RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8284
(170 letters)
>gnl|CDD|212526 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, domain 1 and
histone deacetylase 10. Histone deacetylases 6 and 10
are class IIb Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
HDACs usually act via association with DNA binding
proteins to target specific chromatin regions. HDAC6 is
the only histone deacetylase with internal duplication
of two catalytic domains which appear to function
independently of each other, and also has a C-terminal
ubiquitin-binding domain. It is located in the cytoplasm
and associates with microtubule motor complex,
functioning as the tubulin deacetylase and regulating
microtubule-dependent cell motility. HDAC10 has an
N-terminal deacetylase domain and a C-terminal
pseudo-repeat that shares significant similarity with
its catalytic domain. It is located in the nucleus and
cytoplasm, and is involved in regulation of
melanogenesis. It transcriptionally down-regulates
thioredoxin-interacting protein (TXNIP), leading to
altered reactive oxygen species (ROS) signaling in human
gastric cancer cells. Known interaction partners of
HDAC6 are alpha tubulin (substrate) and ubiquitin-like
modifier FAT10 (also known as Ubiquitin D or UBD) while
interaction partners of HDAC10 are Pax3, KAP1, hsc70 and
HDAC3 proteins.
Length = 336
Score = 104 bits (261), Expect = 2e-27
Identities = 40/92 (43%), Positives = 50/92 (54%), Gaps = 13/92 (14%)
Query: 1 MDITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCPNFETLGT 60
M +TPA YAHL L G A GK+ ++LEGGY L+SLAE ++TLR LL DP P
Sbjct: 258 MAVTPAGYAHLTRLLMGLAGGKLLLVLEGGYLLESLAESVSMTLRGLLGDPLPP------ 311
Query: 61 PSERILFIYALLSFSSITETILNCIYEHRPYW 92
+ + S+ ETILN I P W
Sbjct: 312 -------LAPPIPIRSVLETILNAIAHLSPRW 336
>gnl|CDD|212527 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 2. Histone
deacetylase 6 is a class IIb Zn-dependent enzyme that
catalyzes hydrolysis of N(6)-acetyl-lysine residue of a
histone to yield a deacetylated histone (EC 3.5.1.98).
Histone acetylation/deacetylation process is important
for mediation of transcriptional regulation of many
genes. HDACs usually act via association with DNA
binding proteins to target specific chromatin regions.
HDAC6 is the only histone deacetylase with internal
duplication of two catalytic domains which appear to
function independently of each other, and also has a
C-terminal ubiquitin-binding domain. It is located in
the cytoplasm and associates with microtubule motor
complex, functioning as the tubulin deacetylase and
regulating microtubule-dependent cell motility. Known
interaction partners of HDAC6 are alpha tubulin and
ubiquitin-like modifier FAT10 (also known as Ubiquitin D
or UBD).
Length = 350
Score = 84.7 bits (210), Expect = 5e-20
Identities = 32/95 (33%), Positives = 47/95 (49%), Gaps = 12/95 (12%)
Query: 2 DITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCPNFETLGTP 61
+TP YAH+ + L A G+V VILEGGY L S++E ++ + LL DP P + P
Sbjct: 268 KVTPEGYAHMTHMLMSLAGGRVIVILEGGYNLTSISESMSMCTKTLLGDPPPVLDLPRPP 327
Query: 62 SERILFIYALLSFSSITETILNCIYEHRPYWNCYK 96
SS ++I N + H+ YW +
Sbjct: 328 C------------SSALKSINNVLQVHQKYWKSLR 350
>gnl|CDD|212545 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 1. Histone
deacetylases 6 are class IIb Zn-dependent enzymes that
catalyze hydrolysis of N(6)-acetyl-lysine of a histone
to yield a deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
HDACs usually act via association with DNA binding
proteins to target specific chromatin regions. HDAC6 is
the only histone deacetylase with internal duplication
of two catalytic domains which appear to function
independently of each other, and also has a C-terminal
ubiquitin-binding domain. It is located in the cytoplasm
and associates with microtubule motor complex,
functioning as the tubulin deacetylase and regulating
microtubule-dependent cell motility. Known interaction
partners of HDAC6 are alpha tubulin (substrate) and
ubiquitin-like modifier FAT10 (also known as Ubiquitin D
or UBD).
