RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8693
(282 letters)
>gnl|CDD|212534 cd10010, HDAC1, Histone deacetylase 1 (HDAC1). Histone deacetylase
1 (HDAC1) is a Zn-dependent class I 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. HDAC1 is involved in regulation through
association with DNA binding proteins to target specific
chromatin regions. In particular, HDAC1 appears to play
a major role in pre-implantation embryogenesis in
establishing a repressive chromatin state. Its
interaction with retinoblastoma tumor-suppressor protein
is essential in the control of cell proliferation and
differentiation. Together with metastasis-associated
protein-2 (MTA2), it deacetylates p53, thereby
modulating its effect on cell growth and apoptosis. It
participates in DNA-damage response, along with HDAC2;
together, they promote DNA non-homologous end-joining.
HDAC1 is also involved in tumorogenesis; its
overexpression modulates cancer progression. Specific
inhibitors of HDAC1 are currently used in cancer
therapy.
Length = 371
Score = 309 bits (793), Expect = e-105
Identities = 141/165 (85%), Positives = 153/165 (92%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D +DIGAGKGKYYAVN PLRDG+DDESYE+IF P++SKVME FQPSAVVLQCGADSL+GD
Sbjct: 207 DLRDIGAGKGKYYAVNYPLRDGIDDESYEAIFKPVMSKVMEMFQPSAVVLQCGADSLSGD 266
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
RLGCFNLT++GH KCVEFVK +NLP LM+GGGGYTIRNV+RCWTYET+VAL SEI NELP
Sbjct: 267 RLGCFNLTIKGHAKCVEFVKSFNLPMLMLGGGGYTIRNVARCWTYETAVALDSEIPNELP 326
Query: 144 YNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLP 188
YNDYFEYFGPDFKLHISPSNM NQNT EYLEKIK RLFENLRMLP
Sbjct: 327 YNDYFEYFGPDFKLHISPSNMTNQNTNEYLEKIKQRLFENLRMLP 371
Score = 127 bits (320), Expect = 2e-34
Identities = 57/68 (83%), Positives = 65/68 (95%)
Query: 211 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 270
+DIGAGKGKYYAVN PLRDG+DDESYE+IF P++SKVME FQPSAVVLQCGADSL+GDRL
Sbjct: 209 RDIGAGKGKYYAVNYPLRDGIDDESYEAIFKPVMSKVMEMFQPSAVVLQCGADSLSGDRL 268
Query: 271 GCFNLTVR 278
GCFNLT++
Sbjct: 269 GCFNLTIK 276
>gnl|CDD|212535 cd10011, HDAC2, Histone deacetylase 2 (HDAC2). Histone deacetylase
2 (HDAC2) is a Zn-dependent class I 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. HDAC2 is involved in regulation through
association with DNA binding proteins to target specific
chromatin regions. It forms transcriptional repressor
complexes by associating with several proteins,
including the mammalian zinc-finger transcription factor
YY1, thus playing an important role in transcriptional
regulation, cell cycle progression and developmental
events. Additionally, a few non-histone HDAC2 substrates
have been found. HDAC2 plays a role in embryonic
development and cytokine signaling important for immune
response, and is over-expressed in several solid tumors
including oral, prostate, ovarian, endometrial and
gastric cancer. It participates in DNA-damage response,
along with HDAC1; together, they can promote DNA
non-homologous end-joining. HDAC2 is considered an
important cancer prognostic marker. Inhibitors
specifically targeting HDAC2 could be a therapeutic drug
option.
Length = 366
Score = 304 bits (780), Expect = e-103
Identities = 140/177 (79%), Positives = 151/177 (85%), Gaps = 4/177 (2%)
Query: 11 IVNDRDQTWDLLHDKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSA 70
T DL +DIGAGKGKYYAVN P+RDG+DDESY IF PIISKVME +QPSA
Sbjct: 194 YGEYFPGTGDL----RDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSA 249
Query: 71 VVLQCGADSLTGDRLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYET 130
VVLQCGADSL+GDRLGCFNLTV+GH KCVE VK +NLP LM+GGGGYTIRNV+RCWTYET
Sbjct: 250 VVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTIRNVARCWTYET 309
Query: 131 SVALGSEIANELPYNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRML 187
+VAL EI NELPYNDYFEYFGPDFKLHISPSNM NQNTPEY+EKIK RLFENLRML
Sbjct: 310 AVALDCEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQRLFENLRML 366
Score = 125 bits (316), Expect = 7e-34
Identities = 57/68 (83%), Positives = 63/68 (92%)
Query: 211 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 270
+DIGAGKGKYYAVN P+RDG+DDESY IF PIISKVME +QPSAVVLQCGADSL+GDRL
Sbjct: 205 RDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRL 264
Query: 271 GCFNLTVR 278
GCFNLTV+
Sbjct: 265 GCFNLTVK 272
>gnl|CDD|212529 cd10005, HDAC3, Histone deacetylase 3 (HDAC3). HDAC3 is a
Zn-dependent class I histone deacetylase 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.
In order to target specific chromatin regions, HDAC3 can
interact with DNA-binding proteins (transcriptional
factors) either directly or after forming complexes with
a number of other proteins, as observed for the
SMPT/N-CoR complex which recruits human HDAC3 to
specific chromatin loci and activates deacetylation.
Human HDAC3 is also involved in deacetylation of
non-histone substrates such as RelA, SPY and p53
factors. This protein can also down-regulate p53
function and subsequently modulate cell growth and
apoptosis. This gene is therefore regarded as a
potential tumor suppressor gene. HDAC3 plays a role in
various physiological processes, including subcellular
protein localization, cell cycle progression, cell
differentiation, apoptosis and survival. HDAC3 has been
found to be overexpressed in some tumors including
leukemia, lung carcinoma, colon cancer and maxillary
carcinoma. Thus, inhibitors precisely targeting HDAC3
(in some cases together with retinoic acid or
hyperthermia) could be a therapeutic drug option.
Length = 381
Score = 286 bits (735), Expect = 5e-96
Identities = 105/177 (59%), Positives = 145/177 (81%), Gaps = 1/177 (0%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D ++GA G+YY+VN+PL+DG+DD+SY +F P+I +V++ +QP+ +VLQCGADSL D
Sbjct: 203 DMYEVGAESGRYYSVNVPLKDGIDDQSYLQLFKPVIQQVIDFYQPTCIVLQCGADSLGCD 262
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
RLGCFNL+++GHG+CVEFVK +N+P L++GGGGYT+RNV+RCWTYETS+ + EI+NELP
Sbjct: 263 RLGCFNLSIKGHGECVEFVKSFNIPLLVLGGGGYTVRNVARCWTYETSLLVDEEISNELP 322
Query: 144 YNDYFEYFGPDFKLHIS-PSNMANQNTPEYLEKIKTRLFENLRMLPHAPGVQVQVSP 199
YN+YFEYF PDF LH + + NQN+ +YL++I+ +FENL+ML HAP VQ+Q P
Sbjct: 323 YNEYFEYFAPDFTLHPDVSTRIENQNSKQYLDQIRQTVFENLKMLNHAPSVQMQDVP 379
Score = 120 bits (302), Expect = 1e-31
Identities = 38/67 (56%), Positives = 57/67 (85%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
++GA G+YY+VN+PL+DG+DD+SY +F P+I +V++ +QP+ +VLQCGADSL DRLG
Sbjct: 206 EVGAESGRYYSVNVPLKDGIDDQSYLQLFKPVIQQVIDFYQPTCIVLQCGADSLGCDRLG 265
Query: 272 CFNLTVR 278
CFNL+++
Sbjct: 266 CFNLSIK 272
>gnl|CDD|212528 cd10004, RPD3-like, reduced potassium dependency-3 (RPD3)-like.
