RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8282
(632 letters)
>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 = 433 bits (1115), Expect = e-148
Identities = 163/246 (66%), Positives = 198/246 (80%)
Query: 368 VVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 427
VV++VL GES +GVAI+RPPGHHAEQD CGFC FNNV++AA+YA +GL R+LI+DWD
Sbjct: 105 VVEAVLTGESRNGVAIVRPPGHHAEQDTACGFCFFNNVAIAARYAQKKYGLKRILIVDWD 164
Query: 428 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 487
VHHGNGTQ MF +DP VLYIS+HRYD+GSFFP+S + VG+GKGEGFNVN+ WNK G
Sbjct: 165 VHHGNGTQHMFESDPSVLYISLHRYDNGSFFPNSPEGNYDVVGKGKGEGFNVNIPWNKGG 224
Query: 488 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKAL 547
M D EYIAAFQQV+LPIAY+FNPELVLVSAG+DA DPLGGCKV+PE YAH TH L +L
Sbjct: 225 MGDAEYIAAFQQVVLPIAYEFNPELVLVSAGFDAARGDPLGGCKVTPEGYAHMTHMLMSL 284
Query: 548 AQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKETISSHKA 607
A GR+I+ LEGGYN++SIS +M++CTK LLGDP P+L+ SSA+ SI + H+
Sbjct: 285 AGGRVIVILEGGYNLTSISESMSMCTKTLLGDPPPVLDLPRPPCSSALKSINNVLQVHQK 344
Query: 608 YWSSLK 613
YW SL+
Sbjct: 345 YWKSLR 350
Score = 254 bits (651), Expect = 3e-79
Identities = 105/166 (63%), Positives = 126/166 (75%), Gaps = 9/166 (5%)
Query: 126 SIIITEHPLALSFADLSVWGYVCEPYVDNHVVDSVLNGESAHGVAIIRPPGHHAEQDEPC 185
SI I HP + A L+ G V + VV++VL GES +GVAI+RPPGHHAEQD C
Sbjct: 84 SIYI--HPDSYQCALLAA-GCVLQ------VVEAVLTGESRNGVAIVRPPGHHAEQDTAC 134
Query: 186 GFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSF 245
GFC FNNV++AA+YA +GL R+LI+DWDVHHGNGTQ MF +DP VLYIS+HRYD+GSF
Sbjct: 135 GFCFFNNVAIAARYAQKKYGLKRILIVDWDVHHGNGTQHMFESDPSVLYISLHRYDNGSF 194
Query: 246 FPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILP 291
FP+S + VG+GKGEGFNVN+ WNK GM D EYIAAFQQV+LP
Sbjct: 195 FPNSPEGNYDVVGKGKGEGFNVNIPWNKGGMGDAEYIAAFQQVVLP 240
Score = 139 bits (353), Expect = 1e-36
Identities = 51/75 (68%), Positives = 61/75 (81%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
YA +GL R+LI+DWDVHHGNGTQ MF +DP VLYIS+HRYD+GSFFP+S + VG
Sbjct: 148 YAQKKYGLKRILIVDWDVHHGNGTQHMFESDPSVLYISLHRYDNGSFFPNSPEGNYDVVG 207
Query: 353 EGKGEGFNVNVAWNK 367
+GKGEGFNVN+ WNK
Sbjct: 208 KGKGEGFNVNIPWNK 222
>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 = 328 bits (842), Expect = e-107
Identities = 121/246 (49%), Positives = 170/246 (69%), Gaps = 1/246 (0%)
Query: 364 AWNKVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLI 423
+ ++V +V+ G+ +G A+IRPPGHHA ++E G+CIFNNV++AAKYA++ GL R+LI
Sbjct: 92 STIELVKAVMAGKIQNGFALIRPPGHHAMRNEANGYCIFNNVAIAAKYAIEKLGLKRILI 151
Query: 424 LDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAW 483
+DWDVHHG GTQ FY DPRVLY S+HRY+HG F+PH ++ +G G G GFNVNV
Sbjct: 152 VDWDVHHGQGTQQGFYEDPRVLYFSIHRYEHGRFWPHLFESDYDYIGVGHGYGFNVNVPL 211
Query: 484 NKKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHW 543
N+ G+ D +Y+A F ++LP+A +F PELVLVSAG+DA + DP G V+P YAH T
Sbjct: 212 NQTGLGDADYLAIFHHILLPLALEFQPELVLVSAGFDASIGDPEGEMAVTPAGYAHLTRL 271
Query: 544 LKALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKETIS 603
L LA G+++L LEGGY + S++ ++++ + LLGDPLP L + I S + +I I+
Sbjct: 272 LMGLAGGKLLLVLEGGYLLESLAESVSMTLRGLLGDPLPPLAPPIPIR-SVLETILNAIA 330
Query: 604 SHKAYW 609
W
Sbjct: 331 HLSPRW 336
Score = 210 bits (537), Expect = 1e-62
Identities = 75/137 (54%), Positives = 103/137 (75%)
Query: 156 VVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 215
+V +V+ G+ +G A+IRPPGHHA ++E G+CIFNNV++AAKYA++ GL R+LI+DWD
Sbjct: 96 LVKAVMAGKIQNGFALIRPPGHHAMRNEANGYCIFNNVAIAAKYAIEKLGLKRILIVDWD 155
Query: 216 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 275
VHHG GTQ FY DPRVLY S+HRY+HG F+PH ++ +G G G GFNVNV N+ G
Sbjct: 156 VHHGQGTQQGFYEDPRVLYFSIHRYEHGRFWPHLFESDYDYIGVGHGYGFNVNVPLNQTG 215
Query: 276 MSDPEYIAAFQQVILPM 292
+ D +Y+A F ++LP+
Sbjct: 216 LGDADYLAIFHHILLPL 232
Score = 115 bits (290), Expect = 3e-28
Identities = 44/76 (57%), Positives = 55/76 (72%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
YA++ GL R+LI+DWDVHHG GTQ FY DPRVLY S+HRY+HG F+PH ++ +G
Sbjct: 139 YAIEKLGLKRILIVDWDVHHGQGTQQGFYEDPRVLYFSIHRYEHGRFWPHLFESDYDYIG 198
Query: 353 EGKGEGFNVNVAWNKV 368
G G GFNVNV N+
Sbjct: 199 VGHGYGFNVNVPLNQT 214
>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 = 321 bits (826), Expect = e-106
Identities = 114/218 (52%), Positives = 151/218 (69%), Gaps = 10/218 (4%)
Query: 364 AWNKVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLI 423
A VD+VL+GE+ + A++RPPGHHAE D GFC+FNNV++AA+YA +GL RVLI
Sbjct: 80 AALAAVDAVLSGEAENAFALVRPPGHHAEPDRAMGFCLFNNVAIAARYAQKRYGLKRVLI 139
Query: 424 LDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAW 483
+DWDVHHGNGTQ +FY+DP VLY S+H+Y F+P + A G G GEGF +NV
Sbjct: 140 VDWDVHHGNGTQDIFYDDPSVLYFSIHQYP---FYPGTGAA--EETGGGAGEGFTINVPL 194
Query: 484 NKKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHW 543
G D EY+AAF++V+LPIA +F P+LVLVSAG+DA DPLGG ++PE YA T
Sbjct: 195 P-PGSGDAEYLAAFEEVLLPIAREFQPDLVLVSAGFDAHRGDPLGGMNLTPEGYARLTRL 253
Query: 544 LKALA----QGRIILALEGGYNISSISYAMTLCTKALL 577
LK LA GR++ LEGGYN+ +++ ++ +ALL
Sbjct: 254 LKELADEHCGGRLVFVLEGGYNLEALAESVLAVLEALL 291
Score = 220 bits (564), Expect = 4e-67
Identities = 75/136 (55%), Positives = 99/136 (72%), Gaps = 6/136 (4%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
VD+VL+GE+ + A++RPPGHHAE D GFC+FNNV++AA+YA +GL RVLI+DWDV
Sbjct: 85 VDAVLSGEAENAFALVRPPGHHAEPDRAMGFCLFNNVAIAARYAQKRYGLKRVLIVDWDV 144
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHGNGTQ +FY+DP VLY S+H+Y F+P + A G G GEGF +NV G
Sbjct: 145 HHGNGTQDIFYDDPSVLYFSIHQYP---FYPGTGAA--EETGGGAGEGFTINVPLP-PGS 198
Query: 277 SDPEYIAAFQQVILPM 292
D EY+AAF++V+LP+
Sbjct: 199 GDAEYLAAFEEVLLPI 214
Score = 126 bits (318), Expect = 3e-32
Identities = 48/102 (47%), Positives = 57/102 (55%), Gaps = 24/102 (23%)
Query: 265 FNVNVAWNKKGMSDPEYIAAFQQVILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDP 324
FN NVA IAA YA +GL RVLI+DWDVHHGNGTQ +FY+DP
Sbjct: 118 FN-NVA-----------IAAR-------YAQKRYGLKRVLIVDWDVHHGNGTQDIFYDDP 158
Query: 325 RVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN 366
VLY S+H+Y F+P + A G G GEGF +NV
Sbjct: 159 SVLYFSIHQYP---FYPGTGAA--EETGGGAGEGFTINVPLP 195
>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 = 320 bits (822), Expect = e-105
Identities = 130/243 (53%), Positives = 177/243 (72%)
Query: 367 KVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 426
++VD VL GE +G+AI+RPPGHHA+ D+ G+C+FNNV++AA+YA HG+ RVLI+DW
Sbjct: 95 QLVDKVLGGEIRNGLAIVRPPGHHAQHDKMDGYCMFNNVAIAARYAQQKHGVQRVLIVDW 154
Query: 427 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 486
DVHHG GTQ +F DP VLY S+HRY+ G F+PH K++ VG G+GEG+N+NV WN+
Sbjct: 155 DVHHGQGTQFIFEQDPSVLYFSIHRYEQGRFWPHLKESDSSAVGFGRGEGYNINVPWNQV 214
Query: 487 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 546
GM D +YIAAF V+LP+A +F P+LVLV+AG+DA + DP G +P +AH TH L
Sbjct: 215 GMRDADYIAAFLHVLLPVALEFQPQLVLVAAGFDAVIGDPKGEMAATPACFAHLTHLLMG 274
Query: 547 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKETISSHK 606
LA G++IL+LEGGYN+ S++ + KALLGDP P+LES SA+ S+ TIS+ +
Sbjct: 275 LAGGKLILSLEGGYNLRSLAEGVCASLKALLGDPCPMLESPGAPCRSALASVSCTISALE 334
Query: 607 AYW 609
+W
Sbjct: 335 PFW 337
Score = 204 bits (521), Expect = 2e-60
Identities = 88/161 (54%), Positives = 117/161 (72%), Gaps = 7/161 (4%)
Query: 132 HPLALSFADLSVWGYVCEPYVDNHVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFN 191
HP + S A L+V G V + +VD VL GE +G+AI+RPPGHHA+ D+ G+C+FN
Sbjct: 79 HPNSYSCACLAV-GSVLQ------LVDKVLGGEIRNGLAIVRPPGHHAQHDKMDGYCMFN 131
Query: 192 NVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKD 251
NV++AA+YA HG+ RVLI+DWDVHHG GTQ +F DP VLY S+HRY+ G F+PH K+
Sbjct: 132 NVAIAARYAQQKHGVQRVLIVDWDVHHGQGTQFIFEQDPSVLYFSIHRYEQGRFWPHLKE 191
Query: 252 AGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPM 292