Length = 337
Score = 81.4 bits (201), Expect = 6e-19
Identities = 41/92 (44%), Positives = 53/92 (57%), Gaps = 12/92 (13%)
Query: 1 MDITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCPNFETLGT 60
M TPAC+AHL + L G A GK+ + LEGGY L+SLAEG +L+ALL DPCP E+ G
Sbjct: 258 MAATPACFAHLTHLLMGLAGGKLILSLEGGYNLRSLAEGVCASLKALLGDPCPMLESPGA 317
Query: 61 PSERILFIYALLSFSSITETILNCIYEHRPYW 92
P L +S++ T I P+W
Sbjct: 318 PCRSAL--------ASVSCT----ISALEPFW 337
>gnl|CDD|212546 cd11683, HDAC10, Histone deacetylase 10. Histone deacetylases 10
are class IIb Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
HDACs usually act via association with DNA binding
proteins to target specific chromatin regions. HDAC10
has an N-terminal deacetylase domain and a C-terminal
pseudo-repeat that shares significant similarity with
its catalytic domain. It is located in the nucleus and
cytoplasm, and is involved in regulation of
melanogenesis. It transcriptionally down-regulates
thioredoxin-interacting protein (TXNIP), leading to
altered reactive oxygen species (ROS) signaling in human
gastric cancer cells. Known interaction partners of
HDAC10 are Pax3, KAP1, hsc70 and HDAC3 proteins.
Length = 337
Score = 76.4 bits (188), Expect = 5e-17
Identities = 36/92 (39%), Positives = 46/92 (50%), Gaps = 12/92 (13%)
Query: 1 MDITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCPNFETLGT 60
M TP C+AHL + L A GK+ +LEGGY L+SLAE +T++ LL DP P T
Sbjct: 258 MCATPECFAHLTHLLMVLAGGKLCAVLEGGYHLESLAESVCMTVQTLLGDPLPRLSGEMT 317
Query: 61 PSERILFIYALLSFSSITETILNCIYEHRPYW 92
P + S E+I N PYW
Sbjct: 318 PCQ------------SALESIQNVRAAQAPYW 337
>gnl|CDD|212542 cd11600, HDAC_Clr3, Class II Histone deacetylase Clr3 and similar
proteins. Clr3 is a class II Histone deacetylase
Zn-dependent enzyme that catalyzes hydrolysis of an
N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Clr3 is the homolog
of the class-II HDAC HdaI in S. cerevisiae, and is
essential for silencing in heterochromatin regions, such
as centromeric regions, ribosomal DNA, the mating-type
region and telomeric loci. Clr3 has also been implicated
in the regulation of stress-related genes; the histone
acetyltransferase, Gcn5, in S. cerevisiae,
preferentially acetylates global histone H3K14 while
Clr3 preferentially deacetylates H3K14ac, and therefore,
interplay between Gcn5 and Clr3 is crucial for the
regulation of many stress-response genes.
Length = 313
Score = 59.7 bits (145), Expect = 4e-11
Identities = 21/53 (39%), Positives = 31/53 (58%)
Query: 1 MDITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCP 53
+TPA YAH+ + L A GK+ V LEGGY L ++++ A + LL + P
Sbjct: 258 CHVTPAGYAHMTHMLMSLAGGKLVVALEGGYNLDAISDSALAVAKVLLGEAPP 310
>gnl|CDD|212544 cd11681, HDAC_classIIa, Histone deacetylases, class IIa. Class IIa
histone deacetylases are Zn-dependent enzymes that
catalyze hydrolysis of N(6)-acetyl-lysine residues of
histones (EC 3.5.1.98) to yield deacetylated histones.