Proteins of the Rpd3-like family are class I
Zn-dependent Histone deacetylases that catalyze
hydrolysis of an N(6)-acetyl-lysine residue of a histone
to yield a deacetylated histone (EC 3.5.1.98). RPD3 is
the yeast homolog of class I HDACs. The main function of
RPD3-like group members is regulation of a number of
different processes through protein (mostly different
histones) modification (deacetylation). This group
includes fungal RPD3 and acts via the formation of large
multiprotein complexes. Members of this group are
involved in cell cycle regulation, DNA damage response,
embryonic development and cytokine signaling important
for immune response. Histone deacetylation by yeast RPD3
represses genes regulated by the Ash1 and Ume6
DNA-binding proteins. In mammals, they are known to be
involved in progression of various tumors. Specific
inhibitors of mammalian histone deacetylases could be a
therapeutic drug option.
Length = 375
Score = 278 bits (713), Expect = 8e-93
Identities = 109/171 (63%), Positives = 138/171 (80%)
Query: 26 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 85
+DIG G GK YAVN+PLRDG+DDESY+SIF P+I VME +QP AVVLQCG DSL+GDRL
Sbjct: 205 RDIGIGTGKNYAVNVPLRDGIDDESYKSIFEPVIKHVMEWYQPEAVVLQCGGDSLSGDRL 264
Query: 86 GCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELPYN 145
GCFNL+++GH CV FVK +NLP L++GGGGYT+RNV+R W +ET + G E+ +LPYN
Sbjct: 265 GCFNLSMKGHANCVNFVKSFNLPMLVLGGGGYTMRNVARTWAFETGLLAGEELDKDLPYN 324
Query: 146 DYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLPHAPGVQVQ 196
+Y+EY+GPD++L++ PSNM N NTPEYL+KI T + ENLR AP VQ+Q
Sbjct: 325 EYYEYYGPDYELNVRPSNMENHNTPEYLDKITTAVIENLRNTSFAPSVQMQ 375
Score = 123 bits (311), Expect = 6e-33
Identities = 49/68 (72%), Positives = 59/68 (86%)
Query: 211 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 270
+DIG G GK YAVN+PLRDG+DDESY+SIF P+I VME +QP AVVLQCG DSL+GDRL
Sbjct: 205 RDIGIGTGKNYAVNVPLRDGIDDESYKSIFEPVIKHVMEWYQPEAVVLQCGGDSLSGDRL 264
Query: 271 GCFNLTVR 278
GCFNL+++
Sbjct: 265 GCFNLSMK 272
>gnl|CDD|240251 PTZ00063, PTZ00063, histone deacetylase; Provisional.
Length = 436
Score = 274 bits (703), Expect = 2e-90
Identities = 106/178 (59%), Positives = 140/178 (78%), Gaps = 2/178 (1%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D DIG +GKYY+VN+PL DG+DD+S+ +F P+ISK +E ++P A+VLQCGADSLTGD
Sbjct: 207 DVTDIGVAQGKYYSVNVPLNDGIDDDSFVDLFKPVISKCVEVYRPGAIVLQCGADSLTGD 266
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALG--SEIANE 141
RLG FNLT++GH CVEFV+ N+P L++GGGGYTIRNV+RCW YET V L E++++
Sbjct: 267 RLGRFNLTIKGHAACVEFVRSLNIPLLVLGGGGYTIRNVARCWAYETGVILNKHDEMSDQ 326
Query: 142 LPYNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENLRMLPHAPGVQVQVSP 199
+ NDY++Y+ PDF+LH+ PSN+ N N+PE+LEKIK ++ ENLR L HAPGVQ P
Sbjct: 327 ISLNDYYDYYAPDFQLHLQPSNIPNYNSPEHLEKIKVKILENLRYLEHAPGVQFAYVP 384
Score = 112 bits (283), Expect = 1e-28
Identities = 43/67 (64%), Positives = 57/67 (85%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
DIG +GKYY+VN+PL DG+DD+S+ +F P+ISK +E ++P A+VLQCGADSLTGDRLG
Sbjct: 210 DIGVAQGKYYSVNVPLNDGIDDDSFVDLFKPVISKCVEVYRPGAIVLQCGADSLTGDRLG 269
Query: 272 CFNLTVR 278
FNLT++
Sbjct: 270 RFNLTIK 276
>gnl|CDD|212517 cd09991, HDAC_classI, Class I histone deacetylases. Class I
histone deacetylases (HDACs) are Zn-dependent enzymes
that catalyze hydrolysis of N(6)-acetyl-lysine residues
in histone amino termini to yield a deacetylated histone
(EC 3.5.1.98). Enzymes belonging to this group
participate in regulation of a number of processes
through protein (mostly different histones) modification
(deacetylation). Class I histone deacetylases in general
act via the formation of large multiprotein complexes.
This group includes animal HDAC1, HDAC2, HDAC3, HDAC8,
fungal RPD3, HOS1 and HOS2, plant HDA9, protist,
archaeal and bacterial (AcuC) deacetylases. Members of
this class are involved in cell cycle regulation, DNA
damage response, embryonic development, cytokine
signaling important for immune response and in
posttranslational control of the acetyl coenzyme A
synthetase. In mammals, they are known to be involved in
progression of various tumors. Specific inhibitors of
mammalian histone deacetylases are an emerging class of
promising novel anticancer drugs.