+ VG G+GEG+N+NV WN+ GM D +YIAAF V+LP+
Sbjct: 192 SDSSAVGFGRGEGYNINVPWNQVGMRDADYIAAFLHVLLPV 232
Score = 119 bits (300), Expect = 1e-29
Identities = 48/85 (56%), Positives = 60/85 (70%), Gaps = 1/85 (1%)
Query: 285 FQQV-ILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHS 343
F V I YA HG+ RVLI+DWDVHHG GTQ +F DP VLY S+HRY+ G F+PH
Sbjct: 130 FNNVAIAARYAQQKHGVQRVLIVDWDVHHGQGTQFIFEQDPSVLYFSIHRYEQGRFWPHL 189
Query: 344 KDAGPHNVGEGKGEGFNVNVAWNKV 368
K++ VG G+GEG+N+NV WN+V
Sbjct: 190 KESDSSAVGFGRGEGYNINVPWNQV 214
>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 = 317 bits (815), Expect = e-104
Identities = 113/217 (52%), Positives = 155/217 (71%), Gaps = 2/217 (0%)
Query: 370 DSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNH--GLSRVLILDWD 427
+V G + A++RPPGHHAE DE GFC FNNV+VAAK+ + + ++LILDWD
Sbjct: 96 RAVAEGRVKNAFAVVRPPGHHAEPDESMGFCFFNNVAVAAKWLQTEYPDKIKKILILDWD 155
Query: 428 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 487
+HHGNGTQ FY+DP VLYIS+HR+++G F+P + +VGEG G GFNVN+ W + G
Sbjct: 156 IHHGNGTQRAFYDDPNVLYISLHRFENGGFYPGTPYGDYESVGEGAGLGFNVNIPWPQGG 215
Query: 488 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKAL 547
M D +YI AFQ++++PIAY+F+P+LV++SAG+DA D LG C V+P YAH TH L +L
Sbjct: 216 MGDADYIYAFQRIVMPIAYEFDPDLVIISAGFDAADGDELGQCHVTPAGYAHMTHMLMSL 275
Query: 548 AQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLL 584
A G++++ALEGGYN+ +IS + K LLG+ P L
Sbjct: 276 AGGKLVVALEGGYNLDAISDSALAVAKVLLGEAPPKL 312
Score = 203 bits (519), Expect = 2e-60
Identities = 71/137 (51%), Positives = 98/137 (71%), Gaps = 2/137 (1%)
Query: 158 DSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNH--GLSRVLILDWD 215
+V G + A++RPPGHHAE DE GFC FNNV+VAAK+ + + ++LILDWD
Sbjct: 96 RAVAEGRVKNAFAVVRPPGHHAEPDESMGFCFFNNVAVAAKWLQTEYPDKIKKILILDWD 155
Query: 216 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 275
+HHGNGTQ FY+DP VLYIS+HR+++G F+P + +VGEG G GFNVN+ W + G
Sbjct: 156 IHHGNGTQRAFYDDPNVLYISLHRFENGGFYPGTPYGDYESVGEGAGLGFNVNIPWPQGG 215
Query: 276 MSDPEYIAAFQQVILPM 292
M D +YI AFQ++++P+
Sbjct: 216 MGDADYIYAFQRIVMPI 232
Score = 117 bits (294), Expect = 6e-29
Identities = 38/64 (59%), Positives = 50/64 (78%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
++LILDWD+HHGNGTQ FY+DP VLYIS+HR+++G F+P + +VGEG G GFNV
Sbjct: 148 KILILDWDIHHGNGTQRAFYDDPNVLYISLHRFENGGFYPGTPYGDYESVGEGAGLGFNV 207
Query: 362 NVAW 365
N+ W
Sbjct: 208 NIPW 211
>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 = 306 bits (786), Expect = 7e-99
Identities = 128/246 (52%), Positives = 170/246 (69%), Gaps = 10/246 (4%)
Query: 372 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 431
V GE +G A++RPPGHHAE + GFC FN+V++AAK L ++LI+DWDVHHG
Sbjct: 134 VATGELKNGFAVVRPPGHHAEPSQAMGFCFFNSVAIAAKQLQQKLKLRKILIVDWDVHHG 193
Query: 432 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK---GM 488
NGTQ +FY DP VLYIS+HRYD G+FFP + P VG G GEGFNVN+AW+ M
Sbjct: 194 NGTQQIFYEDPNVLYISLHRYDDGNFFPGT--GAPTEVGSGAGEGFNVNIAWSGGLDPPM 251
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDP--LGGCKVSPEAYAHFTHWLKA 546
D EY+AAF+ V++PIA +F+P++VLVSAG+DA P LGG KVSP + + T L
Sbjct: 252 GDAEYLAAFRTVVMPIAREFSPDIVLVSAGFDAAEGHPPPLGGYKVSPACFGYMTRQLMN 311
Query: 547 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPL-PLLESDLDI--NSSAVTSIKETIS 603
LA G+++LALEGGY++++I A C +ALLGD L PL E +L+ N +AVTS+++ I+
Sbjct: 312 LAGGKVVLALEGGYDLTAICDASEACVRALLGDELDPLSEEELERRPNPNAVTSLEKVIA 371
Query: 604 SHKAYW 609
YW
Sbjct: 372 IQSPYW 377
Score = 200 bits (511), Expect = 2e-58
Identities = 75/135 (55%), Positives = 95/135 (70%), Gaps = 5/135 (3%)
Query: 160 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 219
V GE +G A++RPPGHHAE + GFC FN+V++AAK L ++LI+DWDVHHG
Sbjct: 134 VATGELKNGFAVVRPPGHHAEPSQAMGFCFFNSVAIAAKQLQQKLKLRKILIVDWDVHHG 193
Query: 220 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK---GM 276
NGTQ +FY DP VLYIS+HRYD G+FFP + P VG G GEGFNVN+AW+ M
Sbjct: 194 NGTQQIFYEDPNVLYISLHRYDDGNFFPGT--GAPTEVGSGAGEGFNVNIAWSGGLDPPM 251
Query: 277 SDPEYIAAFQQVILP 291
D EY+AAF+ V++P
Sbjct: 252 GDAEYLAAFRTVVMP 266
Score = 118 bits (299), Expect = 4e-29
Identities = 44/68 (64%), Positives = 52/68 (76%), Gaps = 2/68 (2%)
Query: 298 HGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGE 357
L ++LI+DWDVHHGNGTQ +FY DP VLYIS+HRYD G+FFP + P VG G GE
Sbjct: 178 LKLRKILIVDWDVHHGNGTQQIFYEDPNVLYISLHRYDDGNFFPGT--GAPTEVGSGAGE 235
Query: 358 GFNVNVAW 365
GFNVN+AW
Sbjct: 236 GFNVNIAW 243
>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 = 292 bits (749), Expect = 6e-94
Identities = 118/243 (48%), Positives = 173/243 (71%)
Query: 367 KVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 426
++VD+VL GE +G+A++RPPGHH++++ GFC+FNNV++AA+YA +GL R+LI+DW
Sbjct: 95 QLVDAVLTGEVQNGMALVRPPGHHSQRNAANGFCVFNNVAIAAEYAKKKYGLHRILIVDW 154
Query: 427 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 486
DVHHG G Q +F DP VLY S HRY+H F+P +++ VG GKG GFN+N+ WNK
Sbjct: 155 DVHHGQGIQYIFEEDPSVLYFSWHRYEHQRFWPFLRESDYDAVGRGKGLGFNINLPWNKV 214
Query: 487 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 546
GM + +Y+AAF V+LP+A++F+PELVLVSAG+D+ + DP G +PE +AH TH L
Sbjct: 215 GMGNADYLAAFFHVLLPLAFEFDPELVLVSAGFDSAIGDPEGQMCATPECFAHLTHLLMV 274
Query: 547 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKETISSHK 606
LA G++ LEGGY++ S++ ++ + + LLGDPLP L ++ SA+ SI+ ++
Sbjct: 275 LAGGKLCAVLEGGYHLESLAESVCMTVQTLLGDPLPRLSGEMTPCQSALESIQNVRAAQA 334
Query: 607 AYW 609
YW
Sbjct: 335 PYW 337
Score = 186 bits (475), Expect = 8e-54
Identities = 73/138 (52%), Positives = 103/138 (74%)
Query: 155 HVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 214
+VD+VL GE +G+A++RPPGHH++++ GFC+FNNV++AA+YA +GL R+LI+DW
Sbjct: 95 QLVDAVLTGEVQNGMALVRPPGHHSQRNAANGFCVFNNVAIAAEYAKKKYGLHRILIVDW 154
Query: 215 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 274
DVHHG G Q +F DP VLY S HRY+H F+P +++ VG GKG GFN+N+ WNK
Sbjct: 155 DVHHGQGIQYIFEEDPSVLYFSWHRYEHQRFWPFLRESDYDAVGRGKGLGFNINLPWNKV 214
Query: 275 GMSDPEYIAAFQQVILPM 292
GM + +Y+AAF V+LP+
Sbjct: 215 GMGNADYLAAFFHVLLPL 232
Score = 109 bits (275), Expect = 2e-26
Identities = 43/80 (53%), Positives = 54/80 (67%)
Query: 289 ILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGP 348
I YA +GL R+LI+DWDVHHG G Q +F DP VLY S HRY+H F+P +++
Sbjct: 135 IAAEYAKKKYGLHRILIVDWDVHHGQGIQYIFEEDPSVLYFSWHRYEHQRFWPFLRESDY 194
Query: 349 HNVGEGKGEGFNVNVAWNKV 368
VG GKG GFN+N+ WNKV
Sbjct: 195 DAVGRGKGLGFNINLPWNKV 214
>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 = 280 bits (719), Expect = 6e-90
Identities = 103/212 (48%), Positives = 140/212 (66%), Gaps = 11/212 (5%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
D VL+GE+A A +RPPGHHAE+D GFC+FNNV++AA+Y L +GL RVLI+D DV
Sbjct: 97 ADLVLSGENA--FAAVRPPGHHAERDRASGFCLFNNVAIAARYLLKRYGLKRVLIVDLDV 154
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 488
HHGNGTQ +FY+DPRVL IS+H+ F+P + A GEG GEG+ +N+ G
Sbjct: 155 HHGNGTQEIFYDDPRVLTISIHQDP---FYPGTGFA--DETGEGAGEGYTLNIPLP-PGT 208
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA 548
D EY+AAF++++LP +F P+L+LVSAG+DA DPLGG ++ E YA T L LA
Sbjct: 209 GDEEYLAAFEEILLPALREFQPDLILVSAGFDAHAGDPLGGLNLTTEGYAERTRLLLELA 268
Query: 549 ---QGRIILALEGGYNISSISYAMTLCTKALL 577
G ++ LEGGYN+ +++ + LL
Sbjct: 269 DAYGGPVVSVLEGGYNLDALARSAAAVLAGLL 300
Score = 193 bits (492), Expect = 1e-56
Identities = 72/135 (53%), Positives = 96/135 (71%), Gaps = 8/135 (5%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
D VL+GE+A A +RPPGHHAE+D GFC+FNNV++AA+Y L +GL RVLI+D DV
Sbjct: 97 ADLVLSGENA--FAAVRPPGHHAERDRASGFCLFNNVAIAARYLLKRYGLKRVLIVDLDV 154
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHGNGTQ +FY+DPRVL IS+H+ F+P + A GEG GEG+ +N+ G
Sbjct: 155 HHGNGTQEIFYDDPRVLTISIHQDP---FYPGTGFA--DETGEGAGEGYTLNIPLP-PGT 208
Query: 277 SDPEYIAAFQQVILP 291
