RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8282
(632 letters)
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 372 bits (956), Expect = e-124
Identities = 133/348 (38%), Positives = 183/348 (52%), Gaps = 34/348 (9%)
Query: 278 DPEYIAAFQQVILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHG 337
++ + L LDN L+ +L V G D ++
Sbjct: 100 SERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCG---GVGVDTDTIWNE------- 149
Query: 338 SFFPHSKDAGPHNVGEGKGEGFNVNVAWNKVVDSVLNGESAHGVAIIRPPGHHAEQDEPC 397
HS +A G + + V + E +G A++RPPGHHA+
Sbjct: 150 ---LHSSNAARWAAG-----------SVTDLAFKVASRELKNGFAVVRPPGHHADHSTAM 195
Query: 398 GFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSF 457
GFC FN+V++A + S++LI+DWDVHHGNGTQ FY DP VLYIS+HR+D G+F
Sbjct: 196 GFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNF 255
Query: 458 FPHSKDAGPHNVGEGKGEGFNVNVAWN---KKGMSDPEYIAAFQQVILPIAYQFNPELVL 514
FP S VG G GEGFNVNVAW M DPEY+AAF+ V++PIA +F+P+LVL
Sbjct: 256 FPGSGA--VDEVGAGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVL 313
Query: 515 VSAGYDACVND--PLGGCKVSPEAYAHFTHWLKALAQGRIILALEGGYNISSISYAMTLC 572
VSAG+DA PLGG VS + + + T L LA G ++LALEGG+++++I A C
Sbjct: 314 VSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEAC 373
Query: 573 TKALLG---DPLPLLESDLDINSSAVTSIKETISSHKAYWSSLKFLVA 617
ALLG DPL N +A+ S++ I H YW ++ L +
Sbjct: 374 VAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQRLAS 421
Score = 235 bits (600), Expect = 4e-71
Identities = 72/139 (51%), Positives = 92/139 (66%), Gaps = 5/139 (3%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
V + E +G A++RPPGHHA+ GFC FN+V++A + S++LI+DWDV
Sbjct: 167 AFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDV 226
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWN---K 273
HHGNGTQ FY DP VLYIS+HR+D G+FFP S VG G GEGFNVNVAW
Sbjct: 227 HHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGSGA--VDEVGAGSGEGFNVNVAWAGGLD 284
Query: 274 KGMSDPEYIAAFQQVILPM 292
M DPEY+AAF+ V++P+
Sbjct: 285 PPMGDPEYLAAFRIVVMPI 303
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 338 bits (868), Expect = e-111
Identities = 91/281 (32%), Positives = 134/281 (47%), Gaps = 24/281 (8%)
Query: 341 PHSKDAGPHNVGEGKGEGFNVNVAWNKVVDSVLNGESAHGVAIIRPPGHHAEQDEPCGFC 400
+ + G ++ V GE + G A++ PPGHHA + GFC
Sbjct: 105 NGGLEIARLSAG-----------GAVELTRRVATGELSAGYALVNPPGHHAPHNAAMGFC 153
Query: 401 IFNNVSVAAKYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPH 460
IFNN SVAA YA G+ RV ILDWDVHHGNGTQ +++NDP VL IS+H+ H F P
Sbjct: 154 IFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISLHQ--HLCFPPD 211
Query: 461 SKDAGPHNVGEGKGEGFNVNVAWNKKGMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYD 520
S G G G G+N+NV G + Y+ A QV+LP + P+L++V +G+D
Sbjct: 212 SGY--STERGAGNGHGYNINVPLP-PGSGNAAYLHAMDQVVLPALRAYRPQLIIVGSGFD 268
Query: 521 ACVNDPLGGCKVSPEAYAHFTHWLKALA----QGRIILALEGGYNISSISYAMTLCTKAL 576
A + DPL V+ + + A GRI+ EGGY+ + + + L
Sbjct: 269 ASMLDPLARMMVTADGFRQMARRTIDCAADICDGRIVFVQEGGYSPHYLPFCGLAVIEEL 328
Query: 577 LGD---PLPLLESDLDI-NSSAVTSIKETISSHKAYWSSLK 613
