RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14515
(586 letters)
>gnl|CDD|212526 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, domain 1 and
histone deacetylase 10. Histone deacetylases 6 and 10
are class IIb Zn-dependent enzymes that catalyze
hydrolysis of N(6)-acetyl-lysine of a histone to yield a
deacetylated histone (EC 3.5.1.98). Histone
acetylation/deacetylation process is important for
mediation of transcriptional regulation of many genes.
HDACs usually act via association with DNA binding
proteins to target specific chromatin regions. HDAC6 is
the only histone deacetylase with internal duplication
of two catalytic domains which appear to function
independently of each other, and also has a C-terminal
ubiquitin-binding domain. It is located in the cytoplasm
and associates with microtubule motor complex,
functioning as the tubulin deacetylase and regulating
microtubule-dependent cell motility. HDAC10 has an
N-terminal deacetylase domain and a C-terminal
pseudo-repeat that shares significant similarity with
its catalytic domain. It is located in the nucleus and
cytoplasm, and is involved in regulation of
melanogenesis. It transcriptionally down-regulates
thioredoxin-interacting protein (TXNIP), leading to
altered reactive oxygen species (ROS) signaling in human
gastric cancer cells. Known interaction partners of
HDAC6 are alpha tubulin (substrate) and ubiquitin-like
modifier FAT10 (also known as Ubiquitin D or UBD) while
interaction partners of HDAC10 are Pax3, KAP1, hsc70 and
HDAC3 proteins.
Length = 336
Score = 341 bits (877), Expect = e-113
Identities = 140/323 (43%), Positives = 186/323 (57%), Gaps = 78/323 (24%)
Query: 7 IKDPCKELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDA 66
I + + GL++RC I REA ++EIL H+ E I+L+ +TE + LE L S YD+
Sbjct: 17 ILERLTQDGLLERCVKIPAREAEEDEILLVHSQEYIDLVKSTETMEK-EELESLCSGYDS 75
Query: 67 IYIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNG 126
+Y+ PS+Y+ + L+AGSTIEL V + G+I+NG
Sbjct: 76 VYLCPSTYEAARLAAGSTIEL---------------------------VKAVMAGKIQNG 108
Query: 127 MAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYN 186
A+IRPPGHHAM++E GYC FNNVA+AA++A++ + R+LIVDWDVHHGQ TQQ FY
Sbjct: 109 FALIRPPGHHAMRNEANGYCIFNNVAIAAKYAIEKLGLKRILIVDWDVHHGQGTQQGFYE 168
Query: 187 DNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQV 246
D RV+YFSIHRYEHG FWP+L ES+YD+IG G G G+N N+PLN+T + DADY+A+FH +
Sbjct: 169 DPRVLYFSIHRYEHGRFWPHLFESDYDYIGVGHGYGFNVNVPLNQTGLGDADYLAIFHHI 228
Query: 247 LLPM--------------------------------------------------VAEGGY 256
LLP+ V EGGY
Sbjct: 229 LLPLALEFQPELVLVSAGFDASIGDPEGEMAVTPAGYAHLTRLLMGLAGGKLLLVLEGGY 288
Query: 257 CLKSLAEGAALTLRALLDDPCPN 279
L+SLAE ++TLR LL DP P
Sbjct: 289 LLESLAESVSMTLRGLLGDPLPP 311
Score = 145 bits (367), Expect = 9e-39
Identities = 58/163 (35%), Positives = 81/163 (49%), Gaps = 40/163 (24%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 417
G+ D +Y+A F ++LP+A +F PELVLVSAG+DA + DP G V+P YAH T L
Sbjct: 214 TGLGDADYLAIFHHILLPLALEFQPELVLVSAGFDASIGDPEGEMAVTPAGYAHLTRLLM 273
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKVIIIIN 477
LA G+++L LEGGY + S++ ++++ + LLGDPLP L + I S
Sbjct: 274 GLAGGKLLLVLEGGYLLESLAESVSMTLRGLLGDPLPPLAPPIPIRS------------- 320
Query: 478 NNNSVYLYCSHRTENPFAFLSFLSLKNITETILNCIYEHRPYW 520
+ ETILN I P W
Sbjct: 321 ---------------------------VLETILNAIAHLSPRW 336
>gnl|CDD|212527 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 2. Histone
deacetylase 6 is a class IIb Zn-dependent enzyme that
catalyzes hydrolysis of N(6)-acetyl-lysine residue of a
histone to yield a deacetylated histone (EC 3.5.1.98).
Histone acetylation/deacetylation process is important
for mediation of transcriptional regulation of many
genes. HDACs usually act via association with DNA
binding proteins to target specific chromatin regions.
HDAC6 is the only histone deacetylase with internal
duplication of two catalytic domains which appear to
function independently of each other, and also has a
C-terminal ubiquitin-binding domain. It is located in
the cytoplasm and associates with microtubule motor
complex, functioning as the tubulin deacetylase and
regulating microtubule-dependent cell motility. Known
interaction partners of HDAC6 are alpha tubulin and
ubiquitin-like modifier FAT10 (also known as Ubiquitin D
or UBD).
Length = 350
Score = 298 bits (765), Expect = 1e-96
Identities = 120/353 (33%), Positives = 178/353 (50%), Gaps = 93/353 (26%)
Query: 1 MLKHVNIKDP---------------CKELGLVQRCKFIQPREATQEEILKKHTIEQIELL 45
M+ H N+ DP +LGL++RC + R AT++E+L H+ E ++ +
Sbjct: 5 MMNHHNLWDPGHPECPQRISRIYERHNDLGLLERCLRLPSRLATEDELLLCHSEEHLDEM 64
Query: 46 ATTEGSTDVDALEQLSSHYDAIYIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSL 105
+ E + L +L YD+IYIHP SY+ +LL+AG +++
Sbjct: 65 KSLEKMKPRE-LNRLGKEYDSIYIHPDSYQCALLAAGCVLQV------------------ 105
Query: 106 LSAGSTIELVDNICRGEIKNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVS 165
V+ + GE +NG+A++RPPGHHA + CG+CFFNNVA+AA++A +
Sbjct: 106 ---------VEAVLTGESRNGVAIVRPPGHHAEQDTACGFCFFNNVAIAARYAQKKYGLK 156
Query: 166 RVLIVDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNF 225
R+LIVDWDVHHG TQ MF +D V+Y S+HRY++G+F+PN E YD +G+G G+G+N
Sbjct: 157 RILIVDWDVHHGNGTQHMFESDPSVLYISLHRYDNGSFFPNSPEGNYDVVGKGKGEGFNV 216
Query: 226 NIPLNKTHMKDADYMAVFHQVLLP------------------------------------ 249
NIP NK M DA+Y+A F QV+LP
Sbjct: 217 NIPWNKGGMGDAEYIAAFQQVVLPIAYEFNPELVLVSAGFDAARGDPLGGCKVTPEGYAH 276
Query: 250 --------------MVAEGGYCLKSLAEGAALTLRALLDDPCPNFETLGTPSE 288
++ EGGY L S++E ++ + LL DP P + P
Sbjct: 277 MTHMLMSLAGGRVIVILEGGYNLTSISESMSMCTKTLLGDPPPVLDLPRPPCS 329