D EY+AAF++++LP
Sbjct: 209 GDEEYLAAFEEILLP 223
Score = 114 bits (287), Expect = 4e-28
Identities = 38/78 (48%), Positives = 49/78 (62%), Gaps = 5/78 (6%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
Y L +GL RVLI+D DVHHGNGTQ +FY+DPRVL IS+H+ F+P + A G
Sbjct: 137 YLLKRYGLKRVLIVDLDVHHGNGTQEIFYDDPRVLTISIHQDP---FYPGTGFA--DETG 191
Query: 353 EGKGEGFNVNVAWNKVVD 370
EG GEG+ +N+
Sbjct: 192 EGAGEGYTLNIPLPPGTG 209
>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 = 261 bits (667), Expect = 9e-81
Identities = 124/263 (47%), Positives = 163/263 (61%), Gaps = 10/263 (3%)
Query: 372 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 431
V GE +G A+IRPPGHHAE+ GFC FN+V++AAK + ++LI+DWD+HHG
Sbjct: 137 VAAGELKNGFAVIRPPGHHAEESTAMGFCFFNSVAIAAKLLQQKLNVGKILIVDWDIHHG 196
Query: 432 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN---KKGM 488
NGTQ FYNDP VLYIS+HRYD G+FFP S P VG G G GFNVN+AW +
Sbjct: 197 NGTQQAFYNDPNVLYISLHRYDDGNFFPGS--GAPDEVGAGPGVGFNVNIAWTGGVDPPI 254
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN--DPLGGCKVSPEAYAHFTHWLKA 546
D EY+ AF+ V++PIA +F+P++VLVSAG+DA PLGG V+ + + H T L
Sbjct: 255 GDVEYLTAFRTVVMPIANEFSPDVVLVSAGFDAVEGHQSPLGGYSVTAKCFGHLTKQLMT 314
Query: 547 LAQGRIILALEGGYNISSISYAMTLCTKALLGD---PLPLLESDLDINSSAVTSIKETIS 603
LA GR++LALEGG+++++I A C ALLG PL N +AV +++ I
Sbjct: 315 LAGGRVVLALEGGHDLTAICDASEACVSALLGMELTPLDNTVLQQKPNDNAVATLERVIE 374
Query: 604 SHKAYWSSLKFLVALPENKLLSA 626
+WS LK A LL A
Sbjct: 375 IQSKHWSCLKRFAATLGFSLLEA 397
Score = 173 bits (439), Expect = 6e-48
Identities = 73/136 (53%), Positives = 93/136 (68%), Gaps = 5/136 (3%)
Query: 160 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 219
V GE +G A+IRPPGHHAE+ GFC FN+V++AAK + ++LI+DWD+HHG
Sbjct: 137 VAAGELKNGFAVIRPPGHHAEESTAMGFCFFNSVAIAAKLLQQKLNVGKILIVDWDIHHG 196
Query: 220 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN---KKGM 276
NGTQ FYNDP VLYIS+HRYD G+FFP S P VG G G GFNVN+AW +
Sbjct: 197 NGTQQAFYNDPNVLYISLHRYDDGNFFPGS--GAPDEVGAGPGVGFNVNIAWTGGVDPPI 254
Query: 277 SDPEYIAAFQQVILPM 292
D EY+ AF+ V++P+
Sbjct: 255 GDVEYLTAFRTVVMPI 270
Score = 112 bits (282), Expect = 1e-26
Identities = 45/72 (62%), Positives = 53/72 (73%), Gaps = 2/72 (2%)
Query: 299 GLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEG 358
+ ++LI+DWD+HHGNGTQ FYNDP VLYIS+HRYD G+FFP S P VG G G G
Sbjct: 182 NVGKILIVDWDIHHGNGTQQAFYNDPNVLYISLHRYDDGNFFPGS--GAPDEVGAGPGVG 239
Query: 359 FNVNVAWNKVVD 370
FNVN+AW VD
Sbjct: 240 FNVNIAWTGGVD 251
>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 = 254 bits (651), Expect = 1e-78
Identities = 131/295 (44%), Positives = 180/295 (61%), Gaps = 26/295 (8%)
Query: 356 GEGFNVNVAWNKV----------------VDSVLNGESAHGVAIIRPPGHHAEQDEPCGF 399
G G + + WN+V V V GE +G A++RPPGHHAE+ P GF
Sbjct: 105 GVGVDSDTIWNEVHSSGAARLAVGCVVELVFKVATGELKNGFAVVRPPGHHAEESTPMGF 164
Query: 400 CIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFP 459
C FN+V++AAK +S++LI+DWDVHHGNGTQ FY+DP VLY+S+HRYD G+FFP
Sbjct: 165 CYFNSVAIAAKLLQQRLNVSKILIVDWDVHHGNGTQQAFYSDPNVLYMSLHRYDDGNFFP 224
Query: 460 HSKDAGPHNVGEGKGEGFNVNVAWN---KKGMSDPEYIAAFQQVILPIAYQFNPELVLVS 516
S P VG G G GFNVN+A+ M D EY+AAF+ V++PIA +F P++VLVS
Sbjct: 225 GS--GAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVMPIASEFAPDVVLVS 282
Query: 517 AGYDACVND--PLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYAMTLCTK 574
+G+DA PLGG +S + + + T L LA GRI+LALEGG+++++I A C
Sbjct: 283 SGFDAVEGHPTPLGGYNLSAKCFGYLTKQLMGLAGGRIVLALEGGHDLTAICDASEACVS 342
Query: 575 ALLGDPL-PLLESDLD--INSSAVTSIKETISSHKAYWSSLKFLVALPENKLLSA 626
ALLG+ L PL E L N++AV S+++ + H YW L+ + L+ A
Sbjct: 343 ALLGNELDPLPEKVLQQRPNANAVRSMEKVMEIHSKYWRCLQRTTSTAGYSLIEA 397
Score = 169 bits (429), Expect = 1e-46
Identities = 75/140 (53%), Positives = 98/140 (70%), Gaps = 5/140 (3%)
Query: 156 VVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 215
+V V GE +G A++RPPGHHAE+ P GFC FN+V++AAK +S++LI+DWD
Sbjct: 133 LVFKVATGELKNGFAVVRPPGHHAEESTPMGFCYFNSVAIAAKLLQQRLNVSKILIVDWD 192
Query: 216 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN--- 272
VHHGNGTQ FY+DP VLY+S+HRYD G+FFP S P VG G G GFNVN+A+
Sbjct: 193 VHHGNGTQQAFYSDPNVLYMSLHRYDDGNFFPGS--GAPDEVGTGPGVGFNVNMAFTGGL 250
Query: 273 KKGMSDPEYIAAFQQVILPM 292
M D EY+AAF+ V++P+
Sbjct: 251 DPPMGDAEYLAAFRTVVMPI 270
Score = 100 bits (251), Expect = 8e-23
Identities = 42/66 (63%), Positives = 52/66 (78%), Gaps = 2/66 (3%)
Query: 300 LSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGF 359
+S++LI+DWDVHHGNGTQ FY+DP VLY+S+HRYD G+FFP S P VG G G GF
Sbjct: 183 VSKILIVDWDVHHGNGTQQAFYSDPNVLYMSLHRYDDGNFFPGS--GAPDEVGTGPGVGF 240
Query: 360 NVNVAW 365
NVN+A+
Sbjct: 241 NVNMAF 246
>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 = 249 bits (636), Expect = 9e-77
Identities = 124/278 (44%), Positives = 165/278 (59%), Gaps = 26/278 (9%)
Query: 356 GEGFNVNVAWNKVVDS----------------VLNGESAHGVAIIRPPGHHAEQDEPCGF 399
G G + + WN++ S V + E +G A++RPPGHHA+ GF
Sbjct: 103 GVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGF 162
Query: 400 CIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFP 459
C FN+V++A + S++LI+DWDVHHGNGTQ FY DP VLYIS+HR+D G+FFP
Sbjct: 163 CFFNSVAIACRQLQQQGKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFP 222
Query: 460 HSKDAGPHNVGEGKGEGFNVNVAWN---KKGMSDPEYIAAFQQVILPIAYQFNPELVLVS 516
S VG G GEGFNVNVAW M DPEY+AAF+ V++PIA +F+P+LVLVS
Sbjct: 223 GSGAV--DEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVS 280
Query: 517 AGYDACVND--PLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYAMTLCTK 574
AG+DA PLGG VS + + + T L LA G ++LALEGG+++++I A C
Sbjct: 281 AGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVA 340
Query: 575 ALLG---DPLPLLESDLDINSSAVTSIKETISSHKAYW 609
ALLG DPL N +A+ S++ I H YW
Sbjct: 341 ALLGNEVDPLSEESWKQKPNLNAIRSLEAVIRVHSKYW 378
Score = 162 bits (410), Expect = 3e-44
Identities = 72/136 (52%), Positives = 92/136 (67%), Gaps = 5/136 (3%)
Query: 160 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 219
V + E +G A++RPPGHHA+ GFC FN+V++A + S++LI+DWDVHHG
Sbjct: 135 VASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQGKASKILIVDWDVHHG 194
Query: 220 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN---KKGM 276
NGTQ FY DP VLYIS+HR+D G+FFP S VG G GEGFNVNVAW M
Sbjct: 195 NGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAV--DEVGAGSGEGFNVNVAWAGGLDPPM 252
Query: 277 SDPEYIAAFQQVILPM 292
DPEY+AAF+ V++P+
Sbjct: 253 GDPEYLAAFRIVVMPI 268
Score = 103 bits (258), Expect = 7e-24
Identities = 45/71 (63%), Positives = 52/71 (73%), Gaps = 2/71 (2%)
Query: 300 LSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGF 359
S++LI+DWDVHHGNGTQ FY DP VLYIS+HR+D G+FFP S VG G GEGF
Sbjct: 181 ASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGAV--DEVGAGSGEGF 238
Query: 360 NVNVAWNKVVD 370
NVNVAW +D
Sbjct: 239 NVNVAWAGGLD 249
>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 = 246 bits (630), Expect = 8e-76
Identities = 118/246 (47%), Positives = 163/246 (66%), Gaps = 10/246 (4%)
Query: 372 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 431
V +GE +G A++RPPGHHAE+ GFC FN+V++ AKY D +S++LI+D DVHHG
Sbjct: 135 VASGELKNGFAVVRPPGHHAEESTAMGFCFFNSVAITAKYLRDQLNISKILIVDLDVHHG 194
Query: 432 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN---KKGM 488
NGTQ FY DP +LYIS+HRYD G+FFP S P+ VG G GEG+N+N+AW M
Sbjct: 195 NGTQQAFYADPSILYISLHRYDEGNFFPGS--GAPNEVGTGLGEGYNINIAWTGGLDPPM 252
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACV--NDPLGGCKVSPEAYAHFTHWLKA 546
D EY+ AF+ ++ P+A +F+P++VLVSAG+DA PLGG KV+ + + H T L
Sbjct: 253 GDVEYLEAFRTIVKPVAKEFDPDMVLVSAGFDALEGHTPPLGGYKVTAKCFGHLTKQLMT 312
Query: 547 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDL---DINSSAVTSIKETIS 603
LA GR++LALEGG+++++I A C ALLG+ L L D+ N +AV S+++ I