G P P E + ++ + + + I + ++
Sbjct: 329 TGVRSLPDPYHEFLAGMGGNTLLDAERAAIEEIVPLLADIR 369
Score = 223 bits (570), Expect = 3e-67
Identities = 66/135 (48%), Positives = 81/135 (60%), Gaps = 5/135 (3%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
V GE + G A++ PPGHHA + GFCIFNN SVAA YA G+ RV ILDWDV
Sbjct: 122 TRRVATGELSAGYALVNPPGHHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDV 181
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHGNGTQ +++NDP VL IS+H+ H F P S G G G G+N+NV G
Sbjct: 182 HHGNGTQDIWWNDPSVLTISLHQ--HLCFPPDSGY--STERGAGNGHGYNINVPLP-PGS 236
Query: 277 SDPEYIAAFQQVILP 291
+ Y+ A QV+LP
Sbjct: 237 GNAAYLHAMDQVVLP 251
Score = 125 bits (317), Expect = 9e-32
Identities = 42/103 (40%), Positives = 52/103 (50%), Gaps = 23/103 (22%)
Query: 265 FNVNVAWNKKGMSDPEYIAAFQQVILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDP 324
FN N + +AA YA G+ RV ILDWDVHHGNGTQ +++NDP
Sbjct: 155 FN-NTS-----------VAA-------GYARAVLGMERVAILDWDVHHGNGTQDIWWNDP 195
Query: 325 RVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNK 367
VL IS+H+ H F P S G G G G+N+NV
Sbjct: 196 SVLTISLHQ--HLCFPPDSGY--STERGAGNGHGYNINVPLPP 234
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 281 bits (721), Expect = 1e-89
Identities = 66/210 (31%), Positives = 99/210 (47%), Gaps = 8/210 (3%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
+V +G A+ RPPGHHA D GFC NN ++AA+ H RV +LD D+
Sbjct: 158 AAAVRDGAP-AAYALCRPPGHHARVDAAGGFCYLNNAAIAAQALRARHA--RVAVLDTDM 214
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 488
HHG G Q +FY VLY+S+H D +F+P G G+G G+NVN+ G
Sbjct: 215 HHGQGIQEIFYARRDVLYVSIHG-DPTNFYPAVAGF-DDERGAGEGLGYNVNLPMP-HGS 271
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA 548
S+ + L +F P+ +++S G+D +DP V+ + + H + AL
Sbjct: 272 SEAAFFERVDDA-LRELRRFAPDALVLSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALR 330
Query: 549 QGRIILALEGGYNISSISYAMTLCTKALLG 578
++ EGGY+I S+
Sbjct: 331 -LPTVIVQEGGYHIESLEANARSFFGGFGA 359
Score = 194 bits (494), Expect = 2e-56
Identities = 48/138 (34%), Positives = 68/138 (49%), Gaps = 6/138 (4%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
+V +G A+ RPPGHHA D GFC NN ++AA+ H RV +LD D+
Sbjct: 158 AAAVRDGAP-AAYALCRPPGHHARVDAAGGFCYLNNAAIAAQALRARHA--RVAVLDTDM 214
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHG G Q +FY VLY+S+H D +F+P G G+G G+NVN+ G
Sbjct: 215 HHGQGIQEIFYARRDVLYVSIHG-DPTNFYPAVAGF-DDERGAGEGLGYNVNLPMP-HGS 271
Query: 277 SDPEYIAAFQQVILPMYA 294
S+ + + +
Sbjct: 272 SEAAFFERVDDALRELRR 289
Score = 110 bits (276), Expect = 2e-26
Identities = 28/74 (37%), Positives = 38/74 (51%), Gaps = 4/74 (5%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
H RV +LD D+HHG G Q +FY VLY+S+H D +F+P G
Sbjct: 199 ALRARHA--RVAVLDTDMHHGQGIQEIFYARRDVLYVSIHG-DPTNFYPAVAGF-DDERG 254
Query: 353 EGKGEGFNVNVAWN 366
G+G G+NVN+
Sbjct: 255 AGEGLGYNVNLPMP 268
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold,
deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N;
2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A*
Length = 341
Score = 268 bits (688), Expect = 5e-85