Score = 202 bits (517), Expect = 4e-60
Identities = 76/114 (66%), Positives = 91/114 (79%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 417
GM D EYIAAFQQV+LPIAY+FNPELVLVSAG+DA DPLGGCKV+PE YAH TH L
Sbjct: 223 GGMGDAEYIAAFQQVVLPIAYEFNPELVLVSAGFDAARGDPLGGCKVTPEGYAHMTHMLM 282
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIK 471
+LA GR+I+ LEGGYN++SIS +M++CTK LLGDP P+L+ SSA+ SI
Sbjct: 283 SLAGGRVIVILEGGYNLTSISESMSMCTKTLLGDPPPVLDLPRPPCSSALKSIN 336
>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 = 275 bits (705), Expect = 5e-88
Identities = 133/332 (40%), Positives = 183/332 (55%), Gaps = 78/332 (23%)
Query: 7 IKDPCKELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDA 66
I++ + GL++RC +Q REA++EE+L H+ E + L+ +T+ T+ + L L+ YD+
Sbjct: 17 IREKLIQEGLLERCVSVQAREASEEELLLVHSPEYVALMKSTQYMTE-EELRTLADTYDS 75
Query: 67 IYIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNG 126
+Y+HP+SY + L+ GS ++LVD + GEI+NG
Sbjct: 76 VYLHPNSY----------------------SCAC-----LAVGSVLQLVDKVLGGEIRNG 108
Query: 127 MAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYN 186
+A++RPPGHHA + GYC FNNVA+AA++A V RVLIVDWDVHHGQ TQ +F
Sbjct: 109 LAIVRPPGHHAQHDKMDGYCMFNNVAIAARYAQQKHGVQRVLIVDWDVHHGQGTQFIFEQ 168
Query: 187 DNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQV 246
D V+YFSIHRYE G FWP+L+ES+ +G G G+GYN N+P N+ M+DADY+A F V
Sbjct: 169 DPSVLYFSIHRYEQGRFWPHLKESDSSAVGFGRGEGYNINVPWNQVGMRDADYIAAFLHV 228
Query: 247 LLP----------MVA----------------------------------------EGGY 256
LLP +VA EGGY
Sbjct: 229 LLPVALEFQPQLVLVAAGFDAVIGDPKGEMAATPACFAHLTHLLMGLAGGKLILSLEGGY 288
Query: 257 CLKSLAEGAALTLRALLDDPCPNFETLGTPSE 288
L+SLAEG +L+ALL DPCP E+ G P
Sbjct: 289 NLRSLAEGVCASLKALLGDPCPMLESPGAPCR 320
Score = 139 bits (352), Expect = 8e-37
Identities = 58/116 (50%), Positives = 78/116 (67%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
GM D +YIAAF V+LP+A +F P+LVLV+AG+DA + DP G +P +AH TH L
Sbjct: 215 GMRDADYIAAFLHVLLPVALEFQPQLVLVAAGFDAVIGDPKGEMAATPACFAHLTHLLMG 274
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIKVII 474
LA G++IL+LEGGYN+ S++ + KALLGDP P+LES SA+ S+ I
Sbjct: 275 LAGGKLILSLEGGYNLRSLAEGVCASLKALLGDPCPMLESPGAPCRSALASVSCTI 330
>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 = 262 bits (672), Expect = 5e-83
Identities = 124/322 (38%), Positives = 169/322 (52%), Gaps = 78/322 (24%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSSY 74
GLVQRC + REA++EEIL H+ E + L+ T + + L +S YDA+Y HP+++
Sbjct: 25 GLVQRCLRLPAREASEEEILLVHSPEYLSLVRET-QVMNKEELMAISGKYDAVYFHPNTF 83
Query: 75 KLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIRPPG 134
+ L+AG+T++L VD + GE++NGMA++RPPG
Sbjct: 84 HCARLAAGATLQL---------------------------VDAVLTGEVQNGMALVRPPG 116
Query: 135 HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYFS 194
HH+ ++ G+C FNNVA+AA++A + R+LIVDWDVHHGQ Q +F D V+YFS
Sbjct: 117 HHSQRNAANGFCVFNNVAIAAEYAKKKYGLHRILIVDWDVHHGQGIQYIFEEDPSVLYFS 176
Query: 195 IHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLPM---- 250
HRYEH FWP LRES+YD +G G G G+N N+P NK M +ADY+A F VLLP+
Sbjct: 177 WHRYEHQRFWPFLRESDYDAVGRGKGLGFNINLPWNKVGMGNADYLAAFFHVLLPLAFEF 236
Query: 251 ----------------------------------------------VAEGGYCLKSLAEG 264
V EGGY L+SLAE
Sbjct: 237 DPELVLVSAGFDSAIGDPEGQMCATPECFAHLTHLLMVLAGGKLCAVLEGGYHLESLAES 296
Query: 265 AALTLRALLDDPCPNFETLGTP 286
+T++ LL DP P TP
Sbjct: 297 VCMTVQTLLGDPLPRLSGEMTP 318
Score = 124 bits (314), Expect = 1e-31
Identities = 52/113 (46%), Positives = 79/113 (69%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
GM + +Y+AAF V+LP+A++F+PELVLVSAG+D+ + DP G +PE +AH TH L
Sbjct: 215 GMGNADYLAAFFHVLLPLAFEFDPELVLVSAGFDSAIGDPEGQMCATPECFAHLTHLLMV 274
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLDINSSAVTSIK 471
LA G++ LEGGY++ S++ ++ + + LLGDPLP L ++ SA+ SI+
Sbjct: 275 LAGGKLCAVLEGGYHLESLAESVCMTVQTLLGDPLPRLSGEMTPCQSALESIQ 327
>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 = 226 bits (580), Expect = 5e-70
Identities = 96/247 (38%), Positives = 136/247 (55%), Gaps = 40/247 (16%)
Query: 7 IKDPCKELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDA 66
I + +E GL+ R F++PR AT+EE+L+ HT E IE + T +
Sbjct: 11 ILEALEEEGLLDRLVFVEPRPATEEELLRVHTPEYIERVEETCEAGGG------------ 58
Query: 67 IYIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNG 126
Y+ P +Y +S GS Y+ +LL+AG+ + VD + GE +N
Sbjct: 59 -YLDPDTY----VSPGS-----------------YEAALLAAGAALAAVDAVLSGEAENA 96
Query: 127 MAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYN 186
A++RPPGHHA G+C FNNVA+AA++A + RVLIVDWDVHHG TQ +FY+
Sbjct: 97 FALVRPPGHHAEPDRAMGFCLFNNVAIAARYAQKRYGLKRVLIVDWDVHHGNGTQDIFYD 156
Query: 187 DNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQV 246
D V+YFSIH+Y F+P + G G G+G+ N+PL DA+Y+A F +V
Sbjct: 157 DPSVLYFSIHQYP---FYPG--TGAAEETGGGAGEGFTINVPLPPG-SGDAEYLAAFEEV 210
Query: 247 LLPMVAE 253
LLP+ E
Sbjct: 211 LLPIARE 217
Score = 136 bits (345), Expect = 4e-36
Identities = 48/97 (49%), Positives = 66/97 (68%), Gaps = 4/97 (4%)
Query: 357 SKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWL 416
G D EY+AAF++V+LPIA +F P+LVLVSAG+DA DPLGG ++PE YA T L
Sbjct: 195 PPGSGDAEYLAAFEEVLLPIAREFQPDLVLVSAGFDAHRGDPLGGMNLTPEGYARLTRLL 254
Query: 417 KALA----QGRIILALEGGYNISSISYAMTLCTKALL 449
K LA GR++ LEGGYN+ +++ ++ +ALL
Sbjct: 255 KELADEHCGGRLVFVLEGGYNLEALAESVLAVLEALL 291
>gnl|CDD|216151 pfam00850, Hist_deacetyl, Histone deacetylase domain. Histones can
be reversibly acetylated on several lysine residues.
Regulation of transcription is caused in part by this
mechanism. Histone deacetylases catalyze the removal of
the acetyl group. Histone deacetylases are related to
other proteins.
