ +
Sbjct: 328 QEEIAKKRPPG-QKGLTLKDVRKMEYLSQVIDETLRLINISLTVFREAKTDVEVNGYTI- 385
Query: 133 PAKTKCQL--------KAITPDPRA-DCETNEKHRPRLNT 163
P K + P+P+ D + + P+ T
Sbjct: 386 PKGWKVLAWFRQVHMDPEVYPNPKEFDPSRWDNYTPKAGT 425
>gnl|CDD|178550 PLN02966, PLN02966, cytochrome P450 83A1.
Length = 502
Score = 32.4 bits (73), Expect = 0.12
Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 89 TYEQLQELKYLDKVIKETLRLFPAVPIL-GRNIEKDENVGGHILAPAKTKCQLKA 142
T + ++ L Y ++KETLR+ P +P+L R +D + G+ + PA T + A
Sbjct: 343 TEDDVKNLPYFRALVKETLRIEPVIPLLIPRACIQDTKIAGYDI-PAGTTVNVNA 396
>gnl|CDD|187698 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNase HI in long-term
repeat retroelements. Ribonuclease H (RNase H) enzymes
are divided into two major families, Type 1 and Type 2,
based on amino acid sequence similarities and
biochemical properties. RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner in the presence of divalent
cations. RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes. RNase HI
has also been observed as adjunct domains to the reverse
transcriptase gene in retroviruses, in long-term repeat
(LTR)-bearing retrotransposons and non-LTR
retrotransposons. RNase HI in LTR retrotransposons
perform degradation of the original RNA template,
generation of a polypurine tract (the primer for
plus-strand DNA synthesis), and final removal of RNA
primers from newly synthesized minus and plus strands.
The catalytic residues for RNase H enzymatic activity,
three aspartatic acids and one glutamatic acid residue
(DEDD), are unvaried across all RNase H domains.
Phylogenetic patterns of RNase HI of LTR retroelements
is classified into five major families, Ty3/Gypsy,
Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate
retroviruses. Ty3/Gypsy family widely distributed among
the genomes of plants, fungi and animals. RNase H
inhibitors have been explored as an anti-HIV drug target
because RNase H inactivation inhibits reverse
transcription.
Length = 121
Score = 28.6 bits (65), Expect = 0.73
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 20 RWSSFFLLYDFETSPKPGSEN 40
RW +DFE +PG EN
Sbjct: 90 RWLLLLQEFDFEIEYRPGKEN 110
>gnl|CDD|173595 PTZ00404, PTZ00404, cytochrome P450; Provisional.
Length = 482
Score = 28.9 bits (65), Expect = 1.2
Identities = 15/36 (41%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 94 QELKYLDKVIKETLRLFPAVPI-LGRNIEKDENVGG 128
Q Y +IKETLR P P L R+ D +GG
Sbjct: 340 QSTPYTVAIIKETLRYKPVSPFGLPRSTSNDIIIGG 375
>gnl|CDD|177725 PLN00110, PLN00110, flavonoid 3',5'-hydroxylase (F3'5'H);
Provisional.
Length = 504
Score = 28.7 bits (64), Expect = 1.6
Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 16/85 (18%)
Query: 93 LQELKYLDKVIKETLRLFPAVPI-LGRNIEKDENVGGHILAPAKTKCQLK--AITPDP-- 147
L +L YL + KE+ R P+ P+ L R + V G+ + P T+ + AI DP
Sbjct: 345 LPKLPYLQAICKESFRKHPSTPLNLPRVSTQACEVNGYYI-PKNTRLSVNIWAIGRDPDV 403
Query: 148 ----------RADCETNEKHRPRLN 162
R E N K PR N
Sbjct: 404 WENPEEFRPERFLSEKNAKIDPRGN 428
>gnl|CDD|177826 PLN02169, PLN02169, fatty acid (omega-1)-hydroxylase/midchain
alkane hydroxylase.
Length = 500
Score = 28.0 bits (62), Expect = 2.7
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 91 EQLQELKYLDKVIKETLRLFPAVP 114
E L++L YL + E++RL+P +P
Sbjct: 349 EDLEKLVYLHAALSESMRLYPPLP 372
>gnl|CDD|215697 pfam00077, RVP, Retroviral aspartyl protease. Single domain
aspartyl proteases from retroviruses, retrotransposons,
and badnaviruses (plant dsDNA viruses). These proteases
are generally part of a larger polyprotein; usually pol,
more rarely gag. Retroviral proteases appear to be
homologous to a single domain of the two-domain
eukaryotic aspartyl proteases such as pepsins,
cathepsins, and renins (pfam00026).
Length = 99
Score = 26.4 bits (59), Expect = 3.5
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 83 GLTQCPTYEQ--LQELKYLDKVIKETLRLFPA--VPILGRNI 120
G+ +Q ++ K + T + P+ V ILGR++
Sbjct: 49 GIGGQIRVKQSIQILVEIGGKKFRGTFLVLPSTPVNILGRDL 90
>gnl|CDD|107376 cd06381, PBP1_iGluR_delta_like, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of an orphan family of delta receptors,
GluRdelta1 and GluRdelta2. This CD represents the
N-terminal leucine/isoleucine/valine-binding protein
(LIVBP)-like domain of an orphan family of delta
receptors, GluRdelta1 and GluRdelta2. While this
N-terminal domain belongs to the periplasmic-binding
fold type I superfamily, the glutamate-binding domain of
the iGluR is structurally homologous to the
periplasmic-binding fold type II. The LIVBP-like domain
of iGluRs is thought to play a role in the initial
assembly of iGluR subunits, but it is not well
understood how this domain is arranged and functions in
intact iGluR. Although the delta receptors are a member
of the ionotropic glutamate receptor family, they cannot
be activated by AMPA, kainate, NMDA, glutamate, or any
other ligands. Phylogenetic analysis shows that both
GluRdelta1 and GluRalpha2 are more homologous to
non-NMDA receptors. GluRdelta2 was shown to function as
an AMPA-like receptor by mutation analysis. Moreover,
targeted disruption of GluRdelta2 gene caused motor
coordination impairment, Purkinje cell maturation, and
long-term depression of synaptic transmission. It has
been suggested that GluRdelta2 is the receptor for
cerebellin 1, a glycoprotein of the Clq, and the tumor
necrosis factor family which is secreted from cerebellar
granule cells. Furthermore, recent studies have shown
that the orphan GluRdelta1 plays an essential role in
high-frequency hearing and ionic homeostasis in the
basal cochlea and that the locus encoding GluRdelta1 may
be involved in congenial or acquired high-frequency
hearing loss in humans.