Identities = 66/210 (31%), Positives = 95/210 (45%), Gaps = 7/210 (3%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
D + G A ++ RPPGHHA D G+C NN +VAA+ LD G ++ ILD D
Sbjct: 139 ADLIAAGHKA-AFSLCRPPGHHAGIDMFGGYCFINNAAVAAQRLLD-KGAKKIAILDVDF 196
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 488
HHGNGTQ +FY V + S+H +F A G+G G G N +G
Sbjct: 197 HHGNGTQDIFYERGDVFFASLHGDPAEAFPHFLGYA--EETGKGAGAGTTANYPM-GRGT 253
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA 548
+ A + IA F E ++VS G D DP+ K++ Y + A
Sbjct: 254 PYSVWGEALTDSLKRIA-AFGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASG 312
Query: 549 QGRIILALEGGYNISSISYAMTLCTKALLG 578
+++ +EGGY + I + K + G
Sbjct: 313 -VPLLVVMEGGYGVPEIGLNVANVLKGVAG 341
Score = 183 bits (467), Expect = 7e-53
Identities = 47/138 (34%), Positives = 64/138 (46%), Gaps = 5/138 (3%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
D + G A ++ RPPGHHA D G+C NN +VAA+ LD G ++ ILD D
Sbjct: 139 ADLIAAGHKA-AFSLCRPPGHHAGIDMFGGYCFINNAAVAAQRLLD-KGAKKIAILDVDF 196
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHGNGTQ +FY V + S+H +F A G+G G G N +G
Sbjct: 197 HHGNGTQDIFYERGDVFFASLHGDPAEAFPHFLGYA--EETGKGAGAGTTANYPM-GRGT 253
Query: 277 SDPEYIAAFQQVILPMYA 294
+ A + + A
Sbjct: 254 PYSVWGEALTDSLKRIAA 271
Score = 106 bits (266), Expect = 3e-25
Identities = 26/73 (35%), Positives = 33/73 (45%), Gaps = 3/73 (4%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
LD G ++ ILD D HHGNGTQ +FY V + S+H +F A G
Sbjct: 180 RLLD-KGAKKIAILDVDFHHGNGTQDIFYERGDVFFASLHGDPAEAFPHFLGYA--EETG 236
Query: 353 EGKGEGFNVNVAW 365
+G G G N
Sbjct: 237 KGAGAGTTANYPM 249
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta
fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2
PDB: 1c3r_A* 1c3s_A*
Length = 375
Score = 264 bits (677), Expect = 6e-83
Identities = 62/216 (28%), Positives = 104/216 (48%), Gaps = 12/216 (5%)
Query: 369 VDSVLNGESAHGVAIIRPPG--HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 426
++ L G P G HHA + GFC NN +V +Y G R+L +D
Sbjct: 114 IEEFLKGN-----VAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLRK-KGFKRILYIDL 167
Query: 427 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 486
D HH +G Q FY+ +V +S+H+ +F +GEGKG+G+N+N+ K
Sbjct: 168 DAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEK--GFLEEIGEGKGKGYNLNIPL-PK 224
Query: 487 GMSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKA 546
G++D E++ A ++ + + F PE+ L+ G D + D L +S A+ + ++
Sbjct: 225 GLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAFLKAFNIVRE 284
Query: 547 LAQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 582
+ G + GGY+ +++ A TL L G +P
Sbjct: 285 VF-GEGVYLGGGGYHPYALARAWTLIWCELSGREVP 319
Score = 172 bits (438), Expect = 2e-48
Identities = 42/137 (30%), Positives = 68/137 (49%), Gaps = 11/137 (8%)
Query: 157 VDSVLNGESAHGVAIIRPPG--HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDW 214
++ L G P G HHA + GFC NN +V +Y G R+L +D
Sbjct: 114 IEEFLKGN-----VAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLRK-KGFKRILYIDL 167
Query: 215 DVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKK 274