Length = 300
Score = 215 bits (551), Expect = 2e-65
Identities = 95/242 (39%), Positives = 130/242 (53%), Gaps = 38/242 (15%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
KE GL+ R +FI PR AT+EE+L H+ E +E L E S + + L ++ D + P
Sbjct: 24 KESGLLDRLEFIAPRPATEEELLLVHSPEYVEFLE--EASLEEEELGRIGLDGD-TPVSP 80
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
SY+ +LL+AG T+E D + GE N A +R
Sbjct: 81 GSYEAALLAAGGTLEA---------------------------ADLVLSGE--NAFAAVR 111
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA + G+C FNNVA+AA++ L + RVLIVD DVHHG TQ++FY+D RV+
Sbjct: 112 PPGHHAERDRASGFCLFNNVAIAARYLLKRYGLKRVLIVDLDVHHGNGTQEIFYDDPRVL 171
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLPMV 251
SIH+ F+P D GEG G+GY NIPL D +Y+A F ++LLP +
Sbjct: 172 TISIHQDP---FYPG--TGFADETGEGAGEGYTLNIPLPP-GTGDEEYLAAFEEILLPAL 225
Query: 252 AE 253
E
Sbjct: 226 RE 227
Score = 118 bits (299), Expect = 9e-30
Identities = 40/95 (42%), Positives = 58/95 (61%), Gaps = 3/95 (3%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 417
G D EY+AAF++++LP +F P+L+LVSAG+DA DPLGG ++ E YA T L
Sbjct: 206 PGTGDEEYLAAFEEILLPALREFQPDLILVSAGFDAHAGDPLGGLNLTTEGYAERTRLLL 265
Query: 418 ALA---QGRIILALEGGYNISSISYAMTLCTKALL 449
LA G ++ LEGGYN+ +++ + LL
Sbjct: 266 ELADAYGGPVVSVLEGGYNLDALARSAAAVLAGLL 300
>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 = 211 bits (539), Expect = 1e-63
Identities = 91/246 (36%), Positives = 135/246 (54%), Gaps = 32/246 (13%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHY--DAIYI 69
KE GL+ R I REAT+EEIL H+ E + + TE +D L+ + + D++Y+
Sbjct: 18 KEAGLINRMLRIPIREATKEEILLVHSEEHWDRVEATEKMSDEQ-LKDRTEIFERDSLYV 76
Query: 70 HPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAV 129
+ + + LS G IE R + G +KN AV
Sbjct: 77 NNDTAFCARLSCGGAIEACRA---------------------------VAEGRVKNAFAV 109
Query: 130 IRPPGHHAMKSEYCGYCFFNNVALAAQHALDN--TSVSRVLIVDWDVHHGQATQQMFYND 187
+RPPGHHA E G+CFFNNVA+AA+ + ++LI+DWD+HHG TQ+ FY+D
Sbjct: 110 VRPPGHHAEPDESMGFCFFNNVAVAAKWLQTEYPDKIKKILILDWDIHHGNGTQRAFYDD 169
Query: 188 NRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
V+Y S+HR+E+G F+P +Y+ +GEG G G+N NIP + M DADY+ F +++
Sbjct: 170 PNVLYISLHRFENGGFYPGTPYGDYESVGEGAGLGFNVNIPWPQGGMGDADYIYAFQRIV 229
Query: 248 LPMVAE 253
+P+ E
Sbjct: 230 MPIAYE 235
Score = 151 bits (383), Expect = 3e-41
Identities = 51/98 (52%), Positives = 72/98 (73%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
GM D +YI AFQ++++PIAY+F+P+LV++SAG+DA D LG C V+P YAH TH L +
Sbjct: 215 GMGDADYIYAFQRIVMPIAYEFDPDLVIISAGFDAADGDELGQCHVTPAGYAHMTHMLMS 274
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLL 456
LA G++++ALEGGYN+ +IS + K LLG+ P L
Sbjct: 275 LAGGKLVVALEGGYNLDAISDSALAVAKVLLGEAPPKL 312
>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 = 194 bits (496), Expect = 1e-56
Identities = 92/247 (37%), Positives = 131/247 (53%), Gaps = 22/247 (8%)
Query: 13 ELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGS---TDVDALEQLSSHYDAIYI 69
E GLV RC+ ++ R+AT EE+ H+ L T S D L L
Sbjct: 40 ETGLVNRCERLRGRKATLEELQLVHSEVHTLLYGTNPLSRLKLDPTKLAGLPQK------ 93
Query: 70 HPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAV 129
L G I + + N H+S+ + ++ G I+L + GE+KNG AV
Sbjct: 94 -----SFVRLPCGG-IGVDSDTVWNELHTSN--AARMAVGCVIDLAFKVATGELKNGFAV 145
Query: 130 IRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNR 189
+RPPGHHA S+ G+CFFN+VA+AA+ + ++LIVDWDVHHG TQQ+FY D
Sbjct: 146 VRPPGHHAEPSQAMGFCFFNSVAIAAKQLQQKLKLRKILIVDWDVHHGNGTQQIFYEDPN 205
Query: 190 VVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN---KTHMKDADYMAVFHQV 246
V+Y S+HRY+ G F+P +G G G+G+N NI + M DA+Y+A F V
Sbjct: 206 VLYISLHRYDDGNFFPG--TGAPTEVGSGAGEGFNVNIAWSGGLDPPMGDAEYLAAFRTV 263
Query: 247 LLPMVAE 253
++P+ E
Sbjct: 264 VMPIARE 270
Score = 132 bits (333), Expect = 8e-34
Identities = 61/122 (50%), Positives = 86/122 (70%), Gaps = 5/122 (4%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDP--LGGCKVSPEAYAHFTHWLK 417
M D EY+AAF+ V++PIA +F+P++VLVSAG+DA P LGG KVSP + + T L
Sbjct: 251 MGDAEYLAAFRTVVMPIAREFSPDIVLVSAGFDAAEGHPPPLGGYKVSPACFGYMTRQLM 310
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGDPL-PLLESDLDI--NSSAVTSIKVII 474
LA G+++LALEGGY++++I A C +ALLGD L PL E +L+ N +AVTS++ +I
Sbjct: 311 NLAGGKVVLALEGGYDLTAICDASEACVRALLGDELDPLSEEELERRPNPNAVTSLEKVI 370
Query: 475 II 476
I
Sbjct: 371 AI 372
>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 = 185 bits (473), Expect = 2e-53
Identities = 84/243 (34%), Positives = 119/243 (48%), Gaps = 47/243 (19%)
Query: 15 GLVQRCKFIQPREATQEEILKKHT---IEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
GL I PR AT EE+L+ HT I++++ + G
Sbjct: 51 GLSDHLVLITPRPATDEELLRVHTPEYIDRVKAASAAGGGEAGG---------------- 94
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
+ G SY+++LL+AG I VD + GE+ N A++R
Sbjct: 95 ----GTPFGPG-----------------SYEIALLAAGGAIAAVDAVLDGEVDNAYALVR 133
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA + G+C FNNVA+AA+HAL V RV +VDWDVHHG TQ +FY+D V+
Sbjct: 134 PPGHHAEPDQGMGFCLFNNVAIAARHALAVGGVKRVAVVDWDVHHGNGTQAIFYDDPDVL 193
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPL-NKTHMKDADYMAVFHQVLLPM 250
S+H + F P+ + GEG G+GYN NIPL + D Y+ F +++LP
Sbjct: 194 TISLH--QDRCFPPDS--GAVEERGEGAGEGYNLNIPLPPGS--GDGAYLHAFERIVLPA 247
Query: 251 VAE 253
+
Sbjct: 248 LRA 250
Score = 83.0 bits (206), Expect = 4e-17
Identities = 30/89 (33%), Positives = 53/89 (59%), Gaps = 8/89 (8%)
Query: 365 YIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA---- 420
Y+ AF++++LP F PEL++V++G+DA DPLG ++ + + T L+ LA
Sbjct: 236 YLHAFERIVLPALRAFRPELIIVASGFDASAFDPLGRMMLTSDGFRALTRKLRDLADELC 295
Query: 421 QGRIILALEGGYNISSISYAMTLCTKALL 449
GR+++ EGGY+ + + + C A+L
Sbjct: 296 GGRLVMVHEGGYSEAYVPF----CGLAVL 320
>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 = 172 bits (438), Expect = 4e-48
Identities = 92/245 (37%), Positives = 135/245 (55%), Gaps = 15/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL+ +C+ ++ R+AT +EI H+ L T+ + ++L S + P