Length = 306
Score = 231 bits (592), Expect = 3e-75
Identities = 82/110 (74%), Positives = 99/110 (90%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
+DIGAGKGKYYAVN+PL+DG+DDESY IF P++SKVME FQPSAVVLQCGADSL GD
Sbjct: 197 GLRDIGAGKGKYYAVNVPLKDGIDDESYLQIFEPVLSKVMEVFQPSAVVLQCGADSLAGD 256
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVA 133
RLGCFNL+++GH KCV+FVK +N+P L++GGGGYT+RNV+RCWTYET+V
Sbjct: 257 RLGCFNLSIKGHAKCVKFVKSFNIPLLVLGGGGYTLRNVARCWTYETAVL 306
Score = 144 bits (366), Expect = 2e-41
Identities = 54/67 (80%), Positives = 62/67 (92%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
DIGAGKGKYYAVN+PL+DG+DDESY IF P++SKVME FQPSAVVLQCGADSL GDRLG
Sbjct: 200 DIGAGKGKYYAVNVPLKDGIDDESYLQIFEPVLSKVMEVFQPSAVVLQCGADSLAGDRLG 259
Query: 272 CFNLTVR 278
CFNL+++
Sbjct: 260 CFNLSIK 266
>gnl|CDD|212524 cd10000, HDAC8, Histone deacetylase 8 (HDAC8). HDAC8 is a
Zn-dependent class I histone deacetylase 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. HDAC8 is found in human cytoskeleton-bound
protein fraction and insoluble cell pellets. It plays a
crucial role in intramembraneous bone formation;
germline deletion of HDAC8 is detrimental to skull bone
formation. HDAC8 is possibly associated with the smooth
muscle actin cytockeleton and may regulate the
contractive capacity of smooth muscle cells. HDAC8 is
also involved in the metabolic control of the estrogen
receptor related receptor (ERR)-alpha/peroxisome
proliferator activated receptor (PPAR) gamma coactivator
1 alpha (PGC1-alpha) transcriptional complex as well as
in the development of neuroblastoma and T-cell lymphoma.
HDAC8-selective small-molecule inhibitors could be a
therapeutic drug option for these diseases.
Length = 364
Score = 213 bits (544), Expect = 2e-67
Identities = 79/161 (49%), Positives = 114/161 (70%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D D+G GKGKYY VN+PLRDG+ DE Y IF ++ +++ F+P AVVLQCGAD+L GD
Sbjct: 200 DVSDVGLGKGKYYTVNVPLRDGIQDEQYLQIFTAVVPEIVAAFRPEAVVLQCGADTLAGD 259
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELP 143
+G FNLT G GKC+++V + LP L++GGGGY + N +RCWTY T + LG +++++P
Sbjct: 260 PMGAFNLTPVGIGKCLKYVLGWKLPTLILGGGGYNLANTARCWTYLTGLILGEPLSSDIP 319
Query: 144 YNDYFEYFGPDFKLHISPSNMANQNTPEYLEKIKTRLFENL 184
+++F +GPD++L ISPS + N +Y+EKI + NL
Sbjct: 320 DHEFFTSYGPDYELEISPSLRPDLNEDQYIEKILETIKGNL 360
Score = 105 bits (265), Expect = 2e-26
Identities = 39/66 (59%), Positives = 50/66 (75%)
Query: 211 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 270
D+G GKGKYY VN+PLRDG+ DE Y IF ++ +++ F+P AVVLQCGAD+L GD +
Sbjct: 202 SDVGLGKGKYYTVNVPLRDGIQDEQYLQIFTAVVPEIVAAFRPEAVVLQCGADTLAGDPM 261
Query: 271 GCFNLT 276
G FNLT
Sbjct: 262 GAFNLT 267
>gnl|CDD|212540 cd11598, HDAC_Hos2, Class I histone deacetylases including ScHos2
and SpPhd1. This subfamily includes Class I histone
deacetylase (HDAC) Hos2 from Saccharomyces cerevisiae as
well as a histone deacetylase Phd1 from
Schizosaccharomyces pombe. Hos2 binds to the coding
regions of genes during gene activation, specifically it
deacetylates the lysines in H3 and H4 histone tails. It
is preferentially associated with genes of high activity
genome-wide and is shown to be necessary for efficient
transcription. Thus, Hos2 is directly required for gene
activation in contrast to other class I histone
deacetylases. Protein encoded by phd1 is inhibited by
trichostatin A (TSA), a specific inhibitor of histone
deacetylase, and is involved in the meiotic cell cycle
in S. pombe. Class 1 HDACs are Zn-dependent enzymes that
catalyze hydrolysis of N(6)-acetyl-lysine residues in
histone amino termini to yield a deacetylated histone
(EC 3.5.1.98).
Length = 311
Score = 182 bits (463), Expect = 6e-56
Identities = 67/110 (60%), Positives = 83/110 (75%)
Query: 24 DKQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 83
D D G GK++A+N+PL DG+DDE Y +F II +E FQPSA+VLQCGADSL GD
Sbjct: 202 DLDDNGGTPGKHFALNVPLEDGIDDEQYNLLFKSIIGPTIEKFQPSAIVLQCGADSLGGD 261
Query: 84 RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVA 133
RLG FNL ++ HG CV+FVK + +P L+VGGGGYT RNV+R W YET+VA
Sbjct: 262 RLGQFNLNIKAHGACVKFVKSFGIPMLVVGGGGYTPRNVARAWCYETAVA 311
Score = 106 bits (266), Expect = 5e-27
Identities = 40/67 (59%), Positives = 50/67 (74%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
D G GK++A+N+PL DG+DDE Y +F II +E FQPSA+VLQCGADSL GDRLG
Sbjct: 205 DNGGTPGKHFALNVPLEDGIDDEQYNLLFKSIIGPTIEKFQPSAIVLQCGADSLGGDRLG 264
Query: 272 CFNLTVR 278
FNL ++
Sbjct: 265 QFNLNIK 271
>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 = 134 bits (338), Expect = 1e-37
Identities = 51/107 (47%), Positives = 62/107 (57%), Gaps = 2/107 (1%)
Query: 29 GAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLGCF 88
G GKGK Y +N+PL DG+ DE Y +ISKV+E F+P VVLQ G D+ GDRLG F
Sbjct: 173 GRGKGKGYKINVPLEDGLGDEEYLDAVERVISKVLEEFEPEVVVLQFGHDTHEGDRLGGF 232
Query: 89 NLTVRGHGKCVEFVKRYN--LPFLMVGGGGYTIRNVSRCWTYETSVA 133
NL+ +G K E VK + P LMV GGGY +R WT
Sbjct: 233 NLSEKGFVKLAEIVKEFARGGPILMVLGGGYNPEAAARIWTAIIKEL 279
Score = 92.9 bits (231), Expect = 3e-22
Identities = 37/73 (50%), Positives = 46/73 (63%), Gaps = 1/73 (1%)
Query: 206 WYDPYQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSL 265
YD G GKGK Y +N+PL DG+ DE Y +ISKV+E F+P VVLQ G D+
Sbjct: 166 NYD-IYPFGRGKGKGYKINVPLEDGLGDEEYLDAVERVISKVLEEFEPEVVVLQFGHDTH 224
Query: 266 TGDRLGCFNLTVR 278
GDRLG FNL+ +
Sbjct: 225 EGDRLGGFNLSEK 237
>gnl|CDD|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional.