This subclass includes animal HDAC4, HDAC5, HDAC7, and
HDCA9. Histone acetylation/deacetylation process is
important for mediation of transcriptional regulation of
many genes. Histone deacetylases usually act via
association with DNA binding proteins to target specific
chromatin regions. Class IIa histone deacetylases are
signal-dependent co-repressors, they have N-terminal
regulatory domain with two or three conserved serine
residues, phosphorylation of these residues is important
for ability to shuttle between the nucleus and cytoplasm
and act as transcriptional co-repressors. HDAC9 is
involved in regulation of gene expression and dendritic
growth in developing cortical neurons. It also plays a
role in hematopoiesis. HDAC7 is involved in regulation
of myocyte migration and differentiation. HDAC5 is
involved in integration of chronic drug (cocaine)
addiction and depression with changes in chromatin
structure and gene expression. HDAC4 participates in
regulation of chondrocyte hypertrophy and
skeletogenesis.
Length = 377
Score = 59.3 bits (144), Expect = 6e-11
Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 15/93 (16%)
Query: 3 ITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALL---DDPCPNFETLG 59
++PAC+ ++ L A GKV + LEGGY L ++ + + +RALL DP E
Sbjct: 297 VSPACFGYMTRQLMNLAGGKVVLALEGGYDLTAICDASEACVRALLGDELDPLSEEELER 356
Query: 60 TPSERILFIYALLSFSSITETILNCIYEHRPYW 92
P+ + ++ I PYW
Sbjct: 357 RPNP------------NAVTSLEKVIAIQSPYW 377
>gnl|CDD|212518 cd09992, HDAC_classII, Histone deacetylases and histone-like
deacetylases, classII. Class II histone deacetylases
are Zn-dependent enzymes that catalyze hydrolysis of
N(6)-acetyl-lysine residues of histones (EC 3.5.1.98)
and possibly other proteins to yield deacetylated
histones/other proteins. This group includes animal
HDAC4,5,6,7,8,9,10, fungal HOS3 and HDA1, plant HDA5 and
HDA15 as well as other eukaryotes, archaeal and
bacterial histone-like deacetylases. Eukaryotic
deacetylases mostly use histones (H2, H3, H4) as
substrates for deacetylation; however, non-histone
substrates are known (for example, tubulin). Substrates
for prokaryotic histone-like deacetylases are not known.
Histone acetylation/deacetylation process is important
for mediation of transcriptional regulation of many
genes. Histone deacetylases usually act via association
with DNA binding proteins to target specific chromatin
regions. Interaction partners of class II deacetylases
include 14-3-3 proteins, MEF2 family of transcriptional
factors, CtBP, calmodulin (CaM), SMRT, N-CoR, BCL6,
HP1alpha and SUMO. Histone deacetylases play a role in
the regulation of cell cycle, cell differentiation and
survival. Class II mammalian HDACs are differentially
inhibited by structurally diverse compounds with known
antitumor activities, thus presenting them as potential
drug targets for human diseases resulting from aberrant
acetylation.
Length = 291
Score = 53.7 bits (130), Expect = 5e-09
Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 4/52 (7%)
Query: 1 MDITPACYAHLLNSLTGFA----QGKVAVILEGGYCLKSLAEGAALTLRALL 48
M++TP YA L L A G++ +LEGGY L++LAE L ALL
Sbjct: 240 MNLTPEGYARLTRLLKELADEHCGGRLVFVLEGGYNLEALAESVLAVLEALL 291
>gnl|CDD|216151 pfam00850, Hist_deacetyl, Histone deacetylase domain. Histones can
be reversibly acetylated on several lysine residues.
Regulation of transcription is caused in part by this
mechanism. Histone deacetylases catalyze the removal of
the acetyl group. Histone deacetylases are related to
other proteins.