D HH +G Q FY+ +V +S+H+ +F +GEGKG+G+N+N+ K
Sbjct: 168 DAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEK--GFLEEIGEGKGKGYNLNIPL-PK 224
Query: 275 GMSDPEYIAAFQQVILP 291
G++D E++ A ++ +
Sbjct: 225 GLNDNEFLFALEKSLEI 241
Score = 105 bits (263), Expect = 1e-24
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 3/80 (3%)
Query: 288 VILPMYALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAG 347
+ Y G R+L +D D HH +G Q FY+ +V +S+H+ +F
Sbjct: 148 AVGIEYLRK-KGFKRILYIDLDAHHCDGVQEAFYDTDQVFVLSLHQSPEYAFPFEK--GF 204
Query: 348 PHNVGEGKGEGFNVNVAWNK 367
+GEGKG+G+N+N+ K
Sbjct: 205 LEEIGEGKGKGYNLNIPLPK 224
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 261 bits (669), Expect = 8e-82
Identities = 61/215 (28%), Positives = 104/215 (48%), Gaps = 11/215 (5%)
Query: 369 VDSVLNGESAHGVAIIRPPG-HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 427
+ ++ A+ G HHA++ E GFC N++ +A L H RVL +D D
Sbjct: 115 AVKLNRQQTDM--AVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDID 170
Query: 428 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 487
+HHG+G + FY RV+ +S H+Y G +FP + D ++G GKG+ + VN + G
Sbjct: 171 IHHGDGVEEAFYTTDRVMTVSFHKY--GEYFPGTGDL--RDIGAGKGKYYAVNFPM-RDG 225
Query: 488 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKAL 547
+ D Y F+ +I + + P V++ G D+ D LG ++ + +A +K
Sbjct: 226 IDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTF 285
Query: 548 AQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 582
+++ GGY I +++ T T L +P
Sbjct: 286 N-LPLLMLGGGGYTIRNVARCWTYETAVALDCEIP 319
Score = 170 bits (433), Expect = 1e-47
Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 10/136 (7%)
Query: 157 VDSVLNGESAHGVAIIRPPG-HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 215
+ ++ A+ G HHA++ E GFC N++ +A L H RVL +D D
Sbjct: 115 AVKLNRQQTDM--AVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQ--RVLYIDID 170
Query: 216 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 275
+HHG+G + FY RV+ +S H+Y G +FP + D ++G GKG+ + VN + G
Sbjct: 171 IHHGDGVEEAFYTTDRVMTVSFHKY--GEYFPGTGDL--RDIGAGKGKYYAVNFPM-RDG 225
Query: 276 MSDPEYIAAFQQVILP 291
+ D Y F+ +I
Sbjct: 226 IDDESYGQIFKPIISK 241
Score = 101 bits (254), Expect = 2e-23
Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 6/75 (8%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
L H RVL +D D+HHG+G + FY RV+ +S H+Y G +FP + D ++G
Sbjct: 156 ELLKYHQ--RVLYIDIDIHHGDGVEEAFYTTDRVMTVSFHKY--GEYFPGTGDL--RDIG 209
Query: 353 EGKGEGFNVNVAWNK 367
GKG+ + VN
Sbjct: 210 AGKGKYYAVNFPMRD 224
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme,
arginase fold, HDAC8, histon deacetylase, hydroxamate
inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens}
PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A*
2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A*
1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A*
Length = 388
Score = 259 bits (665), Expect = 5e-81
Identities = 57/214 (26%), Positives = 101/214 (47%), Gaps = 8/214 (3%)
Query: 369 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 428