Length = 429
Score = 130 bits (327), Expect = 5e-35
Identities = 57/120 (47%), Positives = 82/120 (68%), Gaps = 4/120 (3%)
Query: 26 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 85
+D+G G+G+YY++N+ + DG+ D Y +F + ++ + P A+VLQCGADSL GDRL
Sbjct: 227 RDVGYGRGRYYSMNLAVWDGITDFYYLGLFEHALHSIVRRYSPDAIVLQCGADSLAGDRL 286
Query: 86 GCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANELPYN 145
G NL+ GHG+CV+ V+ +P L +GGGGYTIRNV++ W YETS+ G + LP N
Sbjct: 287 GLLNLSSFGHGQCVQAVRDLGIPMLALGGGGYTIRNVAKLWAYETSILTG----HPLPPN 342
Score = 73.5 bits (180), Expect = 7e-15
Identities = 30/66 (45%), Positives = 46/66 (69%)
Query: 211 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 270
+D+G G+G+YY++N+ + DG+ D Y +F + ++ + P A+VLQCGADSL GDRL
Sbjct: 227 RDVGYGRGRYYSMNLAVWDGITDFYYLGLFEHALHSIVRRYSPDAIVLQCGADSLAGDRL 286
Query: 271 GCFNLT 276
G NL+
Sbjct: 287 GLLNLS 292
>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 = 128 bits (323), Expect = 7e-35
Identities = 40/136 (29%), Positives = 60/136 (44%), Gaps = 8/136 (5%)
Query: 27 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
D + VNIPL G D+SY I+ ++E F+P V++ G D+ GD LG
Sbjct: 199 DEIGEGKEGNNVNIPLPPGTGDDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDPLG 258
Query: 87 CFNLTVRGHGKCVEFVKR----YNLPFLMVGGGGYTIRNVSRCWTYETSVALG---SEIA 139
NLT G+ K V++ Y P + V GGY + ++R + G E+
Sbjct: 259 RLNLTEEGYAKIGRAVRKLAEGYGGPVVAVLEGGYNLDALARSLVAFLAGLAGLVEEELE 318
Query: 140 NELPYN-DYFEYFGPD 154
LP + + F D
Sbjct: 319 EPLPEDLELRRAFRAD 334
Score = 84.7 bits (210), Expect = 6e-19
Identities = 24/70 (34%), Positives = 33/70 (47%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
D + VNIPL G D+SY I+ ++E F+P V++ G D+ GD
Sbjct: 197 GADEIGEGKEGNNVNIPLPPGTGDDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDP 256
Query: 270 LGCFNLTVRD 279
LG NLT
Sbjct: 257 LGRLNLTEEG 266
>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 = 126 bits (319), Expect = 1e-34
Identities = 35/112 (31%), Positives = 53/112 (47%), Gaps = 4/112 (3%)
Query: 27 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
+ G G G+ Y +NIPL G DE Y + F I+ + FQP +++ G D+ GD LG
Sbjct: 189 ETGEGAGEGYTLNIPLPPGTGDEEYLAAFEEILLPALREFQPDLILVSAGFDAHAGDPLG 248
Query: 87 CFNLTVRGHGKCVEFVKR----YNLPFLMVGGGGYTIRNVSRCWTYETSVAL 134
NLT G+ + + Y P + V GGY + ++R + L
Sbjct: 249 GLNLTTEGYAERTRLLLELADAYGGPVVSVLEGGYNLDALARSAAAVLAGLL 300
Score = 88.4 bits (220), Expect = 2e-20
Identities = 26/69 (37%), Positives = 36/69 (52%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
+ G G G+ Y +NIPL G DE Y + F I+ + FQP +++ G D+ GD LG
Sbjct: 189 ETGEGAGEGYTLNIPLPPGTGDEEYLAAFEEILLPALREFQPDLILVSAGFDAHAGDPLG 248
Query: 272 CFNLTVRDC 280
NLT
Sbjct: 249 GLNLTTEGY 257
>gnl|CDD|212543 cd11680, HDAC_Hos1, Class I histone deacetylases Hos1 and related
proteins. Saccharomyces cerevisiae Hos1 is responsible
for Smc3 deacetylation. Smc3 is an important player
during the establishment of sister chromatid cohesion.
Hos1 belongs to the class I histone deacetylases
(HDACs). HDACs are Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine residues in histone
amino termini to yield a deacetylated histone (EC
3.5.1.98). Enzymes belonging to this group participate
in regulation of a number of processes through protein
(mostly different histones) modification
(deacetylation). Class I histone deacetylases in general
act via the formation of large multiprotein complexes.
Other class I HDACs are animal HDAC1, HDAC2, HDAC3,
HDAC8, fungal RPD3 and HOS2, plant HDA9, protist,
archaeal and bacterial (AcuC) deacetylases. Members of
this class are involved in cell cycle regulation, DNA
damage response, embryonic development, cytokine
signaling important for immune response and in
posttranslational control of the acetyl coenzyme A
synthetase.
Length = 294
Score = 115 bits (291), Expect = 1e-30
Identities = 39/103 (37%), Positives = 62/103 (60%), Gaps = 2/103 (1%)
Query: 33 GKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLGCFNLTV 92
+NIPL+ G+ D++ I I+ ++E F+P +V+QCG D L+GD +NLT+
Sbjct: 192 SDKGMLNIPLKRGLSDKTLLRIIDSIVRPLIEKFEPEVIVIQCGCDGLSGDPHKEWNLTI 251
Query: 93 RGHGKCVEFVKR--YNLPFLMVGGGGYTIRNVSRCWTYETSVA 133
RG+G +E + + + P L++GGGGY +R WTY TS+
Sbjct: 252 RGYGSVIELLLKEFKDKPTLLLGGGGYNHTEAARAWTYLTSMV 294
Score = 73.8 bits (182), Expect = 3e-15
Identities = 23/61 (37%), Positives = 37/61 (60%)
Query: 218 GKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLGCFNLTV 277
+NIPL+ G+ D++ I I+ ++E F+P +V+QCG D L+GD +NLT+
Sbjct: 192 SDKGMLNIPLKRGLSDKTLLRIIDSIVRPLIEKFEPEVIVIQCGCDGLSGDPHKEWNLTI 251
Query: 278 R 278
R
Sbjct: 252 R 252
>gnl|CDD|212520 cd09994, HDAC_AcuC_like, Class I histone deacetylase AcuC (Acetoin
utilization protein)-like enzymes. AcuC (Acetoin
utilization protein) is a class I deacetylase found only
in bacteria and is involved in post-translational
control of the acetyl-coenzyme A synthetase (AcsA).