Length = 300
Score = 50.3 bits (121), Expect = 6e-08
Identities = 20/51 (39%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 1 MDITPACYAHLLNSLTGFA---QGKVAVILEGGYCLKSLAEGAALTLRALL 48
+++T YA L A G V +LEGGY L +LA AA L LL
Sbjct: 250 LNLTTEGYAERTRLLLELADAYGGPVVSVLEGGYNLDALARSAAAVLAGLL 300
>gnl|CDD|212531 cd10007, HDAC5, Histone deacetylase 5. Histone deacetylase 5 is a
class IIa Zn-dependent enzyme that catalyzes hydrolysis
of an N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. Class IIa histone deacetylases are
signal-dependent co-repressors, having N-terminal
regulatory domain with two or three conserved serine
residues; phosphorylation of these residues is important
for ability to shuttle between the nucleus and cytoplasm
and act as transcriptional co-repressors. HDAC5 is
involved in integration of chronic drug (cocaine)
addiction and depression with changes in chromatin
structure and gene expression; cocaine regulates HDAC5
function to antagonize the rewarding impact of cocaine,
possibly by blocking drug-stimulated gene expression
that supports drug-induced behavioral change. It is also
involved in regulation of angiogenesis and cell cycle as
well as immune system development. HDAC5 and HDAC9 have
been found to be significantly up-regulated in high-risk
medulloblastoma compared with low-risk and may
potentially be novel drug targets.
Length = 420
Score = 38.4 bits (89), Expect = 0.001
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 15/97 (15%)
Query: 3 ITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDD---PCPNFETLG 59
+T C+ HL L A G+V + LEGG+ L ++ + + + ALL P N
Sbjct: 300 VTAKCFGHLTKQLMTLAGGRVVLALEGGHDLTAICDASEACVSALLGMELTPLDNTVLQQ 359
Query: 60 TPSERILFIYALLSFSSITETILNCIYEHRPYWNCYK 96
P+ + T+ I +W+C K
Sbjct: 360 KPN------------DNAVATLERVIEIQSKHWSCLK 384
>gnl|CDD|212541 cd11599, HDAC_classII_2, Histone deacetylases and histone-like
deacetylases, classII. This subfamily includes
eukaryotic as well as bacterial Class II histone
deacetylase (HDAC) and related proteins. Deacetylases of
class II are Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine residues of histones
(EC 3.5.1.98) and possibly other proteins to yield
deacetylated histones/other proteins. In D. discoideum,
where four homologs (HdaA, HdaB, HdaC, HdaD) have been
identified, HDAC activity is important for regulating
the timing of gene expression during development. Also,
inhibition of HDAC activity by trichostatin A is shown
to cause hyperacetylation of the histone and a delay in
cell aggregation and differentiation.
Length = 288
Score = 36.7 bits (86), Expect = 0.003
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 18 FAQGKVAVILEGGYCLKSLAEGAALTLRALL 48
+ G++ +LEGGY L +LA A +RAL+
Sbjct: 258 YCDGRIVSVLEGGYDLSALARSVAAHVRALM 288
>gnl|CDD|212533 cd10009, HDAC9, Histone deacetylase 9. Histone deacetylase 9 is a
class IIa Zn-dependent enzyme that catalyzes hydrolysis
of an N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. Class IIa histone deacetylases are
signal-dependent co-repressors, they have N-terminal
regulatory domain with two or three conserved serine
residues, phosphorylation of these residues is important
for ability to shuttle between the nucleus and cytoplasm
and act as transcriptional co-repressors. HDAC9 is
involved in regulation of gene expression and dendritic
growth in developing cortical neurons. It also plays a
role in hematopoiesis. Its deregulated expression may be
associated with some human cancers. HDAC5 and HDAC9 have
been found to be significantly up-regulated in high-risk
medulloblastoma compared with low-risk and may
potentially be novel drug targets.