Sbjct: 41 QETGLLGKCERVRGRKATLDEIQTVHSEHHTLLYGTSPLNR-----QKLDSKK---LLGP 92
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
S K+ + I + + N HSSS ++ G IEL + GE+KNG AVIR
Sbjct: 93 LSQKMYAVLPCGGIGVDSDTVWNEMHSSS--AVRMAVGCLIELAFKVAAGELKNGFAVIR 150
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA +S G+CFFN+VA+AA+ +V ++LIVDWD+HHG TQQ FYND V+
Sbjct: 151 PPGHHAEESTAMGFCFFNSVAIAAKLLQQKLNVGKILIVDWDIHHGNGTQQAFYNDPNVL 210
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN---KTHMKDADYMAVFHQVLL 248
Y S+HRY+ G F+P D +G G G G+N NI + D +Y+ F V++
Sbjct: 211 YISLHRYDDGNFFPGSGAP--DEVGAGPGVGFNVNIAWTGGVDPPIGDVEYLTAFRTVVM 268
Query: 249 PMVAE 253
P+ E
Sbjct: 269 PIANE 273
Score = 101 bits (253), Expect = 5e-23
Identities = 51/124 (41%), Positives = 77/124 (62%), Gaps = 5/124 (4%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVN--DPLGGCKVSPEAYAHFTHWLK 417
+ D EY+ AF+ V++PIA +F+P++VLVSAG+DA PLGG V+ + + H T L
Sbjct: 254 IGDVEYLTAFRTVVMPIANEFSPDVVLVSAGFDAVEGHQSPLGGYSVTAKCFGHLTKQLM 313
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGD---PLPLLESDLDINSSAVTSIKVII 474
LA GR++LALEGG+++++I A C ALLG PL N +AV +++ +I
Sbjct: 314 TLAGGRVVLALEGGHDLTAICDASEACVSALLGMELTPLDNTVLQQKPNDNAVATLERVI 373
Query: 475 IINN 478
I +
Sbjct: 374 EIQS 377
>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 = 170 bits (432), Expect = 2e-47
Identities = 92/245 (37%), Positives = 135/245 (55%), Gaps = 16/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ I+ R+AT EE+ H+ L T + ++L S +
Sbjct: 42 QETGLRGKCECIRGRKATLEELQTVHSEAHTLLYGTNPLNR-----QKLDSKKLLGSLAS 96
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
+L G + + N HSS + L+ G +ELV + GE+KNG AV+R
Sbjct: 97 VFVRLPCGGVG----VDSDTIWNEVHSSG--AARLAVGCVVELVFKVATGELKNGFAVVR 150
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA +S G+C+FN+VA+AA+ +VS++LIVDWDVHHG TQQ FY+D V+
Sbjct: 151 PPGHHAEESTPMGFCYFNSVAIAAKLLQQRLNVSKILIVDWDVHHGNGTQQAFYSDPNVL 210
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN---KTHMKDADYMAVFHQVLL 248
Y S+HRY+ G F+P D +G G G G+N N+ M DA+Y+A F V++
Sbjct: 211 YMSLHRYDDGNFFPG--SGAPDEVGTGPGVGFNVNMAFTGGLDPPMGDAEYLAAFRTVVM 268
Query: 249 PMVAE 253
P+ +E
Sbjct: 269 PIASE 273
Score = 107 bits (267), Expect = 5e-25
Identities = 60/142 (42%), Positives = 89/142 (62%), Gaps = 8/142 (5%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDP--LGGCKVSPEAYAHFTHWLK 417
M D EY+AAF+ V++PIA +F P++VLVS+G+DA P LGG +S + + + T L
Sbjct: 254 MGDAEYLAAFRTVVMPIASEFAPDVVLVSSGFDAVEGHPTPLGGYNLSAKCFGYLTKQLM 313
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGDPL-PLLESDLD--INSSAVTSIKVII 474
LA GRI+LALEGG+++++I A C ALLG+ L PL E L N++AV S++ ++
Sbjct: 314 GLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSMEKVM 373
Query: 475 IINNNNSVYLYCSHRTENPFAF 496
I +S Y C RT + +
Sbjct: 374 EI---HSKYWRCLQRTTSTAGY 392
>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 = 162 bits (411), Expect = 5e-45
Identities = 78/242 (32%), Positives = 119/242 (49%), Gaps = 40/242 (16%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+ GL + ++PR AT EE+L H+ + V+ LE LS +
Sbjct: 36 ESSGLPDSLELVEPRPATLEELLLVHSPDY------------VEFLESLSEEEGYGNLDG 83
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
+ +S G+ Y+ + L+AG + VD + GE N A++R
Sbjct: 84 DTP----VSPGT-----------------YEAARLAAGGALTAVDAVLEGE-DNAFALVR 121
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA + G+C FNNVA+AA++ L V RV I+D+DVHHG TQ++FY+D+ V+
Sbjct: 122 PPGHHAGRDRASGFCLFNNVAIAAKYLLKK-GVKRVAIIDFDVHHGNGTQEIFYDDDDVL 180
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLPMV 251
S+H+ + D IGEG +G N NIPL D Y+ +++LP++
Sbjct: 181 TVSLHQDGRPFY---PGTGGADEIGEG-KEGNNVNIPLPPGTG-DDSYLEALEEIVLPLL 235
Query: 252 AE 253
E
Sbjct: 236 EE 237
Score = 94.0 bits (234), Expect = 7e-21
Identities = 37/108 (34%), Positives = 60/108 (55%), Gaps = 3/108 (2%)
Query: 357 SKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWL 416
G D Y+ A ++++LP+ +F P+LV+VSAG+DA DPLG ++ E YA +
Sbjct: 215 PPGTGDDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEEGYAKIGRAV 274
Query: 417 KALAQ---GRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLD 461
+ LA+ G ++ LEGGYN+ +++ ++ L G LE L
Sbjct: 275 RKLAEGYGGPVVAVLEGGYNLDALARSLVAFLAGLAGLVEEELEEPLP 322
>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 = 158 bits (400), Expect = 4e-43
Identities = 94/246 (38%), Positives = 139/246 (56%), Gaps = 17/246 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL+ +C+ IQ R+A+ EEI H+ E LL G+ +D ++L I +
Sbjct: 39 QETGLLNKCERIQGRKASLEEIQLVHS-EHHSLLY---GTNPLDG-QKLDPR---ILLGD 90
Query: 72 SSYKL-SLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVI 130
S K S L G + + + N HSS + ++ G IEL + GE+KNG AV+
Sbjct: 91 DSQKFFSSLPCGG-LGVDSDTIWNELHSSG--AARMAVGCVIELASKVASGELKNGFAVV 147
Query: 131 RPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRV 190
RPPGHHA +S G+CFFN+VA+ A++ D ++S++LIVD DVHHG TQQ FY D +
Sbjct: 148 RPPGHHAEESTAMGFCFFNSVAITAKYLRDQLNISKILIVDLDVHHGNGTQQAFYADPSI 207
Query: 191 VYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN---KTHMKDADYMAVFHQVL 247
+Y S+HRY+ G F+P + +G G+G+GYN NI M D +Y+ F ++
Sbjct: 208 LYISLHRYDEGNFFPG--SGAPNEVGTGLGEGYNINIAWTGGLDPPMGDVEYLEAFRTIV 265
Query: 248 LPMVAE 253
P+ E
Sbjct: 266 KPVAKE 271
Score = 104 bits (260), Expect = 4e-24
Identities = 54/124 (43%), Positives = 80/124 (64%), Gaps = 5/124 (4%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACV--NDPLGGCKVSPEAYAHFTHWLK 417
M D EY+ AF+ ++ P+A +F+P++VLVSAG+DA PLGG KV+ + + H T L
Sbjct: 252 MGDVEYLEAFRTIVKPVAKEFDPDMVLVSAGFDALEGHTPPLGGYKVTAKCFGHLTKQLM 311
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDL---DINSSAVTSIKVII 474
LA GR++LALEGG+++++I A C ALLG+ L L D+ N +AV S++ II
Sbjct: 312 TLADGRVVLALEGGHDLTAICDASEACVNALLGNELEPLAEDILHQSPNMNAVISLQKII 371
Query: 475 IINN 478
I +
Sbjct: 372 EIQS 375
>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 = 157 bits (399), Expect = 6e-43