Sbjct: 313 LADGRVVLALEGGHDLTAICDASEACVNALLGNELEPLAEDILHQSPNMNAVISLQKIIE 372
Query: 604 SHKAYW 609
YW
Sbjct: 373 IQSKYW 378
Score = 162 bits (411), Expect = 2e-44
Identities = 71/135 (52%), Positives = 94/135 (69%), Gaps = 5/135 (3%)
Query: 160 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 219
V +GE +G A++RPPGHHAE+ GFC FN+V++ AKY D +S++LI+D DVHHG
Sbjct: 135 VASGELKNGFAVVRPPGHHAEESTAMGFCFFNSVAITAKYLRDQLNISKILIVDLDVHHG 194
Query: 220 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN---KKGM 276
NGTQ FY DP +LYIS+HRYD G+FFP S P+ VG G GEG+N+N+AW M
Sbjct: 195 NGTQQAFYADPSILYISLHRYDEGNFFPGS--GAPNEVGTGLGEGYNINIAWTGGLDPPM 252
Query: 277 SDPEYIAAFQQVILP 291
D EY+ AF+ ++ P
Sbjct: 253 GDVEYLEAFRTIVKP 267
Score = 102 bits (255), Expect = 2e-23
Identities = 45/82 (54%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 289 ILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGP 348
I Y D +S++LI+D DVHHGNGTQ FY DP +LYIS+HRYD G+FFP S P
Sbjct: 170 ITAKYLRDQLNISKILIVDLDVHHGNGTQQAFYADPSILYISLHRYDEGNFFPGS--GAP 227
Query: 349 HNVGEGKGEGFNVNVAWNKVVD 370
+ VG G GEG+N+N+AW +D
Sbjct: 228 NEVGTGLGEGYNINIAWTGGLD 249
>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 = 232 bits (593), Expect = 2e-70
Identities = 94/213 (44%), Positives = 138/213 (64%), Gaps = 13/213 (6%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
VD+VL+GE + A++RPPGHHAE D+ GFC+FNNV++AA++AL G+ RV ++DWDV
Sbjct: 117 VDAVLDGEVDNAYALVRPPGHHAEPDQGMGFCLFNNVAIAARHALAVGGVKRVAVVDWDV 176
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 488
HHGNGTQA+FY+DP VL IS+H+ F P S GEG GEG+N+N+ G
Sbjct: 177 HHGNGTQAIFYDDPDVLTISLHQ--DRCFPPDSGAV--EERGEGAGEGYNLNIPL-PPGS 231
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA 548
D Y+ AF++++LP F PEL++V++G+DA DPLG ++ + + T L+ LA
Sbjct: 232 GDGAYLHAFERIVLPALRAFRPELIIVASGFDASAFDPLGRMMLTSDGFRALTRKLRDLA 291
Query: 549 ----QGRIILALEGGYNISSISYAMTLCTKALL 577
GR+++ EGGY+ + + + C A+L
Sbjct: 292 DELCGGRLVMVHEGGYSEAYVPF----CGLAVL 320
Score = 174 bits (443), Expect = 7e-49
Identities = 69/135 (51%), Positives = 95/135 (70%), Gaps = 5/135 (3%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
VD+VL+GE + A++RPPGHHAE D+ GFC+FNNV++AA++AL G+ RV ++DWDV
Sbjct: 117 VDAVLDGEVDNAYALVRPPGHHAEPDQGMGFCLFNNVAIAARHALAVGGVKRVAVVDWDV 176
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHGNGTQA+FY+DP VL IS+H+ F P S GEG GEG+N+N+ G
Sbjct: 177 HHGNGTQAIFYDDPDVLTISLHQ--DRCFPPDSGAV--EERGEGAGEGYNLNIPL-PPGS 231
Query: 277 SDPEYIAAFQQVILP 291
D Y+ AF++++LP
Sbjct: 232 GDGAYLHAFERIVLP 246
Score = 103 bits (260), Expect = 4e-24
Identities = 37/71 (52%), Positives = 48/71 (67%), Gaps = 4/71 (5%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
+AL G+ RV ++DWDVHHGNGTQA+FY+DP VL IS+H+ F P S G
Sbjct: 159 HALAVGGVKRVAVVDWDVHHGNGTQAIFYDDPDVLTISLHQ--DRCFPPDSGAV--EERG 214
Query: 353 EGKGEGFNVNV 363
EG GEG+N+N+
Sbjct: 215 EGAGEGYNLNI 225
>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 = 225 bits (577), Expect = 4e-69
Identities = 86/203 (42%), Positives = 124/203 (61%), Gaps = 20/203 (9%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
VD+V+ GE+ + +RPPGHHAE+D+ GFC+FNNV++AA +AL +HGL RV I+D+DV
Sbjct: 86 VDAVMAGEARNAFCAVRPPGHHAERDKAMGFCLFNNVAIAAAHALAHHGLERVAIVDFDV 145
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHS---KDAGPHNVGEGKGEGFNVNVAWNK 485
HHGNGT+ +F +DPRVL+ S H++ +P + + G N+ VNV
Sbjct: 146 HHGNGTEDIFRDDPRVLFCSSHQHP---LYPGTGAPDETGHGNI---------VNVPL-P 192
Query: 486 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 545
G E+ A + LP F P+L+L+SAG+DA +DPL ++ E YA T L
Sbjct: 193 AGTGGAEFREAVEDRWLPALDAFKPDLILISAGFDAHRDDPLAQLNLTEEDYAWITEQLM 252
Query: 546 ALA----QGRIILALEGGYNISS 564
+A GRI+ LEGGY++S+
Sbjct: 253 DVADRYCDGRIVSVLEGGYDLSA 275
Score = 164 bits (418), Expect = 4e-46
Identities = 62/145 (42%), Positives = 88/145 (60%), Gaps = 18/145 (12%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
VD+V+ GE+ + +RPPGHHAE+D+ GFC+FNNV++AA +AL +HGL RV I+D+DV
Sbjct: 86 VDAVMAGEARNAFCAVRPPGHHAERDKAMGFCLFNNVAIAAAHALAHHGLERVAIVDFDV 145
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHS---KDAGPHNVGEGKGEGFNVNVAWNK 273
HHGNGT+ +F +DPRVL+ S H++ +P + + G N+ VNV
Sbjct: 146 HHGNGTEDIFRDDPRVLFCSSHQHP---LYPGTGAPDETGHGNI---------VNVPL-P 192
Query: 274 KGMSDPEYIAAFQQVILPMYALDNH 298
G E+ A + LP ALD
Sbjct: 193 AGTGGAEFREAVEDRWLP--ALDAF 215
Score = 91.8 bits (229), Expect = 2e-20
Identities = 36/90 (40%), Positives = 50/90 (55%), Gaps = 25/90 (27%)
Query: 265 FNVNVAWNKKGMSDPEYIAAFQQVILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDP 324
FN NVA IAA +AL +HGL RV I+D+DVHHGNGT+ +F +DP
Sbjct: 119 FN-NVA-----------IAA-------AHALAHHGLERVAIVDFDVHHGNGTEDIFRDDP 159
Query: 325 RVLYISVHRYDHGSFFPHS---KDAGPHNV 351
RVL+ S H++ +P + + G N+
Sbjct: 160 RVLFCSSHQHP---LYPGTGAPDETGHGNI 186
>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 = 223 bits (569), Expect = 2e-67
Identities = 92/224 (41%), Positives = 133/224 (59%), Gaps = 10/224 (4%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
VD+VL GE + RPPGHHA +D GFC+FNNV++AAKY L G+ RV I+D+DV
Sbjct: 106 VDAVLEGEDNAFALV-RPPGHHAGRDRASGFCLFNNVAIAAKYLLK-KGVKRVAIIDFDV 163
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 488
HHGNGTQ +FY+D VL +S+H+ F+P + A + EG NVN+ G
Sbjct: 164 HHGNGTQEIFYDDDDVLTVSLHQDGRP-FYPGTGGA---DEIGEGKEGNNVNIPL-PPGT 218
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA 548
D Y+ A ++++LP+ +F P+LV+VSAG+DA DPLG ++ E YA ++ LA
Sbjct: 219 GDDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEEGYAKIGRAVRKLA 278
Query: 549 Q---GRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLD 589
+ G ++ LEGGYN+ +++ ++ L G LE L
Sbjct: 279 EGYGGPVVAVLEGGYNLDALARSLVAFLAGLAGLVEEELEEPLP 322
Score = 157 bits (400), Expect = 4e-43
Identities = 66/158 (41%), Positives = 93/158 (58%), Gaps = 10/158 (6%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
VD+VL GE + RPPGHHA +D GFC+FNNV++AAKY L G+ RV I+D+DV
Sbjct: 106 VDAVLEGEDNAFALV-RPPGHHAGRDRASGFCLFNNVAIAAKYLLK-KGVKRVAIIDFDV 163
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHGNGTQ +FY+D VL +S+H+ F+P + A + EG NVN+ G
Sbjct: 164 HHGNGTQEIFYDDDDVLTVSLHQDGRP-FYPGTGGA---DEIGEGKEGNNVNIPL-PPGT 218
Query: 277 SDPEYIAAFQQVILPMYALDNHGLSRVLI-LDWDVHHG 313
D Y+ A ++++LP L+ V++ +D H G
Sbjct: 219 GDDSYLEALEEIVLP--LLEEFKPDLVIVSAGFDAHRG 254
Score = 88.2 bits (219), Expect = 7e-19
Identities = 42/117 (35%), Positives = 57/117 (48%), Gaps = 26/117 (22%)
Query: 252 AGP-HNVGEGKGEGFNV--NVAWNKKGMSDPEYIAAFQQVILPMYALDNHGLSRVLILDW 308
P H+ G + GF + NVA IAA Y L G+ RV I+D+
Sbjct: 121 RPPGHHAGRDRASGFCLFNNVA-----------IAA-------KYLLK-KGVKRVAIIDF 161
Query: 309 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAW 365
DVHHGNGTQ +FY+D VL +S+H+ F+P + A + EG NVN+
Sbjct: 162 DVHHGNGTQEIFYDDDDVLTVSLHQDGRP-FYPGTGGA---DEIGEGKEGNNVNIPL 214
>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 = 198 bits (507), Expect = 8e-59
Identities = 85/203 (41%), Positives = 114/203 (56%), Gaps = 14/203 (6%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
D VL GE A+ RPPGHHA +D GFC FNN ++AA+Y D G RV ILD DV
Sbjct: 98 ADLVLEGER-AAYALCRPPGHHAGRDRAGGFCYFNNAAIAAQYLRDRAG--RVAILDVDV 154
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAG-PHNVGEGKGEGFNVNV--AWNK 485
HHGNGTQ +FY P VLY+S+H +F+P G GEG+GEG+N+N+
Sbjct: 155 HHGNGTQEIFYERPDVLYVSIHGDPR-TFYPFF--LGFADETGEGEGEGYNLNLPLPP-- 209
Query: 486 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 545
G D +Y+AA + + IA F P+ ++VS G+D DPL K++ E YA +
Sbjct: 210 -GTGDDDYLAALDEALAAIA-AFGPDALVVSLGFDTHEGDPLSDFKLTTEDYARIGRRIA 267
Query: 546 ALAQGRIILALEGGYNISSISYA 568
AL + EGGYN+ ++
Sbjct: 268 AL-GLPTVFVQEGGYNVDALGRN 289
Score = 146 bits (371), Expect = 2e-39
Identities = 63/138 (45%), Positives = 81/138 (58%), Gaps = 12/138 (8%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