Deacetylase AcuC works in coordination with deacetylase
SrtN (class III), possibly to maintain AcsA in active
(deacetylated) form and let the cell grow under low
concentration of acetate. B. subtilis AcuC is a member
of operon acuABC; this operon is repressed by the
presence of glucose and does not show induction by
acetoin; acetoin is a bacterial fermentation product
that can be converted to acetate via the butanediol
cycle in absence of other carbon sources. Inactivation
of AcuC leads to slower growth and lower cell yield
under low-acetate conditions in Bacillus subtilis. In
general, Class I histone deacetylases (HDACs) are
Zn-dependent enzymes that catalyze hydrolysis of
N(6)-acetyl-lysine residues in histone amino termini to
yield a deacetylated histone (EC 3.5.1.98). Enzymes
belonging to this group participate in regulation of a
number of processes through protein (mostly different
histones) modification (deacetylation). Class I histone
deacetylases in general act via the formation of large
multiprotein complexes. Members of this class are
involved in cell cycle regulation, DNA damage response,
embryonic development, cytokine signaling important for
immune response and in posttranslational control of the
acetyl coenzyme A synthetase.
Length = 313
Score = 111 bits (280), Expect = 7e-29
Identities = 37/107 (34%), Positives = 55/107 (51%), Gaps = 5/107 (4%)
Query: 26 QDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRL 85
+IG G+G YAVNIPL G D+ + F ++ ++ F+P +V Q GAD+ GD L
Sbjct: 201 DEIGEGEGYGYAVNIPLPPGTGDDEFLRAFEAVVPPLLRAFRPDVIVSQHGADAHAGDPL 260
Query: 86 GCFNLTVRGHGKCVEFVKRY-----NLPFLMVGGGGYTIRNVSRCWT 127
NL+ R + V ++ +L +GGGGY V+R W
Sbjct: 261 THLNLSNRAYRAAVRRIRELADEYCGGRWLALGGGGYNPDVVARAWA 307
Score = 73.4 bits (181), Expect = 6e-15
Identities = 27/69 (39%), Positives = 39/69 (56%)
Query: 210 YQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDR 269
+IG G+G YAVNIPL G D+ + F ++ ++ F+P +V Q GAD+ GD
Sbjct: 200 VDEIGEGEGYGYAVNIPLPPGTGDDEFLRAFEAVVPPLLRAFRPDVIVSQHGADAHAGDP 259
Query: 270 LGCFNLTVR 278
L NL+ R
Sbjct: 260 LTHLNLSNR 268
>gnl|CDD|212513 cd09987, Arginase_HDAC, Arginase-like and histone-like hydrolases.
Arginase-like/histone-like hydrolase superfamily
includes metal-dependent enzymes that belong to
Arginase-like amidino hydrolase family and
histone/histone-like deacetylase class I, II, IV family,
respectively. These enzymes catalyze hydrolysis of amide
bond. Arginases are known to be involved in control of
cellular levels of arginine and ornithine, in histidine
and arginine degradation and in clavulanic acid
biosynthesis. Deacetylases play a role in signal
transduction through histone and/or other protein
modification and can repress/activate transcription of a
number of different genes. They participate in different
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. Mammalian histone deacetyases 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 = 217
Score = 81.3 bits (201), Expect = 2e-18
Identities = 20/119 (16%), Positives = 33/119 (27%), Gaps = 13/119 (10%)
Query: 25 KQDIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD- 83
+ GA K V + + D +F I+S + + V L D L
Sbjct: 102 GEAGGAYARKLGVVYFSMTEV-DKLGLGDVFEEIVSYLG--DKGDNVYLSVDVDGLDPSF 158
Query: 84 -----RLGCFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTI----RNVSRCWTYETSVA 133
G L+ R E + + NL + + +R T
Sbjct: 159 APGTGTPGPGGLSYREGLYITERIAKTNLVVGLDIVEVNPLLDETGRTARLAAALTLEL 217
Score = 54.7 bits (132), Expect = 6e-09
Identities = 18/104 (17%), Positives = 30/104 (28%), Gaps = 16/104 (15%)
Query: 189 HAPGVQVQVSPIIGPILW-------YDPYQDIGAGKGKYYAVNIPLRDGMDDESYESIFV 241
H + P+I + + GA K V + + D +F
Sbjct: 74 HHTPRHLLCEPLISDVHIVSIGIRGVSNGEAGGAYARKLGVVYFSMTEV-DKLGLGDVFE 132
Query: 242 PIISKVMETFQPSAVVLQCGADSLTGD------RLGCFNLTVRD 279
I+S + + V L D L G L+ R+
Sbjct: 133 EIVSYLG--DKGDNVYLSVDVDGLDPSFAPGTGTPGPGGLSYRE 174
>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 = 64.4 bits (158), Expect = 5e-12
Identities = 29/104 (27%), Positives = 48/104 (46%), Gaps = 5/104 (4%)
Query: 27 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
+ G G G+ + +N+PL G D Y + F ++ + FQP V++ G D+ GD LG
Sbjct: 179 ETGGGAGEGFTINVPLPPGSGDAEYLAAFEEVLLPIAREFQPDLVLVSAGFDAHRGDPLG 238
Query: 87 CFNLTVRGHGK----CVEFVKRY-NLPFLMVGGGGYTIRNVSRC 125
NLT G+ + E + + V GGY + ++
Sbjct: 239 GMNLTPEGYARLTRLLKELADEHCGGRLVFVLEGGYNLEALAES 282
Score = 59.4 bits (145), Expect = 3e-10
Identities = 23/68 (33%), Positives = 35/68 (51%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
+ G G G+ + +N+PL G D Y + F ++ + FQP V++ G D+ GD LG
Sbjct: 179 ETGGGAGEGFTINVPLPPGSGDAEYLAAFEEVLLPIAREFQPDLVLVSAGFDAHRGDPLG 238
Query: 272 CFNLTVRD 279
NLT
Sbjct: 239 GMNLTPEG 246
>gnl|CDD|212519 cd09993, HDAC_classIV, Histone deacetylase class IV also known as
histone deacetylase 11. Class IV histone deacetylases
(HDAC11; EC 3.5.1.98) are predicted Zn-dependent
enzymes. This class includes animal HDAC11, plant HDA2
and related bacterial deacetylases. Enzymes in this
subfamily participate in regulation of a number of
different processes through protein modification
(deacetylation). They catalyze hydrolysis of
N(6)-acetyl-lysine of histones (or other proteins) to
yield a deacetylated proteins. Histone deacetylases
often act as members of large multi-protein complexes
such as mSin3A or SMRT/N-CoR. Human HDAC11 does not
associate with them but can interact with HDAC6 in vivo.
It has been suggested that HDAC11 and HDAC6 may use
non-histone proteins as their substrates and play a role
other than to directly modulate chromatin structure. In
normal tissues, expression of HDAC11 is limited to
kidney, heart, brain, skeletal muscle and testis,
suggesting that its function might be tissue-specific.
In mammals, HDAC11 proteins are known to be involved in
progression of various tumors. HDAC11 plays an essential
role in regulating OX40 ligand (OX40L) expression in
Hodgkin lymphoma (HL); selective inhibition of HDAC11
expression significantly up-regulates OX40L and induces
apoptosis in HL cell lines. Thus, inhibition of HDAC11
could be a therapeutic drug option for antitumor immune
response in HL patients.