Identities = 85/245 (34%), Positives = 130/245 (53%), Gaps = 15/245 (6%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
+E GL +C+ ++ R+A+ EE+ H+ + L T + L +L +
Sbjct: 39 QERGLRSQCECLRGRKASLEELQSVHSERHVLLYGT-------NPLSRLKLDNGKLAGLL 91
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
+ +L G + + + N HSS+ + +AGS +L + E+KNG AV+R
Sbjct: 92 AQRMFVMLPCGG-VGVDTDTIWNELHSSN--AARWAAGSVTDLAFKVASRELKNGFAVVR 148
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
PPGHHA S G+CFFN+VA+A + S++LIVDWDVHHG TQQ FY D V+
Sbjct: 149 PPGHHADHSTAMGFCFFNSVAIACRQLQQQGKASKILIVDWDVHHGNGTQQTFYQDPSVL 208
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLN---KTHMKDADYMAVFHQVLL 248
Y S+HR++ G F+P D +G G G+G+N N+ M D +Y+A F V++
Sbjct: 209 YISLHRHDDGNFFPG--SGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVM 266
Query: 249 PMVAE 253
P+ E
Sbjct: 267 PIARE 271
Score = 112 bits (282), Expect = 4e-27
Identities = 54/120 (45%), Positives = 77/120 (64%), Gaps = 5/120 (4%)
Query: 360 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVND--PLGGCKVSPEAYAHFTHWLK 417
M DPEY+AAF+ V++PIA +F+P+LVLVSAG+DA PLGG VS + + + T L
Sbjct: 252 MGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLM 311
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCTKALLG---DPLPLLESDLDINSSAVTSIKVII 474
LA G ++LALEGG+++++I A C ALLG DPL N +A+ S++ +I
Sbjct: 312 NLAGGAVVLALEGGHDLTAICDASEACVAALLGNEVDPLSEESWKQKPNLNAIRSLEAVI 371
>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 = 153 bits (389), Expect = 2e-42
Identities = 84/328 (25%), Positives = 131/328 (39%), Gaps = 111/328 (33%)
Query: 7 IKDPCKELGLVQRCKFIQPREATQEEILKKHT---IEQIELLATTEGSTDVDALEQLSSH 63
I D GL + + ++ AT+E++L+ H ++++E A EG +D +S
Sbjct: 11 ILDALIASGLDRLLRQLEAPPATREQLLRVHDAAYVDRLEAAAPEEGLVQLDPDTAMSPG 70
Query: 64 YDAIYIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEI 123
S + +L +AG+ + VD + GE
Sbjct: 71 ------------------------------------SLEAALRAAGAVVAAVDAVMAGEA 94
Query: 124 KNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQM 183
+N +RPPGHHA + + G+C FNNVA+AA HAL + + RV IVD+DVHHG T+ +
Sbjct: 95 RNAFCAVRPPGHHAERDKAMGFCLFNNVAIAAAHALAHHGLERVAIVDFDVHHGNGTEDI 154
Query: 184 FYNDNRVVYFSIHRYEHGTFWPN---LRESEYDHIGEGIGKGYNFNIPLNKT-------- 232
F +D RV++ S H++ +P E+ + +I N+PL
Sbjct: 155 FRDDPRVLFCSSHQHP---LYPGTGAPDETGHGNI---------VNVPLPAGTGGAEFRE 202
Query: 233 --------------------------HMKD---------ADYMAVFHQVLLPMVA----- 252
H D DY + Q++ VA
Sbjct: 203 AVEDRWLPALDAFKPDLILISAGFDAHRDDPLAQLNLTEEDYAWITEQLM--DVADRYCD 260
Query: 253 -------EGGYCLKSLAEGAALTLRALL 273
EGGY L +LA A +RAL+
Sbjct: 261 GRIVSVLEGGYDLSALARSVAAHVRALM 288
Score = 86.0 bits (214), Expect = 1e-18
Identities = 31/77 (40%), Positives = 45/77 (58%), Gaps = 4/77 (5%)
Query: 364 EYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA--- 420
E+ A + LP F P+L+L+SAG+DA +DPL ++ E YA T L +A
Sbjct: 199 EFREAVEDRWLPALDAFKPDLILISAGFDAHRDDPLAQLNLTEEDYAWITEQLMDVADRY 258
Query: 421 -QGRIILALEGGYNISS 436
GRI+ LEGGY++S+
Sbjct: 259 CDGRIVSVLEGGYDLSA 275
>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 = 148 bits (375), Expect = 3e-40
Identities = 60/155 (38%), Positives = 85/155 (54%), Gaps = 16/155 (10%)
Query: 100 SYKLSLLSAGSTIELVDNICRGEIKNGMAVIRPPGHHAMKSEYCGYCFFNNVALAAQHAL 159
+++ +L +A + + D + GE + A+ RPPGHHA + G+C+FNN A+AAQ+
Sbjct: 83 TWEAALAAADTALTAADLVLEGE-RAAYALCRPPGHHAGRDRAGGFCYFNNAAIAAQYLR 141
Query: 160 DNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEY-----DH 214
D RV I+D DVHHG TQ++FY V+Y SIH TF+P + D
Sbjct: 142 DR--AGRVAILDVDVHHGNGTQEIFYERPDVLYVSIHGDPR-TFYP------FFLGFADE 192
Query: 215 IGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLP 249
GEG G+GYN N+PL D DY+A + L
Sbjct: 193 TGEGEGEGYNLNLPLPP-GTGDDDYLAALDEALAA 226
Score = 73.0 bits (180), Expect = 4e-14
Identities = 27/82 (32%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G D +Y+AA + + IA F P+ ++VS G+D DPL K++ E YA + A
Sbjct: 210 GTGDDDYLAALDEALAAIA-AFGPDALVVSLGFDTHEGDPLSDFKLTTEDYARIGRRIAA 268
Query: 419 LAQGRIILALEGGYNISSISYA 440
L + EGGYN+ ++
Sbjct: 269 L-GLPTVFVQEGGYNVDALGRN 289
>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 = 146 bits (369), Expect = 1e-39
Identities = 72/242 (29%), Positives = 114/242 (47%), Gaps = 42/242 (17%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
KELGL + + I+ REAT+E +LK HT E + L + + + + P
Sbjct: 10 KELGLRPKIELIECREATEELLLKVHTEEYLNELKANFAVATITESKPVIFGPNF----P 65
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
++ + LS G +E + + +GE++ AV+
Sbjct: 66 VQRHY------------------------FRGARLSTGGVVEAAELVAKGELERAFAVVG 101
Query: 132 PPGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
GHHA KS G+C+FN+V LA + L +SR+LI+D D HHG T++ FY+D+RV+
Sbjct: 102 AGGHHAGKSRAWGFCYFNDVVLAIKF-LRERGISRILIIDTDAHHGDGTREAFYDDDRVL 160
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLPMV 251
+ S H Y+ F G G GKGY N+PL + D +Y+ +V+ ++
Sbjct: 161 HMSFHNYDIYPF------------GRGKGKGYKINVPLEDG-LGDEEYLDAVERVISKVL 207
Query: 252 AE 253
E
Sbjct: 208 EE 209
Score = 79.4 bits (196), Expect = 2e-16
Identities = 30/93 (32%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 357 SKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWL 416
G+ D EY+ A ++VI + +F PE+V++ G+D D LGG +S + + +
Sbjct: 187 EDGLGDEEYLDAVERVISKVLEEFEPEVVVLQFGHDTHEGDRLGGFNLSEKGFVKLAEIV 246
Query: 417 KALAQ-GRIILALEGGYNISSISYAMTLCTKAL 448
K A+ G I++ L GGYN + + T K L
Sbjct: 247 KEFARGGPILMVLGGGYNPEAAARIWTAIIKEL 279
>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 = 134 bits (341), Expect = 2e-35
Identities = 72/249 (28%), Positives = 101/249 (40%), Gaps = 39/249 (15%)
Query: 8 KDPCKELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAI 67
KD + LGL+ + PR AT+EE+L HT + IE V +
Sbjct: 28 KDLLRALGLLPPVDLVPPRPATEEELLLFHTPDYIEA---------VKEASRGQEPEGRG 78
Query: 68 YIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGM 127
L T + N ++ + L G T+ + GE