D VL GE A+ RPPGHHA +D GFC FNN ++AA+Y D G RV ILD DV
Sbjct: 98 ADLVLEGER-AAYALCRPPGHHAGRDRAGGFCYFNNAAIAAQYLRDRAG--RVAILDVDV 154
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAG-PHNVGEGKGEGFNVNV--AWNK 273
HHGNGTQ +FY P VLY+S+H +F+P G GEG+GEG+N+N+
Sbjct: 155 HHGNGTQEIFYERPDVLYVSIHGDPR-TFYPFF--LGFADETGEGEGEGYNLNLPLPP-- 209
Query: 274 KGMSDPEYIAAFQQVILP 291
G D +Y+AA + +
Sbjct: 210 -GTGDDDYLAALDEALAA 226
Score = 90.3 bits (225), Expect = 7e-20
Identities = 36/72 (50%), Positives = 45/72 (62%), Gaps = 6/72 (8%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAG-PHNV 351
Y D G RV ILD DVHHGNGTQ +FY P VLY+S+H +F+P G
Sbjct: 139 YLRDRAG--RVAILDVDVHHGNGTQEIFYERPDVLYVSIHGDPR-TFYPFF--LGFADET 193
Query: 352 GEGKGEGFNVNV 363
GEG+GEG+N+N+
Sbjct: 194 GEGEGEGYNLNL 205
>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 = 181 bits (461), Expect = 2e-52
Identities = 76/206 (36%), Positives = 113/206 (54%), Gaps = 15/206 (7%)
Query: 372 VLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHG 431
V GE A++ GHHA + GFC FN+V +A K+ L G+SR+LI+D D HHG
Sbjct: 88 VAKGELERAFAVVGAGGHHAGKSRAWGFCYFNDVVLAIKF-LRERGISRILIIDTDAHHG 146
Query: 432 NGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDP 491
+GT+ FY+D RVL++S H YD G GKG+G+ +NV + G+ D
Sbjct: 147 DGTREAFYDDDRVLHMSFHNYDIY------------PFGRGKGKGYKINVPL-EDGLGDE 193
Query: 492 EYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQ-G 550
EY+ A ++VI + +F PE+V++ G+D D LGG +S + + +K A+ G
Sbjct: 194 EYLDAVERVISKVLEEFEPEVVVLQFGHDTHEGDRLGGFNLSEKGFVKLAEIVKEFARGG 253
Query: 551 RIILALEGGYNISSISYAMTLCTKAL 576
I++ L GGYN + + T K L
Sbjct: 254 PILMVLGGGYNPEAAARIWTAIIKEL 279
Score = 129 bits (325), Expect = 2e-33
Identities = 58/154 (37%), Positives = 81/154 (52%), Gaps = 21/154 (13%)
Query: 136 LSFADLSVWGYVCEPYVDNHVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSV 195
A LS G V + V GE A++ GHHA + GFC FN+V +
Sbjct: 71 FRGARLSTGGVV-------EAAELVAKGELERAFAVVGAGGHHAGKSRAWGFCYFNDVVL 123
Query: 196 AAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPH 255
A K+ L G+SR+LI+D D HHG+GT+ FY+D RVL++S H YD
Sbjct: 124 AIKF-LRERGISRILIIDTDAHHGDGTREAFYDDDRVLHMSFHNYDIY------------ 170
Query: 256 NVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
G GKG+G+ +NV + G+ D EY+ A ++VI
Sbjct: 171 PFGRGKGKGYKINVPL-EDGLGDEEYLDAVERVI 203
Score = 76.7 bits (189), Expect = 2e-15
Identities = 33/81 (40%), Positives = 46/81 (56%), Gaps = 12/81 (14%)
Query: 284 AFQQVILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHS 343
F V+L + L G+SR+LI+D D HHG+GT+ FY+D RVL++S H YD
Sbjct: 117 YFNDVVLAIKFLRERGISRILIIDTDAHHGDGTREAFYDDDRVLHMSFHNYDIY------ 170
Query: 344 KDAGPHNVGEGKGEGFNVNVA 364
G GKG+G+ +NV
Sbjct: 171 ------PFGRGKGKGYKINVP 185
>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 = 162 bits (412), Expect = 5e-45
Identities = 71/200 (35%), Positives = 100/200 (50%), Gaps = 14/200 (7%)
Query: 369 VDSVLNGESAHGVAIIRPPG--HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 426
VL GE+ G HHA + GFC++N+ +VA + D G RV +D
Sbjct: 108 ARLVLEGEARRAFNPA---GGLHHAMRGRASGFCVYNDAAVAIERLRD-KGGLRVAYVDI 163
Query: 427 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 486
D HHG+G QA FY+DPRVL IS+H FP + +GEG+G G+ VN+
Sbjct: 164 DAHHGDGVQAAFYDDPRVLTISLHE-SGRYLFPGTGFV--DEIGEGEGYGYAVNIPL-PP 219
Query: 487 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 546
G D E++ AF+ V+ P+ F P++++ G DA DPL +S AY ++
Sbjct: 220 GTGDDEFLRAFEAVVPPLLRAFRPDVIVSQHGADAHAGDPLTHLNLSNRAYRAAVRRIRE 279
Query: 547 LA----QGRIILALEGGYNI 562
LA GR + GGYN
Sbjct: 280 LADEYCGGRWLALGGGGYNP 299
Score = 121 bits (307), Expect = 1e-30
Identities = 52/138 (37%), Positives = 73/138 (52%), Gaps = 10/138 (7%)
Query: 157 VDSVLNGESAHGVAIIRPPG--HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 214
VL GE+ G HHA + GFC++N+ +VA + D G RV +D
Sbjct: 108 ARLVLEGEARRAFNPA---GGLHHAMRGRASGFCVYNDAAVAIERLRD-KGGLRVAYVDI 163
Query: 215 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 274
D HHG+G QA FY+DPRVL IS+H FP + +GEG+G G+ VN+
Sbjct: 164 DAHHGDGVQAAFYDDPRVLTISLHE-SGRYLFPGTGFV--DEIGEGEGYGYAVNIPL-PP 219
Query: 275 GMSDPEYIAAFQQVILPM 292
G D E++ AF+ V+ P+
Sbjct: 220 GTGDDEFLRAFEAVVPPL 237
Score = 79.9 bits (198), Expect = 3e-16
Identities = 31/71 (43%), Positives = 41/71 (57%), Gaps = 3/71 (4%)
Query: 294 ALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGE 353
L + G RV +D D HHG+G QA FY+DPRVL IS+H FP + +GE
Sbjct: 149 RLRDKGGLRVAYVDIDAHHGDGVQAAFYDDPRVLTISLHE-SGRYLFPGTGFV--DEIGE 205
Query: 354 GKGEGFNVNVA 364
G+G G+ VN+
Sbjct: 206 GEGYGYAVNIP 216
>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 = 125 bits (316), Expect = 2e-31
Identities = 64/194 (32%), Positives = 102/194 (52%), Gaps = 7/194 (3%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++DE GFC N++ + + RVL +D D+HHG+G + F +V+ +S
Sbjct: 129 HHAQRDEASGFCYVNDIVLGILKLREK--FDRVLYVDLDLHHGDGVEDAFSFTSKVMTVS 186
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
+H+Y G FFP + D +VG GKG+ + VNV + G+ D +Y+ F V+ I F
Sbjct: 187 LHKYSPG-FFPGTGDVS--DVGLGKGKYYTVNVPL-RDGIQDEQYLQIFTAVVPEIVAAF 242
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYA 568
PE V++ G D DP+G ++P ++ +IL GGYN+++ +
Sbjct: 243 RPEAVVLQCGADTLAGDPMGAFNLTPVGIGKCLKYVLGWKLPTLILG-GGGYNLANTARC 301
Query: 569 MTLCTKALLGDPLP 582
T T +LG+PL
Sbjct: 302 WTYLTGLILGEPLS 315
Score = 87.4 bits (217), Expect = 1e-18
Identities = 41/113 (36%), Positives = 65/113 (57%), Gaps = 6/113 (5%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++DE GFC N++ + + RVL +D D+HHG+G + F +V+ +S
Sbjct: 129 HHAQRDEASGFCYVNDIVLGILKLREK--FDRVLYVDLDLHHGDGVEDAFSFTSKVMTVS 186
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
+H+Y G FFP + D +VG GKG+ + VNV + G+ D +Y+ F V+
Sbjct: 187 LHKYSPG-FFPGTGDVS--DVGLGKGKYYTVNVPL-RDGIQDEQYLQIFTAVV 235
Score = 63.5 bits (155), Expect = 1e-10
Identities = 27/63 (42%), Positives = 40/63 (63%), Gaps = 3/63 (4%)
Query: 301 SRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFN 360
RVL +D D+HHG+G + F +V+ +S+H+Y G FFP + D +VG GKG+ +
Sbjct: 157 DRVLYVDLDLHHGDGVEDAFSFTSKVMTVSLHKYSPG-FFPGTGDVS--DVGLGKGKYYT 213
Query: 361 VNV 363
VNV
Sbjct: 214 VNV 216
>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 = 113 bits (285), Expect = 5e-28
Identities = 52/147 (35%), Positives = 75/147 (51%), Gaps = 16/147 (10%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA D GFC+FN++++AA+ L + RVLI+D DVH GNGT A+F +DP V S
Sbjct: 102 HHAFPDRGEGFCVFNDIAIAARVLLAEGLVRRVLIVDLDVHQGNGTAAIFADDPSVFTFS 161
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
+H +P K+ +V G D EY+AA ++ + + +F
Sbjct: 162 MH---GEKNYPFRKEPSDLDVPL-------------PDGTGDDEYLAALEEALPRLLAEF 205
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPE 535
P+LV +AG D D LG +S E
Sbjct: 206 RPDLVFYNAGVDVLAGDRLGRLSLSLE 232
Score = 86.8 bits (216), Expect = 6e-19
Identities = 40/112 (35%), Positives = 57/112 (50%), Gaps = 16/112 (14%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA D GFC+FN++++AA+ L + RVLI+D DVH GNGT A+F +DP V S
Sbjct: 102 HHAFPDRGEGFCVFNDIAIAARVLLAEGLVRRVLIVDLDVHQGNGTAAIFADDPSVFTFS 161
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQV 288
+H +P K+ +V G D EY+AA ++
Sbjct: 162 MH---GEKNYPFRKEPSDLDVPL-------------PDGTGDDEYLAALEEA 197
Score = 56.4 bits (137), Expect = 1e-08
Identities = 25/66 (37%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
L + RVLI+D DVH GNGT A+F +DP V S+H +P K+ +V
Sbjct: 124 VLLAEGLVRRVLIVDLDVHQGNGTAAIFADDPSVFTFSMH---GEKNYPFRKEPSDLDVP 180
Query: 353 EGKGEG 358
G G
Sbjct: 181 LPDGTG 186
>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 = 108 bits (272), Expect = 6e-26
Identities = 53/150 (35%), Positives = 82/150 (54%), Gaps = 7/150 (4%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ +A L H RVL +D D+HHG+G + FY RV+ +S