Length = 275
Score = 62.5 bits (153), Expect = 2e-11
Identities = 30/94 (31%), Positives = 49/94 (52%), Gaps = 11/94 (11%)
Query: 38 VNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLGCFNLTVRGHGK 97
+++PL DG D+ Y + + +++ F+P V G D L GDRLG +L++ G
Sbjct: 177 LDVPLPDGTGDDEYLAALEEALPRLLAEFRPDLVFYNAGVDVLAGDRLGRLSLSLEG--- 233
Query: 98 CVE-------FVKRYNLPFLMVGGGGYTIRNVSR 124
E F + +P MV GGGY+ R+++R
Sbjct: 234 LRERDRLVLRFARARGIPVAMVLGGGYS-RDIAR 266
Score = 49.4 bits (119), Expect = 6e-07
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 223 VNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLGCFNLT 276
+++PL DG D+ Y + + +++ F+P V G D L GDRLG +L+
Sbjct: 177 LDVPLPDGTGDDEYLAALEEALPRLLAEFRPDLVFYNAGVDVLAGDRLGRLSLS 230
>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 = 59.9 bits (146), Expect = 2e-10
Identities = 29/99 (29%), Positives = 48/99 (48%), Gaps = 1/99 (1%)
Query: 27 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
+ G G+G+ Y +N+PL G D+ Y + ++ + F P A+V+ G D+ GD L
Sbjct: 192 ETGEGEGEGYNLNLPLPPGTGDDDYLAALDEALAAIAA-FGPDALVVSLGFDTHEGDPLS 250
Query: 87 CFNLTVRGHGKCVEFVKRYNLPFLMVGGGGYTIRNVSRC 125
F LT + + + LP + V GGY + + R
Sbjct: 251 DFKLTTEDYARIGRRIAALGLPTVFVQEGGYNVDALGRN 289
Score = 48.7 bits (117), Expect = 1e-06
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
+ G G+G+ Y +N+PL G D+ Y + ++ + F P A+V+ G D+ GD L
Sbjct: 192 ETGEGEGEGYNLNLPLPPGTGDDDYLAALDEALAAIAA-FGPDALVVSLGFDTHEGDPLS 250
Query: 272 CFNLTVRD 279
F LT D
Sbjct: 251 DFKLTTED 258
>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 = 58.5 bits (142), Expect = 7e-10
Identities = 31/113 (27%), Positives = 51/113 (45%), Gaps = 2/113 (1%)
Query: 28 IGAGKGKYYAVNIPLRD-GMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
IG G G + VN+PL G+ D Y +IF I+ + FQP V++ G D+ GD G
Sbjct: 197 IGVGHGYGFNVNVPLNQTGLGDADYLAIFHHILLPLALEFQPELVLVSAGFDASIGDPEG 256
Query: 87 CFNLTVRGHGKCVEFVKRYNLPFLMVG-GGGYTIRNVSRCWTYETSVALGSEI 138
+T G+ + L++ GGY + +++ + LG +
Sbjct: 257 EMAVTPAGYAHLTRLLMGLAGGKLLLVLEGGYLLESLAESVSMTLRGLLGDPL 309
Score = 56.2 bits (136), Expect = 5e-09
Identities = 27/75 (36%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 203 PILWYDPYQDIGAGKGKYYAVNIPLRD-GMDDESYESIFVPIISKVMETFQPSAVVLQCG 261
P L+ Y IG G G + VN+PL G+ D Y +IF I+ + FQP V++ G
Sbjct: 187 PHLFESDYDYIGVGHGYGFNVNVPLNQTGLGDADYLAIFHHILLPLALEFQPELVLVSAG 246
Query: 262 ADSLTGDRLGCFNLT 276
D+ GD G +T
Sbjct: 247 FDASIGDPEGEMAVT 261
>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 = 54.7 bits (132), Expect = 1e-08
Identities = 34/121 (28%), Positives = 54/121 (44%), Gaps = 16/121 (13%)
Query: 23 HDKQDIGAGKGKYYAVNIPL-RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLT 81
+D +G GKG+ + VNIP + GM D Y + F ++ + F P V++ G D+
Sbjct: 203 YDV--VGKGKGEGFNVNIPWNKGGMGDAEYIAAFQQVVLPIAYEFNPELVLVSAGFDAAR 260
Query: 82 GDRLGCFNLTVRGHGKCVEFVKRYNLPFLMVGG-------GGYTIRNVSRCWTYETSVAL 134
GD LG +T G+ + + GG GGY + ++S + T L
Sbjct: 261 GDPLGGCKVTPEGYAHMTHMLMS------LAGGRVIVILEGGYNLTSISESMSMCTKTLL 314
Query: 135 G 135
G
Sbjct: 315 G 315
Score = 46.9 bits (112), Expect = 4e-06
Identities = 24/68 (35%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 210 YQDIGAGKGKYYAVNIPL-RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 268
Y +G GKG+ + VNIP + GM D Y + F ++ + F P V++ G D+ GD
Sbjct: 203 YDVVGKGKGEGFNVNIPWNKGGMGDAEYIAAFQQVVLPIAYEFNPELVLVSAGFDAARGD 262
Query: 269 RLGCFNLT 276
LG +T
Sbjct: 263 PLGGCKVT 270
>gnl|CDD|212521 cd09996, HDAC_classII_1, Histone deacetylases and histone-like
deacetylases, classII. This subfamily includes
bacterial as well as eukaryotic 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. Included in this
family is a bacterial HDAC-like amidohydrolase
(Bordetella/Alcaligenes species FB18817, denoted as
FB188 HDAH) shown to be most similar in sequence and
function to class II HDAC6 domain 3 or b (HDAC6b). FB188
HDAH is able to remove the acetyl moiety from acetylated
histones, and can be inhibited by common HDAC inhibitors
such as SAHA (suberoylanilide hydroxamic acid) as well
as class II-specific but not class I specific
inhibitors.