Length = 379
Score = 36.9 bits (85), Expect = 0.003
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 3 ITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALL 48
+T C+ HL L A G+V + LEGG+ L ++ + + + ALL
Sbjct: 298 VTAKCFGHLTKQLMTLADGRVVLALEGGHDLTAICDASEACVNALL 343
>gnl|CDD|212530 cd10006, HDAC4, Histone deacetylase 4. Histone deacetylase 4 is a
class IIa Zn-dependent enzyme that catalyzes hydrolysis
of an N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. Class IIa histone deacetylases are
signal-dependent co-repressors, having N-terminal
regulatory domain with two or three conserved serine
residues; phosphorylation of these residues is important
for ability to shuttle between the nucleus and cytoplasm
and act as transcriptional co-repressors. HDAC4
participates in regulation of chondrocyte hypertrophy
and skeletogenesis. However, biological substrates for
HDAC4 have not been identified; only low lysine
deacetylation activity has been demonstrated and active
site mutant has enhanced activity toward acetylated
lysines. HDAC4 does not bind DNA directly, but through
transcription factors MEF2C (myocyte enhancer factor-2C)
and MEF2D. Other known interaction partners of the
protein are 14-3-3 proteins, SMRT and N-CoR
co-repressors, BCL6, HP1, SUMO-1 ubiquitin-like protein,
and ANKRA2. It appears to interact in a multiprotein
complex with RbAp48 and HDAC3. Furthermore, HDAC4 is
required for TGFbeta1-induced myofibroblastic
differentiation.
Length = 409
Score = 36.6 bits (84), Expect = 0.004
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 2 DITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLD---DPCP 53
+++ C+ +L L G A G++ + LEGG+ L ++ + + + ALL DP P
Sbjct: 299 NLSAKCFGYLTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLP 353
>gnl|CDD|212532 cd10008, HDAC7, Histone deacetylase 7. Histone deacetylase 7 is a
class IIa Zn-dependent enzyme that catalyzes hydrolysis
of an N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. Class IIa histone deacetylases are
signal-dependent co-repressors, having N-terminal
regulatory domain with two or three conserved serine
residues; phosphorylation of these residues is important
for ability to shuttle between the nucleus and cytoplasm
and act as transcriptional co-repressors. HDAC7 is
involved in regulation of myocyte migration and
differentiation. Known interaction partners of class IIa
HDAC7 are myocyte enhancer factors - MEF2A, -2C, and
-2D, 14-3-3 proteins, SMRT and N-CoR co-repressors,
HDAC3, ETA (endothelin receptor). This enzyme is also
involved in the development of the immune system as well
as brain and heart development. Multiple alternatively
spliced transcript variants encoding several isoforms
have been found for this gene.
Length = 378
Score = 35.8 bits (82), Expect = 0.007
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 3 ITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLD---DPCP 53
++ C+ ++ L A G V + LEGG+ L ++ + + + ALL DP
Sbjct: 298 VSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNEVDPLS 351
>gnl|CDD|223201 COG0123, AcuC, Deacetylases, including yeast histone deacetylase
and acetoin utilization protein [Chromatin structure and
dynamics / Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 340
Score = 35.0 bits (81), Expect = 0.011
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 1 MDITPACYAHL---LNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCP 53
+++T YA + + L G V +LEGGY L +LA L L
Sbjct: 260 LNLTEEGYAKIGRAVRKLAEGYGGPVVAVLEGGYNLDALARSLVAFLAGLAGLVEE 315
>gnl|CDD|212512 cd09301, HDAC, Histone deacetylase (HDAC) classes I, II, IV and
related proteins. The HDAC/HDAC-like family includes
Zn-dependent histone deacetylase classes I, II and IV
(class III HDACs, also called sirtuins, are
NAD-dependent and structurally unrelated, and therefore
not part of this family). Histone deacetylases catalyze
hydrolysis of N(6)-acetyl-lysine residues in histone
amino termini to yield a deacetylated histone (EC
3.5.1.98), as opposed to the acetylation reaction by
some histone acetyltransferases (EC 2.3.1.48).
Deacetylases of this family are involved in signal
transduction through histone and other protein
modification, and can repress/activate transcription of
a number of different genes. They usually act via the
formation of large multiprotein complexes. They are
involved in various cellular processes, including cell
cycle regulation, DNA damage response, embryonic
development, cytokine signaling important for immune
response and post-translational control of the acetyl
coenzyme A synthetase. In mammals, they are known to be
involved in progression of different tumors. Specific
inhibitors of mammalian histone deacetylases are an
emerging class of promising novel anticancer drugs.