Sbjct: 127 HHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDIDIHHGDGVEEAFYTTDRVMTVS 184
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
H++ FFP + G ++G GKG+ + VNV K G+ D Y+ F+ V+ + F
Sbjct: 185 FHKFGEY-FFPGT---GLRDIGAGKGKYYAVNVPL-KDGIDDESYLQIFEPVLSKVMEVF 239
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYA 538
P V++ G D+ D LG +S + +A
Sbjct: 240 QPSAVVLQCGADSLAGDRLGCFNLSIKGHA 269
Score = 91.9 bits (229), Expect = 2e-20
Identities = 43/113 (38%), Positives = 65/113 (57%), Gaps = 7/113 (6%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ +A L H RVL +D D+HHG+G + FY RV+ +S
Sbjct: 127 HHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDIDIHHGDGVEEAFYTTDRVMTVS 184
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
H++ FFP + G ++G GKG+ + VNV K G+ D Y+ F+ V+
Sbjct: 185 FHKFGEY-FFPGT---GLRDIGAGKGKYYAVNVPL-KDGIDDESYLQIFEPVL 232
Score = 63.4 bits (155), Expect = 7e-11
Identities = 26/62 (41%), Positives = 39/62 (62%), Gaps = 4/62 (6%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D D+HHG+G + FY RV+ +S H++ FFP + G ++G GKG+ + V
Sbjct: 156 RVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKFGEY-FFPGT---GLRDIGAGKGKYYAV 211
Query: 362 NV 363
NV
Sbjct: 212 NV 213
>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 = 109 bits (274), Expect = 6e-26
Identities = 74/245 (30%), Positives = 96/245 (39%), Gaps = 58/245 (23%)
Query: 369 VDSVLNGESA---HGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILD 425
VDSV ES IRPPGHH + P GFC NNV V A +A HG++RV+ILD
Sbjct: 97 VDSVFKPESPGTKRAFVAIRPPGHHCSESTPSGFCWVNNVHVGAAHAYLTHGITRVVILD 156
Query: 426 WDVHHGNGTQAM------------------------FYNDPRVLYISVHRYDHGSFFPHS 461
D+HHGNGTQ + R+ Y S+H D SF
Sbjct: 157 IDLHHGNGTQDIAWRINAEANKQALESSSYDDFKPAGAPGLRIFYSSLH--DINSFPCED 214
Query: 462 KDAG---PHNVGEGKGEGFNVNVAWNK-----------KGMSDPEYIAAFQQVILPIAYQ 507
D +V G + WN + P+Y F++ +
Sbjct: 215 GDPAKVKDASVSIDGAHGQWI---WNVHLQPWTTEEDFWELYYPKYRILFEKAAEFLRLT 271
Query: 508 FNPE----LVLVSAGYDACVNDPLG----GCKVSPEAYAHFT----HWLKALAQGRIILA 555
LV +SAG+DA ++ G V Y F + A A GR+I
Sbjct: 272 TAATPFKTLVFISAGFDASEHEYESMQRHGVNVPTSFYYRFARDAVRFADAHAHGRLISV 331
Query: 556 LEGGY 560
LEGGY
Sbjct: 332 LEGGY 336
Score = 92.1 bits (229), Expect = 3e-20
Identities = 38/72 (52%), Positives = 45/72 (62%), Gaps = 3/72 (4%)
Query: 157 VDSVLNGESA---HGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILD 213
VDSV ES IRPPGHH + P GFC NNV V A +A HG++RV+ILD
Sbjct: 97 VDSVFKPESPGTKRAFVAIRPPGHHCSESTPSGFCWVNNVHVGAAHAYLTHGITRVVILD 156
Query: 214 WDVHHGNGTQAM 225
D+HHGNGTQ +
Sbjct: 157 IDLHHGNGTQDI 168
Score = 46.7 bits (111), Expect = 2e-05
Identities = 16/28 (57%), Positives = 22/28 (78%)
Query: 292 MYALDNHGLSRVLILDWDVHHGNGTQAM 319
+A HG++RV+ILD D+HHGNGTQ +
Sbjct: 141 AHAYLTHGITRVVILDIDLHHGNGTQDI 168
>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 = 105 bits (264), Expect = 1e-24
Identities = 61/194 (31%), Positives = 102/194 (52%), Gaps = 8/194 (4%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ + L H RVL +D DVHHG+G + FY RV+ S
Sbjct: 133 HHAKKSEASGFCYVNDIVLGILELLRYH--QRVLYIDIDVHHGDGVEEAFYTTDRVMTCS 190
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
H+Y G +FP + + ++G G G+ + VNV + G+ D Y + F+ VI + +
Sbjct: 191 FHKY--GEYFPGTGEL--RDIGIGTGKNYAVNVPL-RDGIDDESYKSIFEPVIKHVMEWY 245
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYA 568
PE V++ G D+ D LG +S + +A+ +++K+ ++L GGY + +++
Sbjct: 246 QPEAVVLQCGGDSLSGDRLGCFNLSMKGHANCVNFVKSFNLPMLVLG-GGGYTMRNVART 304
Query: 569 MTLCTKALLGDPLP 582
T L G+ L
Sbjct: 305 WAFETGLLAGEELD 318
Score = 81.0 bits (200), Expect = 2e-16
Identities = 42/113 (37%), Positives = 63/113 (55%), Gaps = 7/113 (6%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ + L H RVL +D DVHHG+G + FY RV+ S
Sbjct: 133 HHAKKSEASGFCYVNDIVLGILELLRYH--QRVLYIDIDVHHGDGVEEAFYTTDRVMTCS 190
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
H+Y G +FP + + ++G G G+ + VNV + G+ D Y + F+ VI
Sbjct: 191 FHKY--GEYFPGTGEL--RDIGIGTGKNYAVNVPL-RDGIDDESYKSIFEPVI 238
Score = 56.0 bits (135), Expect = 3e-08
Identities = 26/62 (41%), Positives = 38/62 (61%), Gaps = 4/62 (6%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D DVHHG+G + FY RV+ S H+Y G +FP + + ++G G G+ + V
Sbjct: 162 RVLYIDIDVHHGDGVEEAFYTTDRVMTCSFHKY--GEYFPGTGEL--RDIGIGTGKNYAV 217
Query: 362 NV 363
NV
Sbjct: 218 NV 219
>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 = 101 bits (253), Expect = 3e-23
Identities = 62/194 (31%), Positives = 101/194 (52%), Gaps = 8/194 (4%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ +A L H RVL +D D+HHG+G + FY RV+ +S
Sbjct: 137 HHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIHHGDGVEEAFYTTDRVMTVS 194
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
H+Y G +FP + D ++G GKG+ + VN + G+ D Y A F+ V+ + F
Sbjct: 195 FHKY--GEYFPGTGDL--RDIGAGKGKYYAVNYPL-RDGIDDESYEAIFKPVMSKVMEMF 249
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYA 568
P V++ G D+ D LG ++ + +A ++K+ ++L GGY I +++
Sbjct: 250 QPSAVVLQCGADSLSGDRLGCFNLTIKGHAKCVEFVKSFNLPMLMLG-GGGYTIRNVARC 308
Query: 569 MTLCTKALLGDPLP 582
T T L +P
Sbjct: 309 WTYETAVALDSEIP 322
Score = 77.8 bits (191), Expect = 2e-15
Identities = 43/113 (38%), Positives = 65/113 (57%), Gaps = 7/113 (6%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ +A L H RVL +D D+HHG+G + FY RV+ +S
Sbjct: 137 HHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIHHGDGVEEAFYTTDRVMTVS 194
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
H+Y G +FP + D ++G GKG+ + VN + G+ D Y A F+ V+
Sbjct: 195 FHKY--GEYFPGTGDL--RDIGAGKGKYYAVNYPL-RDGIDDESYEAIFKPVM 242
Score = 54.3 bits (130), Expect = 9e-08
Identities = 27/69 (39%), Positives = 41/69 (59%), Gaps = 4/69 (5%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D D+HHG+G + FY RV+ +S H+Y G +FP + D ++G GKG+ + V
Sbjct: 166 RVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKY--GEYFPGTGDL--RDIGAGKGKYYAV 221
Query: 362 NVAWNKVVD 370
N +D
Sbjct: 222 NYPLRDGID 230
>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 = 99.5 bits (248), Expect = 7e-23
Identities = 56/182 (30%), Positives = 94/182 (51%), Gaps = 7/182 (3%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ +A L RVL +D DVHHG+G + FY RV+ +S
Sbjct: 131 HHAKKSEASGFCYVNDIVLAILNLLRYF--PRVLYIDIDVHHGDGVEEAFYRTDRVMTLS 188
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
H+Y+ G FFP + D + G G+ F +NV G+ D +Y F+ +I P +F
Sbjct: 189 FHKYN-GEFFPGTGDLD--DNGGTPGKHFALNVPLE-DGIDDEQYNLLFKSIIGPTIEKF 244
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYA 568
P +++ G D+ D LG ++ +A+ ++K+ +++ GGY +++ A
Sbjct: 245 QPSAIVLQCGADSLGGDRLGQFNLNIKAHGACVKFVKSFGIPMLVVG-GGGYTPRNVARA 303
Query: 569 MT 570
Sbjct: 304 WC 305
Score = 81.3 bits (201), Expect = 8e-17
Identities = 43/116 (37%), Positives = 63/116 (54%), Gaps = 6/116 (5%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ +A L RVL +D DVHHG+G + FY RV+ +S
Sbjct: 131 HHAKKSEASGFCYVNDIVLAILNLLRYF--PRVLYIDIDVHHGDGVEEAFYRTDRVMTLS 188
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPM 292
H+Y+ G FFP + D + G G+ F +NV G+ D +Y F+ +I P
Sbjct: 189 FHKYN-GEFFPGTGDLD--DNGGTPGKHFALNVPLE-DGIDDEQYNLLFKSIIGPT 240
Score = 57.9 bits (140), Expect = 5e-09
Identities = 28/69 (40%), Positives = 40/69 (57%), Gaps = 3/69 (4%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D DVHHG+G + FY RV+ +S H+Y+ G FFP + D + G G+ F +
Sbjct: 160 RVLYIDIDVHHGDGVEEAFYRTDRVMTLSFHKYN-GEFFPGTGDLD--DNGGTPGKHFAL 216
Query: 362 NVAWNKVVD 370
NV +D
Sbjct: 217 NVPLEDGID 225
>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 = 96.6 bits (241), Expect = 4e-22
Identities = 52/174 (29%), Positives = 81/174 (46%), Gaps = 10/174 (5%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ GFC N++ V A L RV LD D+HHG+G ++ F+ VL S
Sbjct: 115 HHAQKSRASGFCYVNDI-VLAILRLRRARFRRVFYLDLDLHHGDGVESAFFFSKNVLTCS 173