Length = 359
Score = 47.2 bits (113), Expect = 4e-06
Identities = 38/137 (27%), Positives = 52/137 (37%), Gaps = 13/137 (9%)
Query: 27 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
+ G G G+ Y +NIPL G D +Y F I+ + F+P +++ G D+ D LG
Sbjct: 212 ERGEGAGEGYNLNIPLPPGSGDGAYLHAFERIVLPALRAFRPELIIVASGFDASAFDPLG 271
Query: 87 CFNLTVRGHG----KCVEFVKRY---NLPFLMVGGGGYTIRNVSRCW--TYETSVALGSE 137
LT G K + L +MV GGY+ V C E G
Sbjct: 272 RMMLTSDGFRALTRKLRDLADELCGGRL--VMVHEGGYSEAYVPFCGLAVLEE--LSGVR 327
Query: 138 IANELPYNDYFEYFGPD 154
P Y E G
Sbjct: 328 TGIADPLLYYPEAQGGQ 344
Score = 47.2 bits (113), Expect = 4e-06
Identities = 20/60 (33%), Positives = 31/60 (51%)
Query: 212 DIGAGKGKYYAVNIPLRDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
+ G G G+ Y +NIPL G D +Y F I+ + F+P +++ G D+ D LG
Sbjct: 212 ERGEGAGEGYNLNIPLPPGSGDGAYLHAFERIVLPALRAFRPELIIVASGFDASAFDPLG 271
>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 = 45.4 bits (108), Expect = 1e-05
Identities = 24/68 (35%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 210 YQDIGAGKGKYYAVNIPLRD-GMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGD 268
Y+ +G G G + VNIP GM D Y F I+ + F P V++ G D+ GD
Sbjct: 194 YESVGEGAGLGFNVNIPWPQGGMGDADYIYAFQRIVMPIAYEFDPDLVIISAGFDAADGD 253
Query: 269 RLGCFNLT 276
LG ++T
Sbjct: 254 ELGQCHVT 261
Score = 45.0 bits (107), Expect = 2e-05
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 1/70 (1%)
Query: 28 IGAGKGKYYAVNIPLRD-GMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 86
+G G G + VNIP GM D Y F I+ + F P V++ G D+ GD LG
Sbjct: 197 VGEGAGLGFNVNIPWPQGGMGDADYIYAFQRIVMPIAYEFDPDLVIISAGFDAADGDELG 256
Query: 87 CFNLTVRGHG 96
++T G+
Sbjct: 257 QCHVTPAGYA 266
>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 = 44.8 bits (106), Expect = 2e-05
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 24 DKQDIGAGKGKYYAVNIPL-RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 82
D +G G+G+ Y +N+P + GM D Y + F+ ++ V FQP V++ G D++ G
Sbjct: 193 DSSAVGFGRGEGYNINVPWNQVGMRDADYIAAFLHVLLPVALEFQPQLVLVAAGFDAVIG 252
Query: 83 DRLG 86
D G
Sbjct: 253 DPKG 256
Score = 44.1 bits (104), Expect = 4e-05
Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 213 IGAGKGKYYAVNIPL-RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLG 271
+G G+G+ Y +N+P + GM D Y + F+ ++ V FQP V++ G D++ GD G
Sbjct: 197 VGFGRGEGYNINVPWNQVGMRDADYIAAFLHVLLPVALEFQPQLVLVAAGFDAVIGDPKG 256
>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 = 40.6 bits (95), Expect = 5e-04
Identities = 30/101 (29%), Positives = 42/101 (41%), Gaps = 14/101 (13%)
Query: 24 DKQDIGAGKGKYYAVNIPLRD-GMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 82
D +G GKG + +N+P GM + Y + F ++ + F P V++ G DS G
Sbjct: 193 DYDAVGRGKGLGFNINLPWNKVGMGNADYLAAFFHVLLPLAFEFDPELVLVSAGFDSAIG 252
Query: 83 DRLG-------CFN-----LTVRGHGK-CVEFVKRYNLPFL 110
D G CF L V GK C Y+L L
Sbjct: 253 DPEGQMCATPECFAHLTHLLMVLAGGKLCAVLEGGYHLESL 293
Score = 40.2 bits (94), Expect = 6e-04
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 1/75 (1%)
Query: 203 PILWYDPYQDIGAGKGKYYAVNIPLRD-GMDDESYESIFVPIISKVMETFQPSAVVLQCG 261
P L Y +G GKG + +N+P GM + Y + F ++ + F P V++ G
Sbjct: 187 PFLRESDYDAVGRGKGLGFNINLPWNKVGMGNADYLAAFFHVLLPLAFEFDPELVLVSAG 246
Query: 262 ADSLTGDRLGCFNLT 276
DS GD G T
Sbjct: 247 FDSAIGDPEGQMCAT 261
>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 = 39.2 bits (91), Expect = 0.002
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 8/78 (10%)
Query: 26 QDIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLT 81
++GAG G + VNI G+D D Y + F ++ + F P V++ G D++
Sbjct: 230 DEVGAGPGVGFNVNIAWTGGVDPPIGDVEYLTAFRTVVMPIANEFSPDVVLVSAGFDAVE 289
Query: 82 GDR--LGCFNLTVR--GH 95
G + LG +++T + GH
Sbjct: 290 GHQSPLGGYSVTAKCFGH 307
Score = 38.8 bits (90), Expect = 0.002
Identities = 23/78 (29%), Positives = 40/78 (51%), Gaps = 7/78 (8%)
Query: 211 QDIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLT 266
++GAG G + VNI G+D D Y + F ++ + F P V++ G D++
Sbjct: 230 DEVGAGPGVGFNVNIAWTGGVDPPIGDVEYLTAFRTVVMPIANEFSPDVVLVSAGFDAVE 289
Query: 267 GDR--LGCFNLTVRDCSG 282
G + LG +++T + C G
Sbjct: 290 GHQSPLGGYSVTAK-CFG 306
>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 = 38.1 bits (88), Expect = 0.004
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 27 DIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 82
++G G G+ Y +NI G+D D Y F I+ V + F P V++ G D+L G
Sbjct: 229 EVGTGLGEGYNINIAWTGGLDPPMGDVEYLEAFRTIVKPVAKEFDPDMVLVSAGFDALEG 288
Query: 83 DR--LGCFNLTVRGHG 96
LG + +T + G
Sbjct: 289 HTPPLGGYKVTAKCFG 304
Score = 37.7 bits (87), Expect = 0.005
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 212 DIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 267
++G G G+ Y +NI G+D D Y F I+ V + F P V++ G D+L G
Sbjct: 229 EVGTGLGEGYNINIAWTGGLDPPMGDVEYLEAFRTIVKPVAKEFDPDMVLVSAGFDALEG 288
Query: 268 DR--LGCFNLTVRDCSG 282
LG + +T + C G
Sbjct: 289 HTPPLGGYKVTAK-CFG 304
>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 = 37.7 bits (88), Expect = 0.005
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 26 QDIGAGKGKYYAVNIPLRDG----MDDESYESIFVPIISKVMETFQPSAVVLQCGADSLT 81
++G+G G+ + VNI G M D Y + F ++ + F P V++ G D+
Sbjct: 227 TEVGSGAGEGFNVNIAWSGGLDPPMGDAEYLAAFRTVVMPIAREFSPDIVLVSAGFDAAE 286
Query: 82 G--DRLGCFNLT 91
G LG + ++
Sbjct: 287 GHPPPLGGYKVS 298
Score = 37.7 bits (88), Expect = 0.005
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 211 QDIGAGKGKYYAVNIPLRDG----MDDESYESIFVPIISKVMETFQPSAVVLQCGADSLT 266
++G+G G+ + VNI G M D Y + F ++ + F P V++ G D+
Sbjct: 227 TEVGSGAGEGFNVNIAWSGGLDPPMGDAEYLAAFRTVVMPIAREFSPDIVLVSAGFDAAE 286
Query: 267 G--DRLGCFNLT 276
G LG + ++
Sbjct: 287 GHPPPLGGYKVS 298
>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 = 36.2 bits (83), Expect = 0.015
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 27 DIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 82
++G G G + VN+ G+D D Y + F ++ + F P V++ G D++ G
Sbjct: 231 EVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEG 290
Query: 83 D--RLGCFNLTVRGHG 96
LG +NL+ + G
Sbjct: 291 HPTPLGGYNLSAKCFG 306
Score = 35.8 bits (82), Expect = 0.019
Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 212 DIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 267
++G G G + VN+ G+D D Y + F ++ + F P V++ G D++ G
Sbjct: 231 EVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEG 290
Query: 268 D--RLGCFNLTVRDCSG 282
LG +NL+ + C G
Sbjct: 291 HPTPLGGYNLSAK-CFG 306
>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 = 35.4 bits (81), Expect = 0.025
Identities = 20/76 (26%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 27 DIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 82
++GAG G+ + VN+ G+D D Y + F ++ + F P V++ G D+ G
Sbjct: 229 EVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEG 288
Query: 83 D--RLGCFNLTVRGHG 96
LG ++++ + G
Sbjct: 289 HPAPLGGYHVSAKCFG 304
Score = 35.4 bits (81), Expect = 0.031
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 7/77 (9%)
Query: 212 DIGAGKGKYYAVNIPLRDGMD----DESYESIFVPIISKVMETFQPSAVVLQCGADSLTG 267
++GAG G+ + VN+ G+D D Y + F ++ + F P V++ G D+ G
Sbjct: 229 EVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEG 288
Query: 268 D--RLGCFNLTVRDCSG 282
LG ++++ + C G
Sbjct: 289 HPAPLGGYHVSAK-CFG 304
>gnl|CDD|173083 PRK14620, PRK14620, NAD(P)H-dependent glycerol-3-phosphate
dehydrogenase; Provisional.