+++G + HHA++DE GFC N+ + R+L +D D+
Sbjct: 123 AQCLIDGMCKVAINW-SGGWHHAKKDEASGFCYLNDAVLGILRLRRKFE--RILYVDLDL 179
Query: 429 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 488
HHG+G + F +V+ +S+H++ G FFP + D +VG GKG ++VNV + G+
Sbjct: 180 HHGDGVEDAFSFTSKVMTVSLHKFSPG-FFPGTGDV--SDVGLGKGRYYSVNVPI-QDGI 235
Query: 489 SDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKALA 548
D +Y + V+ + FNP+ V++ G D DP+ ++P ++
Sbjct: 236 QDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQ 295
Query: 549 QGRIILALEGGYNISSISYAMTLCTKALLGDPLP 582
++ GGYN+++ + T T +LG L
Sbjct: 296 -LATLILGGGGYNLANTARCWTYLTGVILGKTLS 328
Score = 171 bits (436), Expect = 7e-48
Identities = 39/135 (28%), Positives = 67/135 (49%), Gaps = 7/135 (5%)
Query: 157 VDSVLNGESAHGVAIIRPPGHHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDV 216
+++G + HHA++DE GFC N+ + R+L +D D+
Sbjct: 123 AQCLIDGMCKVAINW-SGGWHHAKKDEASGFCYLNDAVLGILRLRRKFE--RILYVDLDL 179
Query: 217 HHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKGM 276
HHG+G + F +V+ +S+H++ G FFP + D +VG GKG ++VNV + G+
Sbjct: 180 HHGDGVEDAFSFTSKVMTVSLHKFSPG-FFPGTGDV--SDVGLGKGRYYSVNVPI-QDGI 235
Query: 277 SDPEYIAAFQQVILP 291
D +Y + V+
Sbjct: 236 QDEKYYQICESVLKE 250
Score = 103 bits (258), Expect = 7e-24
Identities = 25/70 (35%), Positives = 40/70 (57%), Gaps = 3/70 (4%)
Query: 298 HGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGE 357
R+L +D D+HHG+G + F +V+ +S+H++ G FFP + D +VG GKG
Sbjct: 167 RKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPG-FFPGTGDV--SDVGLGKGR 223
Query: 358 GFNVNVAWNK 367
++VNV
Sbjct: 224 YYSVNVPIQD 233
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 256 bits (655), Expect = 1e-79
Identities = 61/215 (28%), Positives = 101/215 (46%), Gaps = 10/215 (4%)
Query: 369 VDSVLNGESAHGVAIIRPPG-HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 427
+ N AI G HHA++ E GFC N++ + L H RVL +D D
Sbjct: 115 ATQLNNKICDI--AINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYH--PRVLYIDID 170
Query: 428 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 487
+HHG+G Q FY RV+ +S H+Y + FFP + D + VG G + +NV + G
Sbjct: 171 IHHGDGVQEAFYLTDRVMTVSFHKYGNY-FFPGTGDM--YEVGAESGRYYCLNVPL-RDG 226
Query: 488 MSDPEYIAAFQQVILPIAYQFNPELVLVSAGYDACVNDPLGGCKVSPEAYAHFTHWLKAL 547
+ D Y FQ VI + + P +++ G D+ D LG +S + ++K+
Sbjct: 227 IDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEYVKSF 286
Query: 548 AQGRIILALEGGYNISSISYAMTLCTKALLGDPLP 582
+++ GGY + +++ T T L+ + +
Sbjct: 287 N-IPLLVLGGGGYTVRNVARCWTYETSLLVEEAIS 320
Score = 165 bits (420), Expect = 7e-46
Identities = 47/136 (34%), Positives = 66/136 (48%), Gaps = 9/136 (6%)
Query: 157 VDSVLNGESAHGVAIIRPPG-HHAEQDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWD 215
+ N AI G HHA++ E GFC N++ + L H RVL +D D
Sbjct: 115 ATQLNNKICDI--AINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYH--PRVLYIDID 170
Query: 216 VHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVGEGKGEGFNVNVAWNKKG 275
+HHG+G Q FY RV+ +S H+Y + FFP + D + VG G + +NV + G
Sbjct: 171 IHHGDGVQEAFYLTDRVMTVSFHKYGNY-FFPGTGDM--YEVGAESGRYYCLNVPL-RDG 226