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
+HRYD G FFP + + + +N+ K+G+SD + ++ P+ +F
Sbjct: 174 IHRYDPG-FFPGTGSL------KNSSDKGMLNIP-LKRGLSDKTLLRIIDSIVRPLIEKF 225
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTH-WLKALAQGRIILALEGGYN 561
PE++++ G D DP ++ Y LK +L GGYN
Sbjct: 226 EPEVIVIQCGCDGLSGDPHKEWNLTIRGYGSVIELLLKEFKDKPTLLLGGGGYN 279
Score = 69.2 bits (170), Expect = 8e-13
Identities = 37/115 (32%), Positives = 57/115 (49%), Gaps = 9/115 (7%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ GFC N++ V A L RV LD D+HHG+G ++ F+ VL S
Sbjct: 115 HHAQKSRASGFCYVNDI-VLAILRLRRARFRRVFYLDLDLHHGDGVESAFFFSKNVLTCS 173
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILP 291
+HRYD G FFP + + + +N+ K+G+SD + ++ P
Sbjct: 174 IHRYDPG-FFPGTGSL------KNSSDKGMLNIP-LKRGLSDKTLLRIIDSIVRP 220
Score = 53.0 bits (128), Expect = 2e-07
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 288 VILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFP 341
++L + L RV LD D+HHG+G ++ F+ VL S+HRYD G FFP
Sbjct: 131 IVLAILRLRRARFRRVFYLDLDLHHGDGVESAFFFSKNVLTCSIHRYDPG-FFP 183
>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 = 94.4 bits (235), Expect = 9e-21
Identities = 60/194 (30%), Positives = 99/194 (51%), Gaps = 7/194 (3%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ +A L H RVL +D D+HHG+G Q FY RV+ +S
Sbjct: 132 HHAKKFEASGFCYVNDIVIAILELLKYH--PRVLYIDIDIHHGDGVQEAFYLTDRVMTVS 189
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
H+Y FFP + D + VG G ++VNV K G+ D Y+ F+ VI + +
Sbjct: 190 FHKYG-NYFFPGTGDM--YEVGAESGRYYSVNVPL-KDGIDDQSYLQLFKPVIQQVIDFY 245
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYA 568
P +++ G D+ D LG +S + + ++K+ ++L GGY + +++
Sbjct: 246 QPTCIVLQCGADSLGCDRLGCFNLSIKGHGECVEFVKSFNIPLLVLG-GGGYTVRNVARC 304
Query: 569 MTLCTKALLGDPLP 582
T T L+ + +
Sbjct: 305 WTYETSLLVDEEIS 318
Score = 80.1 bits (198), Expect = 4e-16
Identities = 45/113 (39%), Positives = 63/113 (55%), Gaps = 6/113 (5%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ +A L H RVL +D D+HHG+G Q FY RV+ +S
Sbjct: 132 HHAKKFEASGFCYVNDIVIAILELLKYH--PRVLYIDIDIHHGDGVQEAFYLTDRVMTVS 189
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
H+Y FFP + D + VG G ++VNV K G+ D Y+ F+ VI
Sbjct: 190 FHKYG-NYFFPGTGDM--YEVGAESGRYYSVNVPL-KDGIDDQSYLQLFKPVI 238
Score = 53.9 bits (130), Expect = 1e-07
Identities = 27/62 (43%), Positives = 37/62 (59%), Gaps = 3/62 (4%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D D+HHG+G Q FY RV+ +S H+Y FFP + D + VG G ++V
Sbjct: 161 RVLYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYG-NYFFPGTGDM--YEVGAESGRYYSV 217
Query: 362 NV 363
NV
Sbjct: 218 NV 219
>gnl|CDD|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional.
Length = 429
Score = 93.6 bits (232), Expect = 3e-20
Identities = 62/197 (31%), Positives = 103/197 (52%), Gaps = 11/197 (5%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HH++ E GFC N++ + L H RVL +D D+HHG+G F RV +S
Sbjct: 154 HHSKCGECSGFCYVNDIVLGILELLKCH--DRVLYVDIDMHHGDGVDEAFCTSDRVFTLS 211
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVA-WNKKGMSDPEYIAAFQQVILPIAYQ 507
+H++ SFFP + P +VG G+G +++N+A W+ G++D Y+ F+ + I +
Sbjct: 212 LHKFGE-SFFPGT--GHPRDVGYGRGRYYSMNLAVWD--GITDFYYLGLFEHALHSIVRR 266
Query: 508 FNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILAL-EGGYNISSIS 566
++P+ +++ G D+ D LG +S + ++ L G +LAL GGY I +++
Sbjct: 267 YSPDAIVLQCGADSLAGDRLGLLNLSSFGHGQCVQAVRDL--GIPMLALGGGGYTIRNVA 324
Query: 567 YAMTLCTKALLGDPLPL 583
T L G PLP
Sbjct: 325 KLWAYETSILTGHPLPP 341
Score = 65.8 bits (160), Expect = 2e-11
Identities = 39/114 (34%), Positives = 64/114 (56%), Gaps = 8/114 (7%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HH++ E GFC N++ + L H RVL +D D+HHG+G F RV +S
Sbjct: 154 HHSKCGECSGFCYVNDIVLGILELLKCH--DRVLYVDIDMHHGDGVDEAFCTSDRVFTLS 211
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVA-WNKKGMSDPEYIAAFQQVI 289
+H++ SFFP + P +VG G+G +++N+A W+ G++D Y+ F+ +
Sbjct: 212 LHKFGE-SFFPGT--GHPRDVGYGRGRYYSMNLAVWD--GITDFYYLGLFEHAL 260
Score = 53.1 bits (127), Expect = 3e-07
Identities = 31/86 (36%), Positives = 50/86 (58%), Gaps = 5/86 (5%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D D+HHG+G F RV +S+H++ SFFP + P +VG G+G +++
Sbjct: 183 RVLYVDIDMHHGDGVDEAFCTSDRVFTLSLHKFGE-SFFPGT--GHPRDVGYGRGRYYSM 239
Query: 362 NVA-WNKVVDSVLNGESAHGV-AIIR 385
N+A W+ + D G H + +I+R
Sbjct: 240 NLAVWDGITDFYYLGLFEHALHSIVR 265
>gnl|CDD|240251 PTZ00063, PTZ00063, histone deacetylase; Provisional.
Length = 436
Score = 89.1 bits (221), Expect = 9e-19
Identities = 54/178 (30%), Positives = 97/178 (54%), Gaps = 8/178 (4%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ + L H +RV+ +D DVHHG+G + FY RV+ +S
Sbjct: 137 HHAKRSEASGFCYINDIVLGILELLKYH--ARVMYIDIDVHHGDGVEEAFYVTHRVMTVS 194
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
H++ G FFP + D ++G +G+ ++VNV N G+ D ++ F+ VI +
Sbjct: 195 FHKF--GDFFPGTGDVT--DIGVAQGKYYSVNVPLN-DGIDDDSFVDLFKPVISKCVEVY 249
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSIS 566
P +++ G D+ D LG ++ + +A ++++L ++L GGY I +++
Sbjct: 250 RPGAIVLQCGADSLTGDRLGRFNLTIKGHAACVEFVRSLNIPLLVLG-GGGYTIRNVA 306
Score = 78.3 bits (193), Expect = 2e-15
Identities = 41/113 (36%), Positives = 66/113 (58%), Gaps = 7/113 (6%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ + L H +RV+ +D DVHHG+G + FY RV+ +S
Sbjct: 137 HHAKRSEASGFCYINDIVLGILELLKYH--ARVMYIDIDVHHGDGVEEAFYVTHRVMTVS 194
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
H++ G FFP + D ++G +G+ ++VNV N G+ D ++ F+ VI
Sbjct: 195 FHKF--GDFFPGTGDVT--DIGVAQGKYYSVNVPLN-DGIDDDSFVDLFKPVI 242
Score = 54.8 bits (132), Expect = 7e-08
Identities = 27/70 (38%), Positives = 44/70 (62%), Gaps = 4/70 (5%)
Query: 301 SRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFN 360
+RV+ +D DVHHG+G + FY RV+ +S H++ G FFP + D ++G +G+ ++
Sbjct: 165 ARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFHKF--GDFFPGTGDVT--DIGVAQGKYYS 220
Query: 361 VNVAWNKVVD 370
VNV N +D
Sbjct: 221 VNVPLNDGID 230
>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 = 84.0 bits (207), Expect = 2e-17
Identities = 58/194 (29%), Positives = 97/194 (50%), Gaps = 8/194 (4%)
Query: 389 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 448
HHA++ E GFC N++ +A L H RVL +D D+HHG+G + FY RV+ +S
Sbjct: 133 HHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIHHGDGVEEAFYTTDRVMTVS 190
Query: 449 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQF 508
+ +G +FP + D ++G GKG+ + VN + G+ D Y F+ +I + +
Sbjct: 191 --FHKYGEYFPGTGDL--RDIGAGKGKYYAVNFPM-RDGIDDESYGQIFKPIISKVMEMY 245
Query: 509 NPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYA 568
P V++ G D+ D LG ++ + +A +K ++L GGY I +++
Sbjct: 246 QPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLG-GGGYTIRNVARC 304
Query: 569 MTLCTKALLGDPLP 582
T T L +P
Sbjct: 305 WTYETAVALDCEIP 318
Score = 65.1 bits (158), Expect = 3e-11
Identities = 40/113 (35%), Positives = 63/113 (55%), Gaps = 7/113 (6%)
Query: 177 HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYIS 236
HHA++ E GFC N++ +A L H RVL +D D+HHG+G + FY RV+ +S
Sbjct: 133 HHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIHHGDGVEEAFYTTDRVMTVS 190
Query: 237 VHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
+ +G +FP + D ++G GKG+ + VN + G+ D Y F+ +I
Sbjct: 191 --FHKYGEYFPGTGDL--RDIGAGKGKYYAVNFPM-RDGIDDESYGQIFKPII 238
Score = 43.1 bits (101), Expect = 3e-04
Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 302 RVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNV 361
RVL +D D+HHG+G + FY RV+ +S + +G +FP + D ++G GKG+ + V
Sbjct: 162 RVLYIDIDIHHGDGVEEAFYTTDRVMTVS--FHKYGEYFPGTGDL--RDIGAGKGKYYAV 217
Query: 362 NVAWNKVVDSVLNGE 376
N +D G+
Sbjct: 218 NFPMRDGIDDESYGQ 232
>gnl|CDD|216903 pfam02148, zf-UBP, Zn-finger in ubiquitin-hydrolases and other
protein.