Length = 279
Score = 31.6 bits (72), Expect = 0.15
Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 3 ITPACYAHLLNSLTGFAQGK-VAVILEGGYCLKSLAEGAALTLRAL 47
++ + L + FA+G + ++L GGY ++ A ++ L
Sbjct: 234 LSEKGFVKLAEIVKEFARGGPILMVLGGGYNPEAAARIWTAIIKEL 279
>gnl|CDD|212525 cd10001, HDAC_classII_APAH, Histone deacetylase class IIa. This
subfamily includes bacterial acetylpolyamine
amidohydrolase (APAH) as well as other Class II histone
deacetylase (HDAC) and related proteins. Deacetylases of
class II are Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine residues of histones
(EC 3.5.1.98) and possibly other proteins to yield
deacetylated histones/other proteins. Mycoplana ramosa
APAH exhibits broad substrate specificity and catalyzes
the deacetylation of polyamines such as putrescine,
spermidine, and spermine by cleavage of a non-peptide
amide bond.
Length = 298
Score = 28.3 bits (64), Expect = 2.0
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 23 VAVILEGGYCLKSLAEGAALTLRALL 48
+ EGGY + +L A L
Sbjct: 273 TVFVQEGGYNVDALGRNAVAFLAGFE 298
>gnl|CDD|193547 cd05672, M20_ACY1L2_like, M20 Peptidase Aminoacylase 1-like protein
2-like, amidohydrolase subfamily. Peptidase M20 family,
Aminoacylase 1-like protein 2 (ACY1L2;
amidohydrolase)-like subfamily. This group contains many
uncharacterized proteins predicted as amidohydrolases,
including gene products of abgA and abgB that catalyze
the cleavage of p-aminobenzoyl-glutamate, a folate
catabolite in Escherichia coli , to p-aminobenzoate and
glutamate. p-Aminobenzoyl-glutamate utilization is
catalyzed by the abg region gene product, AbgT.
Aminoacylase 1 (ACY1) proteins are a class of zinc
binding homodimeric enzymes involved in hydrolysis of
N-acetylated proteins. N-terminal acetylation of
proteins is a widespread and highly conserved process
that is involved in the protection and stability of
proteins. Several types of aminoacylases can be
distinguished on the basis of substrate specificity.
ACY1 breaks down cytosolic aliphatic N-acyl-alpha-amino
acids (except L-aspartate), especially
N-acetyl-methionine and acetyl-glutamate into L-amino
acids and an acyl group. However, ACY1 can also catalyze
the reverse reaction, the synthesis of acetylated amino
acids. ACY1 may also play a role in xenobiotic
bioactivation as well as the inter-organ processing of
amino acid-conjugated xenobiotic derivatives
(S-substituted-N-acetyl-L-cysteine).
Length = 358
Score = 27.8 bits (63), Expect = 2.6
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 39 GAALTLRALLDDPCPNFETLGTPSE 63
GAAL L+ LD+ LGTP+E
Sbjct: 93 GAALALKKALDELGGTVVVLGTPAE 117
>gnl|CDD|216012 pfam00590, TP_methylase, Tetrapyrrole (Corrin/Porphyrin)
Methylases. This family uses S-AdoMet in the
methylation of diverse substrates. This family includes
a related group of bacterial proteins of unknown
function. This family includes the methylase Dipthine
synthase.
Length = 202
Score = 27.7 bits (62), Expect = 2.9
Identities = 18/65 (27%), Positives = 22/65 (33%), Gaps = 2/65 (3%)
Query: 2 DITPACYAHLLNSLTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCPNFETLGTP 61
L G V+L + L +AE L D P E LGTP
Sbjct: 132 LHGRGLETLRARLLEALLAGDTLVLLTDPHRLAEIAE--LLLELGDDDTPVAVVENLGTP 189
Query: 62 SERIL 66
ERI+
Sbjct: 190 DERII 194
>gnl|CDD|212522 cd09998, HDAC_Hos3, Class II histone deacetylases Hos3 and related
proteins. Fungal histone deacetylase Hos3 from
Saccharomyces cerevisiae is a Zn-dependent enzyme
belonging to HDAC class II. It catalyzes hydrolysis of
an N(6)-acetyl-lysine residue of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
Histone deacetylases usually act via association with
DNA binding proteins to target specific chromatin
regions. Hos3 deacetylase is homodimer, in vitro it
shows specificity to H4, H3 and H2A.