Query: 276 MSDPEYIAAFQQVILP 291
+ D Y FQ VI
Sbjct: 227 IDDQSYKHLFQPVINQ 242
Score = 97.4 bits (243), Expect = 5e-22
Identities = 28/75 (37%), Positives = 39/75 (52%), Gaps = 5/75 (6%)
Query: 293 YALDNHGLSRVLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSFFPHSKDAGPHNVG 352
L H RVL +D D+HHG+G Q FY RV+ +S H+Y + FFP + D + VG
Sbjct: 156 ELLKYH--PRVLYIDIDIHHGDGVQEAFYLTDRVMTVSFHKYGNY-FFPGTGDM--YEVG 210
Query: 353 EGKGEGFNVNVAWNK 367
G + +NV
Sbjct: 211 AESGRYYCLNVPLRD 225
>3c5k_A HD6, histone deacetylase 6; HDAC6, zinc finger, actin-binding,
chromatin regulator, cytoplasm, hydrolase,
metal-binding, nucleus, phosphoprotein; 1.55A {Homo
sapiens} PDB: 3gv4_A 3phd_A
Length = 109
Score = 60.4 bits (146), Expect = 1e-11
Identities = 24/45 (53%), Positives = 30/45 (66%)
Query: 19 VRCGRYIEEHSMLHGVSTEHPLALSFADLSVWCYVCEAYVDNHLL 63
V CGRYI H + H ++ HPL LS+ DLS WCY C+AYV + L
Sbjct: 45 VYCGRYINGHMLQHHGNSGHPLVLSYIDLSAWCYYCQAYVHHQAL 89
Score = 43.1 bits (101), Expect = 2e-05
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 83 TEHPLALSFADLSVWCYVCEAYVDNHLL 110
+ HPL LS+ DLS WCY C+AYV + L
Sbjct: 62 SGHPLVLSYIDLSAWCYYCQAYVHHQAL 89
Score = 36.2 bits (83), Expect = 0.005
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 130 TEHPLALSFADLSVWGYVCEPYVDNHVVDSVLN 162
+ HPL LS+ DLS W Y C+ YV + + V N
Sbjct: 62 SGHPLVLSYIDLSAWCYYCQAYVHHQALLDVKN 94
>2uzg_A Ubiquitin carboxyl-terminal hydrolase 33; UBL conjugation
pathway, DE-ubiquitination, alternative splicing,
metal-binding, thiol protease; NMR {Homo sapiens} SCOP:
g.44.1.5
Length = 97
Score = 58.1 bits (140), Expect = 9e-11
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 19 VRCGRYIEEHSMLHGVSTEHPLALSFADLSVWCYVCEAYV--DNHL 62
V CG +HS +H T+H L ++ L VWCY C V D L
Sbjct: 49 VGCGESQVDHSTIHSQETKHYLTVNLTTLRVWCYACSKEVFLDRKL 94
Score = 42.7 bits (100), Expect = 2e-05
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 83 TEHPLALSFADLSVWCYVCEAYV--DNHL 109
T+H L ++ L VWCY C V D L
Sbjct: 66 TKHYLTVNLTTLRVWCYACSKEVFLDRKL 94
Score = 33.4 bits (76), Expect = 0.033
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 130 TEHPLALSFADLSVWGYVCEPYV--DNH 155
T+H L ++ L VW Y C V D
Sbjct: 66 TKHYLTVNLTTLRVWCYACSKEVFLDRK 93
>2ida_A Hypothetical protein; zinc binding protein, structural genomics,
PSI-2, protein structure initiative; NMR
{Rhodopseudomonas palustris} SCOP: g.44.1.5
Length = 102
Score = 53.4 bits (128), Expect = 4e-09
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 19 VRCGRY-IEEHSMLHGVSTEHPLALSF--ADLSVWCYVCEAYVDN 60
V C +H+ H +T HP+ + + WCYV E D
Sbjct: 43 VGCCDDSPHKHATRHFHATGHPIIEGYDPPEGWGWCYVDEVMFDL 87
Score = 31.5 bits (71), Expect = 0.23
Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 2/27 (7%)
Query: 130 TEHPLALSF--ADLSVWGYVCEPYVDN 154
T HP+ + + W YV E D
Sbjct: 61 TGHPIIEGYDPPEGWGWCYVDEVMFDL 87
>2i50_A Ubiquitin carboxyl-terminal hydrolase 16; alpha/beta zinc-finger,
ring-finger, ZNF-UBP, metalloprotein, ubiquitin-binding
protein, USP; NMR {Homo sapiens}
Length = 126
Score = 52.4 bits (125), Expect = 2e-08