Sbjct: 79 R-----LGLG------TED-------NPVFPGMHEAAALVVGGTLLAARLVLEGE---AR 117
Query: 128 AVIRPPG--HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFY 185
P G HHAM+ G+C +N+ A+A + D RV VD D HHG Q FY
Sbjct: 118 RAFNPAGGLHHAMRGRASGFCVYNDAAVAIERLRDKG-GLRVAYVDIDAHHGDGVQAAFY 176
Query: 186 NDNRVVYFSIHRYEHG-TFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFH 244
+D RV+ S+H E G +P D IGEG G GY NIPL D +++ F
Sbjct: 177 DDPRVLTISLH--ESGRYLFP--GTGFVDEIGEGEGYGYAVNIPL-PPGTGDDEFLRAFE 231
Query: 245 QVLLPMVAE 253
V+ P++
Sbjct: 232 AVVPPLLRA 240
Score = 66.4 bits (163), Expect = 7e-12
Identities = 26/81 (32%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 417
G D E++ AF+ V+ P+ F P++++ G DA DPL +S AY ++
Sbjct: 219 PGTGDDEFLRAFEAVVPPLLRAFRPDVIVSQHGADAHAGDPLTHLNLSNRAYRAAVRRIR 278
Query: 418 ALA----QGRIILALEGGYNI 434
LA GR + GGYN
Sbjct: 279 ELADEYCGGRWLALGGGGYNP 299
>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 = 98.0 bits (245), Expect = 2e-22
Identities = 67/248 (27%), Positives = 105/248 (42%), Gaps = 53/248 (21%)
Query: 14 LGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLS---SHYDAIYIH 70
GL ++ + +PR AT EE+ K H+ + I+ L + + +QL D +
Sbjct: 32 YGLYKKMEIYRPRPATAEELTKFHSDDYIDFLRSVSPDNMKEFKKQLERFNVGEDC-PVF 90
Query: 71 PSSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVI 130
Y+ L AG +I + ++L +I I
Sbjct: 91 DGLYEYCQLYAGGSI-----------------------AAAVKLNRGQA--DI-----AI 120
Query: 131 RPPG--HHAMKSEYCGYCFFNNVALA-----AQHALDNTSVSRVLIVDWDVHHGQATQQM 183
G HHA KSE G+C+ N++ LA H RVL +D D+HHG ++
Sbjct: 121 NWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQ-------RVLYIDIDIHHGDGVEEA 173
Query: 184 FYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVF 243
FY +RV+ S H++ F+P + IG G GK Y N+PL K + D Y+ +F
Sbjct: 174 FYTTDRVMTVSFHKFGEY-FFPG---TGLRDIGAGKGKYYAVNVPL-KDGIDDESYLQIF 228
Query: 244 HQVLLPMV 251
VL ++
Sbjct: 229 EPVLSKVM 236
Score = 36.8 bits (86), Expect = 0.021
Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 1/88 (1%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLK 417
G+ D Y+ F+ V+ + F P V++ G D+ D LG +S + +A ++K
Sbjct: 217 DGIDDESYLQIFEPVLSKVMEVFQPSAVVLQCGADSLAGDRLGCFNLSIKGHAKCVKFVK 276
Query: 418 ALAQGRIILALEGGYNISSISYAMTLCT 445
+ ++L GGY + +++ T T
Sbjct: 277 SFNIPLLVLG-GGGYTLRNVARCWTYET 303
>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 = 90.9 bits (226), Expect = 1e-19
Identities = 61/244 (25%), Positives = 103/244 (42%), Gaps = 42/244 (17%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIY---IHP 71
GL+++ + ++PR AT+EE+ H+ E I+ L D D + Y I
Sbjct: 34 GLLKQLRVVKPRVATEEELASFHSDEYIQFLKKASNEGDNDEEPSEQQEFGLGYDCPIFE 93
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
Y + + AG+T+ + G+ K I
Sbjct: 94 GIY-----DYAAAV----------------------AGATLTAAQLLIDGKCK---VAIN 123
Query: 132 PPG--HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNR 189
G HHA + E G+C+ N++ L + RVL VD D+HHG + F ++
Sbjct: 124 WFGGWHHAQRDEASGFCYVNDIVLGILKLRE--KFDRVLYVDLDLHHGDGVEDAFSFTSK 181
Query: 190 VVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLP 249
V+ S+H+Y G F+P + +G G GK Y N+PL + ++D Y+ +F ++P
Sbjct: 182 VMTVSLHKYSPG-FFPG--TGDVSDVGLGKGKYYTVNVPL-RDGIQDEQYLQIF-TAVVP 236
Query: 250 MVAE 253
+
Sbjct: 237 EIVA 240
Score = 55.4 bits (134), Expect = 3e-08
Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 1/96 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y+ F V+ I F PE V++ G D DP+G ++P ++
Sbjct: 221 GIQDEQYLQIFTAVVPEIVAAFRPEAVVLQCGADTLAGDPMGAFNLTPVGIGKCLKYVLG 280
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 454
+IL GGYN+++ + T T +LG+PL
Sbjct: 281 WKLPTLILG-GGGYNLANTARCWTYLTGLILGEPLS 315
>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 = 88.7 bits (221), Expect = 2e-19
Identities = 67/239 (28%), Positives = 102/239 (42%), Gaps = 59/239 (24%)
Query: 12 KELGLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHP 71
E GLV ++P AT+E++L+ H E +E L + G + + ++ P
Sbjct: 16 LEEGLVLPEDIVEPEPATREDLLRVHDPEYLESLKS--GELSREEIRRIG--------FP 65
Query: 72 SSYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIR 131
S +L + R + L+ G TI R +++G+A I
Sbjct: 66 WSPEL----------VER--------------TRLAVGGTILA----ARLALEHGLA-IN 96
Query: 132 PPG--HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNR 189
G HHA G+C FN++A+AA+ L V RVLIVD DVH G T +F +D
Sbjct: 97 LAGGTHHAFPDRGEGFCVFNDIAIAARVLLAEGLVRRVLIVDLDVHQGNGTAAIFADDPS 156
Query: 190 VVYFSIHRYEHGTFWPNLRE-SEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
V FS+H E +P +E S+ D +PL D +Y+A + L
Sbjct: 157 VFTFSMHG-EKN--YPFRKEPSDLD-------------VPL-PDGTGDDEYLAALEEAL 198
Score = 44.0 bits (105), Expect = 1e-04
Identities = 18/50 (36%), Positives = 27/50 (54%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPE 407
G D EY+AA ++ + + +F P+LV +AG D D LG +S E
Sbjct: 183 DGTGDDEYLAALEEALPRLLAEFRPDLVFYNAGVDVLAGDRLGRLSLSLE 232
>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 = 88.7 bits (220), Expect = 5e-19
Identities = 66/236 (27%), Positives = 105/236 (44%), Gaps = 39/236 (16%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLA-TTEGSTDVDALEQLSSHY-DAIYIHPS 72
GL ++ + + + AT+ E+ + HT E I+ L+ T + + EQ+ + D +
Sbjct: 39 GLYKKMEIYRAKPATKNEMTQFHTDEYIDFLSRVTPDNMEKFQKEQVKYNVGDDCPVFDG 98
Query: 73 SYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIRP 132
++ +SAG ++E R K +AV
Sbjct: 99 LFEFCSISAGGSMEGAARLNRG-----------------------------KCDIAVNWA 129
Query: 133 PG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVV 191
G HHA KSE G+C+ N++ L L RVL +D DVHHG ++ FY +RV+
Sbjct: 130 GGLHHAKKSEASGFCYVNDIVLGILELLRYHQ--RVLYIDIDVHHGDGVEEAFYTTDRVM 187
Query: 192 YFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S H+Y G ++P E IG G GK Y N+PL + + D Y ++F V+
Sbjct: 188 TCSFHKY--GEYFPG--TGELRDIGIGTGKNYAVNVPL-RDGIDDESYKSIFEPVI 238
Score = 43.6 bits (103), Expect = 2e-04
Identities = 25/96 (26%), Positives = 48/96 (50%), Gaps = 1/96 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D Y + F+ VI + + PE V++ G D+ D LG +S + +A+ +++K+