Length = 63
Score = 57.0 bits (138), Expect = 1e-10
Identities = 21/45 (46%), Positives = 27/45 (60%)
Query: 19 VRCGRYIEEHSMLHGVSTEHPLALSFADLSVWCYVCEAYVDNHLL 63
V CGRY H++ H T HPLA+S VWCY C+ YV + +L
Sbjct: 19 VGCGRYSNGHALKHYEETGHPLAVSLETGRVWCYACDDYVHDPVL 63
Score = 39.3 bits (92), Expect = 2e-04
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 83 TEHPLALSFADLSVWCYVCEAYVDNHLL 110
T HPLA+S VWCY C+ YV + +L
Sbjct: 36 TGHPLAVSLETGRVWCYACDDYVHDPVL 63
Score = 30.8 bits (70), Expect = 0.21
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 130 TEHPLALSFADLSVWGYVCEPYVDNHV 156
T HPLA+S VW Y C+ YV + V
Sbjct: 36 TGHPLAVSLETGRVWCYACDDYVHDPV 62
>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 = 54.3 bits (131), Expect = 3e-08
Identities = 21/181 (11%), Positives = 47/181 (25%), Gaps = 34/181 (18%)
Query: 419 SRVLILDWDVHHGNGTQAMFYN--------------DPRVLYISVHRYDHGSFFPHSKDA 464
+ ++D D HH T F V +S+ +
Sbjct: 50 PDLGVIDVDAHHDVRTPEAFGKGNHHTPRHLLCEPLISDVHIVSIGIRGVSNGEAG---- 105
Query: 465 GPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN 524
G + V + + F++++ + + V +S D
Sbjct: 106 -----GAYARKLGVVYFS--MTEVDKLGLGDVFEEIVSYL--GDKGDNVYLSVDVDGLDP 156
Query: 525 DPLGGCKVSPEA----YAHFTHWLKALAQ--GRIILALEGGYNISSISYAMTLCTKALLG 578
G +P Y + + +A+ + L + + + AL
Sbjct: 157 SFAPGTG-TPGPGGLSYREGLYITERIAKTNLVVGLDIVEVNPLLDETGRTARLAAALTL 215
Query: 579 D 579
+
Sbjct: 216 E 216
Score = 44.7 bits (106), Expect = 5e-05
Identities = 11/97 (11%), Positives = 24/97 (24%), Gaps = 25/97 (25%)
Query: 207 SRVLILDWDVHHGNGTQAMFYN--------------DPRVLYISVHRYDHGSFFPHSKDA 252
+ ++D D HH T F V +S+ +
Sbjct: 50 PDLGVIDVDAHHDVRTPEAFGKGNHHTPRHLLCEPLISDVHIVSIGIRGVSNGEAG---- 105
Query: 253 GPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVI 289
G + V + + F++++
Sbjct: 106 -----GAYARKLGVVYFS--MTEVDKLGLGDVFEEIV 135
Score = 42.0 bits (99), Expect = 4e-04
Identities = 10/65 (15%), Positives = 16/65 (24%), Gaps = 14/65 (21%)
Query: 301 SRVLILDWDVHHGNGTQAMFYN--------------DPRVLYISVHRYDHGSFFPHSKDA 346
+ ++D D HH T F V +S+ + A
Sbjct: 50 PDLGVIDVDAHHDVRTPEAFGKGNHHTPRHLLCEPLISDVHIVSIGIRGVSNGEAGGAYA 109
Query: 347 GPHNV 351
V
Sbjct: 110 RKLGV 114
>gnl|CDD|197632 smart00290, ZnF_UBP, Ubiquitin Carboxyl-terminal Hydrolase-like
zinc finger.
Length = 50
Score = 33.9 bits (78), Expect = 0.014
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 19 VRCGRYIEEHSMLHGVSTEHPLALSFADLSV 49
V CGRY H++ H T HPL + V
Sbjct: 20 VGCGRYQNGHALEHFEETGHPLVVKLGTQRV 50
>gnl|CDD|187703 cd09279, RNase_HI_archaeal_like, RNAse HI family that includes
Archaeal RNase HI. Ribonuclease H (RNase H) is
classified into two evolutionarily unrelated families,
type 1 (prokaryotic RNase HI, eukaryotic RNase H1 and
viral RNase H) and type 2 (prokaryotic RNase HII and
HIII, and eukaryotic RNase H2). RNase H is an
endonuclease that cleaves the RNA strand of an RNA/DNA
hybrid in a sequence non-specific manner. RNase H is
involved in DNA replication, repair and transcription.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. One of the important
functions of RNase H is to remove Okazaki fragments
during DNA replication. Most archaeal genomes contain
only type 2 RNase H (RNase HII); however, a few contain
RNase HI as well. Although archaeal RNase HI sequences
conserve the DEDD active-site motif, they lack other
common features important for catalytic function, such
as the basic protrusion region. Archaeal RNase HI
homologs are more closely related to retroviral RNase HI
than bacterial and eukaryotic type I RNase H in
enzymatic properties.
Length = 128
Score = 29.0 bits (66), Expect = 3.5
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 3/38 (7%)
Query: 163 GESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYA 200
G + G+ I P G EQ P GF NN A+Y
Sbjct: 14 GPAGAGIVIKSPDGEVLEQSIPLGFPATNNE---AEYE 48
Score = 29.0 bits (66), Expect = 3.5
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 3/38 (7%)
Query: 375 GESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYA 412
G + G+ I P G EQ P GF NN A+Y
Sbjct: 14 GPAGAGIVIKSPDGEVLEQSIPLGFPATNNE---AEYE 48
>gnl|CDD|177237 MTH00188, ND4L, NADH dehydrogenase subunit 4L; Provisional.
Length = 97
Score = 28.4 bits (64), Expect = 3.7
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 60 NHLLALLIYLYGVM----YVNPMSIIITEHPLALSFADLSVWCYVCEAYVDNHLLALLIY 115
HLL LL+ L +M + + + E L LS L+ CEA V LL LI
Sbjct: 25 KHLLMLLLSLEAIMLSLFWFLLVGLSYMEKELYLSLVLLTF--AACEASVGLALLVSLIR 82
Query: 116 LYGVMYVKPMSII 128
+G YV +++I
Sbjct: 83 SHGSDYVSSLNLI 95
>gnl|CDD|238807 cd01573, modD_like, ModD; Quinolinate phosphoribosyl transferase
(QAPRTase or QPRTase) present in some modABC operons in
bacteria, which are involved in molybdate transport. In
general, QPRTases are part of the de novo synthesis
pathway of NAD in both prokaryotes and eukaryotes. They
catalyse the reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide.
Length = 272
Score = 29.6 bits (67), Expect = 4.1
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 531 KVSPEAYAHFTHWLKALAQGRIILALEGGYNISSIS-YAMT 570
K SPE A L++LA ++LA GG NI + + YA
Sbjct: 211 KFSPEELAELVPKLRSLAPP-VLLAAAGGINIENAAAYAAA 250
>gnl|CDD|176477 cd08640, DNA_pol_A_plastid_like, DNA polymerase A type from
plastids of higher plants possibly involve in DNA
replication or in the repair of errors occurring during
replication. DNA polymerase A type from plastids of
higher plants possibly involve in DNA replication or in
the repair of errors occurring during replication.
Family A polymerase functions primarily to fill DNA gaps
that arise during DNA repair, recombination and
replication. DNA-dependent DNA polymerases can be
classified in six main groups based upon phylogenetic
relationships with E. coli polymerase I (classA), E.
coli polymerase II (class B), E.coli polymerase III
(class C), euryarchaaeota polymerase II (class D), human
polymerase beta (class x), E. coli UmuC/DinB and
eukaryotic RAP 30/Xeroderma pigmentosum variant (class
Y). Family A polymerase are found primarily in organisms
related to prokaryotes and include prokaryotic DNA
polymerase I ,mitochondrial polymerase delta, and
several bacteriphage polymerases including those from
odd-numbered phage (T3, T5, and T7). The
three-dimensional structure of plastid DNA polymerase
has substantial similarity to Pol I. The structure of
Pol I resembles in overall morphology a cupped human
right hand, with fingers (which bind an incoming
nucleotide and interact with the single-stranded
template), palm (which harbors the catalytic amino acid
residues and also binds an incoming dNTP) and thumb
(which binds double-stranded DNA) subdomains.
Length = 371
Score = 29.3 bits (66), Expect = 6.9
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 613 KFLVALPENKLLSADYAQL 631
K +A P N L+ ADY+QL
Sbjct: 111 KAFIASPGNTLIVADYSQL 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
0.322 0.139 0.444
Gapped
Lambda K H
0.267 0.0702 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 32,913,568
Number of extensions: 3270948
Number of successful extensions: 2391
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2238
Number of HSP's successfully gapped: 105
Length of query: 632
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 529
Effective length of database: 6,369,140
Effective search space: 3369275060
Effective search space used: 3369275060
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: 62 (27.7 bits)