Identities = 19/46 (41%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 19 VRCGRYIEE-HSMLHGV---STEHPLALSFADLSVWCYVCEAYVDN 60
CGR +E H++ H + S H L LS + SVWCYVC+ V
Sbjct: 63 QGCGRNSQEQHALKHYLTPRSEPHCLVLSLDNWSVWCYVCDNEVQY 108
Score = 43.5 bits (102), Expect = 2e-05
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 83 TEHPLALSFADLSVWCYVCEAYVDN 107
H L LS + SVWCYVC+ V
Sbjct: 84 EPHCLVLSLDNWSVWCYVCDNEVQY 108
Score = 35.5 bits (81), Expect = 0.013
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 130 TEHPLALSFADLSVWGYVCEPYVDN 154
H L LS + SVW YVC+ V
Sbjct: 84 EPHCLVLSLDNWSVWCYVCDNEVQY 108
>2g45_A Ubiquitin carboxyl-terminal hydrolase 5; zinc finger, hydrolase;
1.99A {Homo sapiens} SCOP: g.44.1.5 PDB: 2g43_A 2l80_A
Length = 129
Score = 49.2 bits (117), Expect = 2e-07
Identities = 15/65 (23%), Positives = 28/65 (43%), Gaps = 11/65 (16%)
Query: 19 VRCGRYI------EEHSMLHGVSTEHPLALSFADLS-----VWCYVCEAYVDNHLLALLI 67
+ CGR H++ H T +PLA+ ++ V+ Y + V + LA +
Sbjct: 55 ILCGRRYFDGSGGNNHAVEHYRETGYPLAVKLGTITPDGADVYSYDEDDMVLDPSLAEHL 114
Query: 68 YLYGV 72
+G+
Sbjct: 115 SHFGI 119
Score = 37.3 bits (86), Expect = 0.003
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 83 TEHPLALSFADLS-----VWCYVCEAYVDNHLLALLIYLYGV 119
T +PLA+ ++ V+ Y + V + LA + +G+
Sbjct: 78 TGYPLAVKLGTITPDGADVYSYDEDDMVLDPSLAEHLSHFGI 119
Score = 28.4 bits (63), Expect = 2.9
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 9/43 (20%)
Query: 130 TEHPLALSFADLS-----VWGYVCEPYVDNHVVDSVLNGESAH 167
T +PLA+ ++ V+ Y D+ V+D L +H
Sbjct: 78 TGYPLAVKLGTITPDGADVYSYDE----DDMVLDPSLAEHLSH 116
>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex,
hydrolase-transcription regulator-Pro binding complex,
acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae}
PDB: 3mhh_A 3m99_A
Length = 476
Score = 37.2 bits (86), Expect = 0.014
Identities = 11/43 (25%), Positives = 20/43 (46%)
Query: 21 CGRYIEEHSMLHGVSTEHPLALSFADLSVWCYVCEAYVDNHLL 63
CG + H + H H ++ + ++C+ CE Y+ N L
Sbjct: 71 CGCWNHSHFLSHSKQIGHIFGINSNNGLLFCFKCEDYIGNIDL 113
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 36.0 bits (82), Expect = 0.045
Identities = 48/289 (16%), Positives = 78/289 (26%), Gaps = 99/289 (34%)
Query: 401 IFNNVSVAAKYALDNHGLSR---VLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSF 457
++N+ V AKY + SR L L + + +
Sbjct: 119 LYNDNQVFAKYNV-----SRLQPYLKL----------RQALLELRPAKNVLID------- 156
Query: 458 FPHSKDAGPHNVGEGK-------------GEGFNVNVAWNKKG-MSDPEYIAAFQQVILP 503
G +G GK + + W + PE + Q +L
Sbjct: 157 -------GV--LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL- 206
Query: 504 IAYQFNPELV-----------------------LVSAGYDAC------VNDP------LG 528
YQ +P L S Y+ C V +
Sbjct: 207 --YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 529 GCKV---SPEAYAHFTHWLKALAQGRIILA-LEGGYNISSISYAMTLCTKALLGDP--LP 582
CK+ + + T +L A I L + +L K L P LP
Sbjct: 265 SCKILLTT--RFKQVTDFLSAATTTHISLDHHSMTL---TPDEVKSLLLKYLDCRPQDLP 319
Query: 583 LLESDLDINSSAVTSIKETISSHKAYWSSLKFLVALPENKLLSADYAQL 631
L N ++ I E+I A W + K + ++ + L