Length = 363
Score = 27.1 bits (60), Expect = 6.0
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 9 MVEVVEEKEKFRWSSFFLLYDFETSPKPGSENLDSRNQSS 48
M+ +V E +RW F YD + + E LD ++
Sbjct: 129 MLRLVTE---WRWQKFVYFYDNDYDIRGLQEFLDQLSRQG 165
>gnl|CDD|198457 cd10314, FAM20_C, C-terminal putative kinase domain of FAM20
(family with sequence similarity 20) proteins. This
family contains the C-terminal domain of FAM20A, -B, -C
and related proteins. FAM20A may participate in enamel
development and gingival homeostasis, FAM20B in
proteoglycan production, and FAM20C in bone development.
FAM20B is a xylose kinase that may regulate the number
of glycosaminoglycan chains by phosphorylating the
xylose residue in the glycosaminoglycan-protein linkage
region of proteoglycans. FAM20C, also called Dentin
Matrix Protein 4, is abundant in the dentin matrix, and
may participate in the differentiation of mesenchymal
precursor cells into functional odontoblast-like cells.
Mutations in FAM20C are associated with lethal
Osteosclerotic Bone Dysplasia (Raine Syndrome), and
mutations in FAM20A with Amelogenesis imperfecta (AI)
and Gingival Hyperplasia Syndrome. The C-terminal
domains of members of this family are putative kinase
domains, based on mutagenesis of the C-terminal domain
of Drosophila Four-Jointed, a related Golgi kinase. This
domain family is also known as DUF1193.
Length = 209
Score = 26.5 bits (59), Expect = 7.0
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 9/42 (21%)
Query: 84 LTQC-----PTYEQLQELKY----LDKVIKETLRLFPAVPIL 116
L QC T+ +LQ L L +++E+L P P+L
Sbjct: 141 LYQCCLIRKSTWLRLQLLAKGGGSLSDLLRESLSHDPLSPVL 182
>gnl|CDD|184831 PRK14811, PRK14811, formamidopyrimidine-DNA glycosylase;
Provisional.
Length = 269
Score = 26.7 bits (59), Expect = 7.0
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 1/68 (1%)
Query: 75 TLAVFGPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPILGRNIEKDENVGGHILAPA 134
LA GPE L+ T + + +K L V +G NI DE++ + PA
Sbjct: 118 LLARMGPEPLSDDFTEPEFVRALATARPVKPWLLSQKPVAGVG-NIYADESLWRARIHPA 176
Query: 135 KTKCQLKA 142
+ LKA
Sbjct: 177 RPATSLKA 184
>gnl|CDD|215860 pfam00328, His_Phos_2, Histidine phosphatase superfamily (branch
2). The histidine phosphatase superfamily is so named
because catalysis centres on a conserved His residue
that is transiently phosphorylated during the catalytic
cycle. Other conserved residues contribute to a
'phosphate pocket' and interact with the phospho group
of substrate before, during and after its transfer to
the His residue. Structure and sequence analyses show
that different families contribute different additional
residues to the 'phosphate pocket' and, more
surprisingly, differ in the position, in sequence and in
three dimensions, of a catalytically essential acidic
residue. The superfamily may be divided into two main
branches.The smaller branch 2 contains predominantly
eukaryotic proteins. The catalytic functions in members
include phytase, glucose-1-phosphatase and multiple
inositol polyphosphate phosphatase. The in vivo roles of
the mammalian acid phosphatases in branch 2 are not
fully understood, although activity against
lysophosphatidic acid and tyrosine-phosphorylated
proteins has been demonstrated.
Length = 327
Score = 26.6 bits (59), Expect = 8.4
Identities = 9/39 (23%), Positives = 18/39 (46%)
Query: 62 STITIILLQVIQETLAVFGPEGLTQCPTYEQLQELKYLD 100
I ++ L +++ LA G CP +++ K +D
Sbjct: 120 QPIPVVTLPEVKKALANLLLLGYDSCPAFDESLVEKRVD 158
>gnl|CDD|181785 PRK09335, PRK09335, 30S ribosomal protein S26e; Provisional.
Length = 95
Score = 25.4 bits (56), Expect = 8.7
Identities = 17/59 (28%), Positives = 21/59 (35%), Gaps = 6/59 (10%)
Query: 80 GPEGLTQCPTYEQLQELKYLDKVIKETLRLFPAVPILGRNIEKDENVGGHILAPAKTKC 138
G G QC + DK + T P P L + +EK G I TKC
Sbjct: 16 GHVGYVQC---DNCGRRVPRDKAVCVTKMYSPVDPQLAKELEKK---GAIIARYPVTKC 68
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
0.315 0.133 0.382
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,744,528
Number of extensions: 776364
Number of successful extensions: 447
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 32
Length of query: 174
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 84
Effective length of database: 6,945,742
Effective search space: 583442328
Effective search space used: 583442328
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (25.4 bits)