Length = 326
Score = 30.2 bits (68), Expect = 1.1
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 6/74 (8%)
Query: 130 TSVALGSEIANE-LPYNDYFEYFGPDFKLHIS---PSNM--ANQNTPEYLEKIKTRLFEN 183
+S+ SEI NE LP N GP F I+ P ++ A QN I EN
Sbjct: 112 SSLKFPSEIVNEILPNNPIAILSGPSFAKEIAEKLPCSIVLAGQNETLGSSLISKLSNEN 171
Query: 184 LRMLPHAPGVQVQV 197
L+++ + VQ+
Sbjct: 172 LKIIYSQDIIGVQI 185
>gnl|CDD|232962 TIGR00409, proS_fam_II, prolyl-tRNA synthetase, family II.
Prolyl-tRNA synthetase is a class II tRNA synthetase and
is recognized by pfam model tRNA-synt_2b, which
recognizes tRNA synthetases for Gly, His, Ser, and Pro.
The prolyl-tRNA synthetases are divided into two widely
divergent groups. This group includes enzymes from
Escherichia coli, Bacillus subtilis, Aquifex aeolicus,
the spirochete Treponema pallidum, Synechocystis
PCC6803, and one of the two prolyL-tRNA synthetases of
Saccharomyces cerevisiae. The other group includes the
Pro-specific domain of a human multifunctional tRNA
ligase and the prolyl-tRNA synthetases from the Archaea,
the Mycoplasmas, and the spirochete Borrelia burgdorferi
[Protein synthesis, tRNA aminoacylation].
Length = 568
Score = 29.8 bits (67), Expect = 1.7
Identities = 5/30 (16%), Positives = 13/30 (43%)
Query: 155 FKLHISPSNMANQNTPEYLEKIKTRLFENL 184
+ + I NM ++ + E++ + L
Sbjct: 474 YDVVIVVMNMKDEEQQQLAEELYSELLAQG 503
>gnl|CDD|171613 PRK12621, flgB, flagellar basal body rod protein FlgB; Provisional.
Length = 136
Score = 27.4 bits (61), Expect = 5.6
Identities = 11/21 (52%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 162 SNMANQNTPEYLEKIKTRLFE 182
SN+AN NTP Y K + FE
Sbjct: 28 SNLANVNTPGY--KPRELEFE 46
>gnl|CDD|182730 PRK10787, PRK10787, DNA-binding ATP-dependent protease La;
Provisional.
Length = 784
Score = 28.0 bits (62), Expect = 7.6
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 7/33 (21%)
Query: 173 LEKIKTRLFENLRMLPHAPGVQVQVSPIIGPIL 205
LE++K R+ E L VQ +V+ I GPIL
Sbjct: 327 LERVKDRILEYL-------AVQSRVNKIKGPIL 352
>gnl|CDD|237249 PRK12891, PRK12891, allantoate amidohydrolase; Reviewed.
Length = 414
Score = 27.5 bits (61), Expect = 8.6
Identities = 6/33 (18%), Positives = 13/33 (39%)
Query: 170 PEYLEKIKTRLFENLRMLPHAPGVQVQVSPIIG 202
L+++ L L + G++ + I G
Sbjct: 293 DAVLDRLDAALRAELARIADETGLRADIEQIFG 325
>gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional.
Length = 287
Score = 27.4 bits (61), Expect = 9.3
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 15/74 (20%)
Query: 128 YETSVALGSEIANELPYNDYFEYFGPDFKLHISPSNMANQN---TPE----YLEKIKTR- 179
YE++ L S IAN + + DY P+ L I+ + Q TPE L+ IK R
Sbjct: 177 YESNPGLSSRIANHVDFPDY----TPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRM 232
Query: 180 ---LFENLRMLPHA 190
LF N R + +A
Sbjct: 233 EQPLFANARSVRNA 246
>gnl|CDD|118101 pfam09565, RE_NgoFVII, NgoFVII restriction endonuclease. This
family includes the NgoFVII (recognises GCSGC but
cleavage site unknown) restriction endonuclease.
Length = 296
Score = 27.4 bits (61), Expect = 9.4
Identities = 17/100 (17%), Positives = 30/100 (30%), Gaps = 17/100 (17%)
Query: 43 RDGMDDESYESIFVPIISKVMETFQPSAVVLQCGADSLTGDRLGCFNLTVRGHGKCVEFV 102
+G+ + S + K+ ++ + V+ HGK F
Sbjct: 47 SEGLSASQHNS-LEKLHDKLKDSDRGDVYVVPN----------------PEYHGKIYIFH 89
Query: 103 KRYNLPFLMVGGGGYTIRNVSRCWTYETSVALGSEIANEL 142
K ++G + N YE V L A +L
Sbjct: 90 KDGKPVGALIGSANLSQINAFTTRQYEAVVTLDPAPAYDL 129
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 0.140 0.435
Gapped
Lambda K H
0.267 0.0657 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,541,367
Number of extensions: 1389922
Number of successful extensions: 1161
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1124
Number of HSP's successfully gapped: 68
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)