Sbjct: 224 GIDDESYKSIFEPVIKHVMEWYQPEAVVLQCGGDSLSGDRLGCFNLSMKGHANCVNFVKS 283
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 454
++L GGY + +++ T L G+ L
Sbjct: 284 FNLPMLVLG-GGGYTMRNVARTWAFETGLLAGEELD 318
>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 = 85.2 bits (211), Expect = 4e-18
Identities = 60/202 (29%), Positives = 99/202 (49%), Gaps = 20/202 (9%)
Query: 58 EQLSSHYDAIYIHPSSYKLSLLSAGSTIELRRNQKRNGSHSSS-------YKLSLLSAGS 110
E+L +DA Y+ LS +S + +LR ++ + Y L AG+
Sbjct: 52 EELRQFHDADYLD----FLSKVSPENANQLRFDKAEPFNIGDDCPVFDGMYDYCQLYAGA 107
Query: 111 TIELVDNICRGEIKNGMAVIRPPG-HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLI 169
+++ +C G ++ +A+ G HHA KSE G+C+ N++ LA + L RVL
Sbjct: 108 SLDAARKLCSG--QSDIAINWSGGLHHAKKSEASGFCYVNDIVLAILNLL--RYFPRVLY 163
Query: 170 VDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPL 229
+D DVHHG ++ FY +RV+ S H+Y +G F+P + D G GK + N+PL
Sbjct: 164 IDIDVHHGDGVEEAFYRTDRVMTLSFHKY-NGEFFPG--TGDLDDNGGTPGKHFALNVPL 220
Query: 230 NKTHMKDADYMAVFHQVLLPMV 251
+ D Y +F ++ P +
Sbjct: 221 EDG-IDDEQYNLLFKSIIGPTI 241
Score = 37.4 bits (87), Expect = 0.017
Identities = 19/84 (22%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D +Y F+ +I P +F P +++ G D+ D LG ++ +A+ ++K+
Sbjct: 223 GIDDEQYNLLFKSIIGPTIEKFQPSAIVLQCGADSLGGDRLGQFNLNIKAHGACVKFVKS 282
Query: 419 LAQGRIILALEGGYNISSISYAMT 442
+++ GGY +++ A
Sbjct: 283 FGIPMLVVG-GGGYTPRNVARAWC 305
>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 = 79.8 bits (197), Expect = 4e-16
Identities = 34/94 (36%), Positives = 50/94 (53%), Gaps = 3/94 (3%)
Query: 98 SSSYKLSLLSAGSTIELVDNICRGEI---KNGMAVIRPPGHHAMKSEYCGYCFFNNVALA 154
S + G+ E VD++ + E K IRPPGHH +S G+C+ NNV +
Sbjct: 80 PESLDAIQGALGAVCEAVDSVFKPESPGTKRAFVAIRPPGHHCSESTPSGFCWVNNVHVG 139
Query: 155 AQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDN 188
A HA ++RV+I+D D+HHG TQ + + N
Sbjct: 140 AAHAYLTHGITRVVILDIDLHHGNGTQDIAWRIN 173
Score = 41.7 bits (98), Expect = 7e-04
Identities = 21/57 (36%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 384 LVLVSAGYDACVNDPLG----GCKVSPEAYAHFT----HWLKALAQGRIILALEGGY 432
LV +SAG+DA ++ G V Y F + A A GR+I LEGGY
Sbjct: 280 LVFISAGFDASEHEYESMQRHGVNVPTSFYYRFARDAVRFADAHAHGRLISVLEGGY 336
>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 = 77.0 bits (189), Expect = 4e-15
Identities = 65/238 (27%), Positives = 106/238 (44%), Gaps = 43/238 (18%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHY--DAIYIHPS 72
GL ++ + +P +A EE+ K H+ + I+ L + + +Q+ + +
Sbjct: 43 GLYRKMEIYRPHKANAEEMTKYHSDDYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDG 102
Query: 73 SYKLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIRP 132
++ LSAG GS +S+ KL+ + +
Sbjct: 103 LFEFCQLSAG------------GSVASAVKLNKQQTDIAVNWAGGL-------------- 136
Query: 133 PGHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVY 192
HHA KSE G+C+ N++ LA L RVL +D D+HHG ++ FY +RV+
Sbjct: 137 --HHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDIDIHHGDGVEEAFYTTDRVMT 192
Query: 193 FSIHRYEHGTFWP---NLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S H+Y G ++P +LR+ IG G GK Y N PL + + D Y A+F V+
Sbjct: 193 VSFHKY--GEYFPGTGDLRD-----IGAGKGKYYAVNYPL-RDGIDDESYEAIFKPVM 242
Score = 41.2 bits (96), Expect = 0.001
Identities = 28/104 (26%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 351 YPHRTKSKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYA 410
YP R G+ D Y A F+ V+ + F P V++ G D+ D LG ++ + +A
Sbjct: 223 YPLR---DGIDDESYEAIFKPVMSKVMEMFQPSAVVLQCGADSLSGDRLGCFNLTIKGHA 279
Query: 411 HFTHWLKALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 454
++K+ ++L GGY I +++ T T L +P
Sbjct: 280 KCVEFVKSFNLPMLMLG-GGGYTIRNVARCWTYETAVALDSEIP 322
>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 = 74.7 bits (184), Expect = 2e-14
Identities = 39/118 (33%), Positives = 60/118 (50%), Gaps = 16/118 (13%)
Query: 135 HHAMKSEYCGYCFFNNVALA-----AQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNR 189
HHA K E G+C+ N++ +A H RVL +D D+HHG Q+ FY +R
Sbjct: 132 HHAKKFEASGFCYVNDIVIAILELLKYHP-------RVLYIDIDIHHGDGVQEAFYLTDR 184
Query: 190 VVYFSIHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
V+ S H+Y F+P + +G G+ Y+ N+PL K + D Y+ +F V+
Sbjct: 185 VMTVSFHKY-GNYFFPG--TGDMYEVGAESGRYYSVNVPL-KDGIDDQSYLQLFKPVI 238
Score = 31.6 bits (72), Expect = 1.1
Identities = 21/96 (21%), Positives = 45/96 (46%), Gaps = 1/96 (1%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G+ D Y+ F+ VI + + P +++ G D+ D LG +S + + ++K+
Sbjct: 224 GIDDQSYLQLFKPVIQQVIDFYQPTCIVLQCGADSLGCDRLGCFNLSIKGHGECVEFVKS 283
Query: 419 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 454
++L GGY + +++ T T L+ + +
Sbjct: 284 FNIPLLVLG-GGGYTVRNVARCWTYETSLLVDEEIS 318
>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 = 71.5 bits (176), Expect = 1e-13
Identities = 44/155 (28%), Positives = 73/155 (47%), Gaps = 17/155 (10%)
Query: 105 LLSAGSTIELVDNICRGEIKNGMAVIRPPG-HHAMKSEYCGYCFFNNVALAAQHALDNTS 163
L AGS++ L ++ ++ +A+ G HHA KS G+C+ N++ LA L
Sbjct: 85 QLVAGSSLALAKHLITQVERD-IAINWYGGRHHAQKSRASGFCYVNDIVLAILR-LRRAR 142
Query: 164 VSRVLIVDWDVHHGQATQQMFYNDNRVVYFSIHRYEHGTFWP---NLRESEYDHIGEGIG 220
RV +D D+HHG + F+ V+ SIHRY+ G F+P +L+ S
Sbjct: 143 FRRVFYLDLDLHHGDGVESAFFFSKNVLTCSIHRYDPG-FFPGTGSLKNS---------S 192
Query: 221 KGYNFNIPLNKTHMKDADYMAVFHQVLLPMVAEGG 255
NIPL K + D + + ++ P++ +
Sbjct: 193 DKGMLNIPL-KRGLSDKTLLRIIDSIVRPLIEKFE 226
Score = 41.5 bits (98), Expect = 8e-04
Identities = 19/77 (24%), Positives = 33/77 (42%), Gaps = 1/77 (1%)
Query: 358 KGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTH-WL 416
+G+SD + ++ P+ +F PE++++ G D DP ++ Y L
Sbjct: 203 RGLSDKTLLRIIDSIVRPLIEKFEPEVIVIQCGCDGLSGDPHKEWNLTIRGYGSVIELLL 262
Query: 417 KALAQGRIILALEGGYN 433
K +L GGYN
Sbjct: 263 KEFKDKPTLLLGGGGYN 279
>gnl|CDD|240251 PTZ00063, PTZ00063, histone deacetylase; Provisional.