Length = 353
Score = 27.8 bits (62), Expect = 2.9
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 18 FAQGKVAVILEGGYCLKSLAEGAALTLRAL 47
A G++ +LEGGY ++L G L L
Sbjct: 323 HAHGRLISVLEGGYSDRALCSGVLAHLTGL 352
>gnl|CDD|237306 PRK13208, valS, valyl-tRNA synthetase; Reviewed.
Length = 800
Score = 27.5 bits (62), Expect = 4.5
Identities = 10/31 (32%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 125 QEIYATRDCYPIQSQEFVRLCDERLDSLIAK 155
++ Y R I +EF+ LC E D K
Sbjct: 96 EKYYGIR-KDDISREEFIELCRELTDEDEKK 125
>gnl|CDD|172630 PRK14141, PRK14141, heat shock protein GrpE; Provisional.
Length = 209
Score = 26.6 bits (59), Expect = 5.7
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 33 LKSLAEGAALTLRALL 48
LK+L EG +T RA+L
Sbjct: 113 LKALIEGVEMTERAML 128
>gnl|CDD|235744 PRK06213, PRK06213, enoyl-CoA hydratase; Provisional.
Length = 229
Score = 26.9 bits (60), Expect = 6.0
Identities = 18/69 (26%), Positives = 27/69 (39%), Gaps = 17/69 (24%)
Query: 2 DITPACYAHLLNSLTGFAQGKVAVILEG-------GYCLKSLAEG--AALTL-------- 44
++PA L +L + V++ G G+ LK + G AA+ L
Sbjct: 25 ALSPAMIDALNAALDQAEDDRAVVVITGQPGIFSGGFDLKVMTSGAQAAIALLTAGSTLA 84
Query: 45 RALLDDPCP 53
R LL P P
Sbjct: 85 RRLLSHPKP 93
>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 484
Score = 26.8 bits (59), Expect = 6.7
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 55 FETLGTPSERILFIYALLSFSSITETILN 83
+TL P I+FI A F I ETIL+
Sbjct: 142 LKTLEEPPAHIVFILATTEFHKIPETILS 170
>gnl|CDD|224944 COG2033, COG2033, Desulfoferrodoxin [Energy production and
conversion].
Length = 126
Score = 25.9 bits (57), Expect = 8.8
Identities = 11/47 (23%), Positives = 15/47 (31%)
Query: 87 EHRPYWNCYKFQDISTEGVQSTPLHIPRAEFKYEGNPKQEIYATRDC 133
EH W F + TP P A F + ++ A C
Sbjct: 67 EHHIAWIELYFGPDLVGRKELTPHTKPEATFTVKAPKSGKLRALSYC 113
>gnl|CDD|183106 PRK11375, PRK11375, allantoin permease; Provisional.
Length = 484
Score = 26.3 bits (58), Expect = 9.4
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 15 LTGFAQGKVAVILEGGYCLKSLAEGAALTLRALLDDPCPNFETLG 59
G +G +A I + L+ A +L L L+ P F TLG
Sbjct: 106 FPGLLRGGIAAI--MWFGLQCYA--GSLALLILIGKIWPGFLTLG 146
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
0.322 0.138 0.423
Gapped
Lambda K H
0.267 0.0842 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,499,144
Number of extensions: 754740
Number of successful extensions: 569
Number of sequences better than 10.0: 1
Number of HSP's gapped: 563
Number of HSP's successfully gapped: 33
Length of query: 170
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 80
Effective length of database: 6,945,742
Effective search space: 555659360
Effective search space used: 555659360
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: 55 (24.8 bits)