Length = 436
Score = 72.9 bits (179), Expect = 1e-13
Identities = 39/113 (34%), Positives = 62/113 (54%), Gaps = 7/113 (6%)
Query: 135 HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYFS 194
HHA +SE G+C+ N++ L L + RV+ +D DVHHG ++ FY +RV+ S
Sbjct: 137 HHAKRSEASGFCYINDIVLGILELLKYHA--RVMYIDIDVHHGDGVEEAFYVTHRVMTVS 194
Query: 195 IHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
H++ G F+P + IG GK Y+ N+PLN + D ++ +F V+
Sbjct: 195 FHKF--GDFFPG--TGDVTDIGVAQGKYYSVNVPLNDG-IDDDSFVDLFKPVI 242
>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 = 65.9 bits (160), Expect = 2e-11
Identities = 63/235 (26%), Positives = 102/235 (43%), Gaps = 37/235 (15%)
Query: 15 GLVQRCKFIQPREATQEEILKKHTIEQIELLATTEGSTDVDALEQLSSHYDAIYIHPSSY 74
GL ++ + +P +AT EE+ K H+ E I+ L S D + + S
Sbjct: 39 GLYRKMEIYRPHKATAEEMTKYHSDEYIKFLR----SIRPDNMSEYSK------------ 82
Query: 75 KLSLLSAGSTIELRRNQKRNGSHSSSYKLSLLSAGSTIELVDNICRGEIKNGMAVIRPPG 134
++ + G + ++ LS G ++ + R + MAV G
Sbjct: 83 QMQRFNVGEDCPV---------FDGLFEFCQLSTGGSVAGAVKLNRQQ--TDMAVNWAGG 131
Query: 135 -HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYF 193
HHA KSE G+C+ N++ LA L RVL +D D+HHG ++ FY +RV+
Sbjct: 132 LHHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDIDIHHGDGVEEAFYTTDRVMTV 189
Query: 194 S-IHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVL 247
S E+ +LR+ IG G GK Y N P+ + + D Y +F ++
Sbjct: 190 SFHKYGEYFPGTGDLRD-----IGAGKGKYYAVNFPM-RDGIDDESYGQIFKPII 238
Score = 33.9 bits (77), Expect = 0.24
Identities = 25/104 (24%), Positives = 45/104 (43%), Gaps = 4/104 (3%)
Query: 351 YPHRTKSKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYA 410
+P R G+ D Y F+ +I + + P V++ G D+ D LG ++ + +A
Sbjct: 219 FPMR---DGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHA 275
Query: 411 HFTHWLKALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 454
+K ++L GGY I +++ T T L +P
Sbjct: 276 KCVEVVKTFNLPLLMLG-GGGYTIRNVARCWTYETAVALDCEIP 318
>gnl|CDD|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional.
Length = 429
Score = 53.5 bits (128), Expect = 2e-07
Identities = 34/117 (29%), Positives = 56/117 (47%), Gaps = 6/117 (5%)
Query: 135 HHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYFS 194
HH+ E G+C+ N++ L L RVL VD D+HHG + F +RV S
Sbjct: 154 HHSKCGECSGFCYVNDIVLGILELL--KCHDRVLYVDIDMHHGDGVDEAFCTSDRVFTLS 211
Query: 195 IHRYEHGTFWPNLRESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQVLLPMV 251
+H++ +F+P +G G G+ Y+ N+ + + D Y+ +F L +V
Sbjct: 212 LHKFGE-SFFPGTGHPR--DVGYGRGRYYSMNLAVWDG-ITDFYYLGLFEHALHSIV 264
Score = 42.7 bits (100), Expect = 4e-04
Identities = 27/98 (27%), Positives = 48/98 (48%), Gaps = 3/98 (3%)
Query: 359 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 418
G++D Y+ F+ + I +++P+ +++ G D+ D LG +S + ++
Sbjct: 246 GITDFYYLGLFEHALHSIVRRYSPDAIVLQCGADSLAGDRLGLLNLSSFGHGQCVQAVRD 305
Query: 419 LAQGRIILAL-EGGYNISSISYAMTLCTKALLGDPLPL 455
L G +LAL GGY I +++ T L G PLP
Sbjct: 306 L--GIPMLALGGGGYTIRNVAKLWAYETSILTGHPLPP 341
>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 = 44.3 bits (105), Expect = 6e-05
Identities = 17/121 (14%), Positives = 31/121 (25%), Gaps = 25/121 (20%)
Query: 134 GHHAMKSEYCGYCFFNNVALAAQHALDNTSVSRVLIVDWDVHHGQATQQMFYNDNRVVYF 193
G H++ + A+ + ++D D HH T + F N
Sbjct: 33 GDHSI--------ANGAIRAVAEL------HPDLGVIDVDAHHDVRTPEAFGKGNHHT-- 76
Query: 194 SIHRYEHGTFWPNL-------RESEYDHIGEGIGKGYNFNIPLNKTHMKDADYMAVFHQV 246
H S + G K + T + VF ++
Sbjct: 77 PRHLLCEPLISDVHIVSIGIRGVSNGEAGGAYARKLGVVYFSM--TEVDKLGLGDVFEEI 134
Query: 247 L 247
+
Sbjct: 135 V 135
>gnl|CDD|240686 cd12240, RRM_NCBP2, RNA recognition motif found in nuclear
cap-binding protein subunit 2 (CBP20) and similar
proteins. This subfamily corresponds to the RRM of
CBP20, also termed nuclear cap-binding protein subunit 2
(NCBP2), or cell proliferation-inducing gene 55 protein,
or NCBP-interacting protein 1 (NIP1). CBP20 is the small
subunit of the nuclear cap binding complex (CBC), which
is a conserved eukaryotic heterodimeric protein complex
binding to 5'-capped polymerase II transcripts and plays
a central role in the maturation of pre-mRNA and
uracil-rich small nuclear RNA (U snRNA). CBP20 is most
likely responsible for the binding of capped RNA. It
contains an RNA recognition motif (RRM), also termed RBD
(RNA binding domain) or RNP (ribonucleoprotein domain),
and interacts with the second and third domains of
CBP80, the large subunit of CBC. .
Length = 78
Score = 30.2 bits (69), Expect = 0.44
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 10/58 (17%)
Query: 121 GEIKNGMAVIRPPGHHAMKSEYCGYCF----FNNVALAAQHALDNTSV-SRVLIVDWD 173
G+IK +I G CG+CF A A L+ T + R++ VDWD
Sbjct: 23 GDIKR---IIM--GLDRFTKTPCGFCFVEYYTREDAENAVKYLNGTKLDDRIIRVDWD 75
>gnl|CDD|182066 PRK09765, PRK09765, PTS system 2-O-a-mannosyl-D-glycerate specific
transporter subunit IIABC; Provisional.
Length = 631
Score = 30.9 bits (70), Expect = 2.6
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 261 LAEGAALTLRALLDDPCPNFETLGTPSERPKIWK-EGKQCLVLALKHIVP 309
+ AL +AL T+ ++ K K E KQ L+ + VP
Sbjct: 250 IKHAEALIQQALELKRSDETRTVQQDTQPVKSVKTELKQALLSGISFAVP 299
>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 = 3.9
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 403 KVSPEAYAHFTHWLKALAQGRIILALEGGYNISSIS-YAMT 442
K SPE A L++LA ++LA GG NI + + YA
Sbjct: 211 KFSPEELAELVPKLRSLAPP-VLLAAAGGINIENAAAYAAA 250
>gnl|CDD|183880 PRK13184, pknD, serine/threonine-protein kinase; Reviewed.
Length = 932
Score = 30.1 bits (68), Expect = 4.0
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 100 SYKLSLLSAGSTIELVDNICRGEIKNGMAVIRPPGHHAMKSE-YCGYCFF 148
S +S + + S L + + + G ++ PP A + + YCGY +
Sbjct: 335 SLMISKIESSSETRLEYTVTKKGLHEGFGILLPPSEEAERGDFYCGYGLW 384
>gnl|CDD|238870 cd01832, SGNH_hydrolase_like_1, Members of the SGNH-hydrolase
superfamily, a diverse family of lipases and esterases.
The tertiary fold of the enzyme is substantially
different from that of the alpha/beta hydrolase family
and unique among all known hydrolases; its active site
closely resembles the Ser-His-Asp(Glu) triad from other
serine hydrolases, but may lack the carboxlic acid.
Myxobacterial members of this subfamily have been
reported to be involved in adventurous gliding motility.
Length = 185
Score = 29.2 bits (66), Expect = 4.8
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 8/57 (14%)
Query: 374 LPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAY-AHFTHWLKALAQG--RIILA 427
LP A P+LV + AG ND L P+ Y A ++ L R+++
Sbjct: 60 LPAALALRPDLVTLLAG----GNDIL-RPGTDPDTYRADLEEAVRRLRAAGARVVVF 111
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
0.320 0.136 0.413
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 29,691,560
Number of extensions: 2891175
Number of successful extensions: 2356
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2265
Number of HSP's successfully gapped: 86
Length of query: 586
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 484
Effective length of database: 6,413,494
Effective search space: 3104131096
Effective search space used: 3104131096
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 62 (27.8 bits)