Sbjct: 320 --REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Score = 31.7 bits (71), Expect = 0.84
Identities = 79/537 (14%), Positives = 142/537 (26%), Gaps = 177/537 (32%)
Query: 189 IFNNVSVAAKYALDNHGLSR---VLILDWDVHHGNGTQAMFYNDPRVLYISVHRYDHGSF 245
++N+ V AKY + SR L L + + +
Sbjct: 119 LYNDNQVFAKYNV-----SRLQPYLKL----------RQALLELRPAKNVLID------- 156
Query: 246 FPHSKDAGPHNVGEGK-------------GEGFNVNVAWNKKG-MSDPEYIAAFQQ---- 287
G +G GK + + W + PE + Q
Sbjct: 157 -------GV--LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 288 VILPMYALDNHGLSRV------------------------LILDWDVHHGNGTQAMFYND 323
I P + + S + L+L +V + A F
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL-NVQNAKAWNA-FNLS 265
Query: 324 PRVL----YISVHRYDHGSFFPH-SKDAGPHNVGEGKGEGFNVNVAWNKVVDSVLNGESA 378
++L + V + + H S D + + + + + D L E
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD--LPREVL 323
Query: 379 HG----VAIIRPPGHHAE--QDEPCGFCIFNNVSVAAKYALDNHGLSRVLILDWDVHHGN 432
++II AE +D ++N D L+ ++
Sbjct: 324 TTNPRRLSII------AESIRDGLA---TWDNWK---HVNCDK--LTTII---------- 359
Query: 433 GTQAMFYN--DPRVLYISVHRYDHGSFFPHSKDAG-PHNVGEGKGEGFNVNVAWNKKGMS 489
N +P +D S FP A P + +++ W S
Sbjct: 360 ---ESSLNVLEPAEYR---KMFDRLSVFP--PSAHIPTIL---------LSLIWFDVIKS 402
Query: 490 DPEYIAA-FQQVILPIAYQFNPELVLVSAGY-DACVNDPLGGCKVSPEAYAH---FTHW- 543
D + + L + Q + + + Y + K+ E H H+
Sbjct: 403 DVMVVVNKLHKYSL-VEKQPKESTISIPSIYLELK-------VKLENEYALHRSIVDHYN 454
Query: 544 -LKALAQGRIILALEGGYNISSISYAMTLCTKALLGDPLPLLESDLD----------INS 592
K +I Y S I + + ++ D
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAW 514
Query: 593 SAVTSIKETISSHKAY---------------WSSLKFLVALPENKLLS--ADYAQLA 632
+A SI T+ K Y + L FL + EN + S D ++A
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA 571
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 35.6 bits (81), Expect = 0.055
Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 11/72 (15%)
Query: 19 VRCGRYI------EEHSMLHGVSTEHPLALSFADLS-----VWCYVCEAYVDNHLLALLI 67
+ CGR H++ H T +PLA+ ++ V+ Y + V + LA +
Sbjct: 236 ILCGRRYFDGSGGNNHAVEHYRETGYPLAVKLGTITPDGADVYSYDEDDMVLDPSLAEHL 295
Query: 68 YLYGVMYVNPMS 79
+G+ +
Sbjct: 296 SHFGIDMLKMQK 307
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 3.2
Identities = 6/22 (27%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 584 LESDLDI---NSSAVTSIKETI 602
L++ L + +S+ +IK T+
Sbjct: 25 LQASLKLYADDSAPALAIKATM 46
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 30.0 bits (67), Expect = 3.5
Identities = 33/165 (20%), Positives = 63/165 (38%), Gaps = 45/165 (27%)
Query: 1 MP--FALNLCYFVIKGNFSLVRCGRYIEEHSMLHGVSTEH----PLALSFADLSVWCYVC 54
P + L ++V+ G E S L G + H A++ A+ W
Sbjct: 238 CPLIGVIQLAHYVVTAKLLGFTPG---ELRSYLKGATG-HSQGLVTAVAIAETDSW---- 289
Query: 55 EAYVDNHLLAL--LIYL-------YGVMYVNP-MSIIITEH------PLALSFADLS--- 95
E++ + A+ L ++ Y + P + E+ P+ LS ++L+
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM-LSISNLTQEQ 348
Query: 96 VWCYVCEAYVDNHLLA---LLIYLY-GVMYVKPMSIIITEHPLAL 136
V YV ++HL A + I L G +++++ P +L
Sbjct: 349 VQDYV--NKTNSHLPAGKQVEISLVNG-----AKNLVVSGPPQSL 386
Score = 28.9 bits (64), Expect = 7.3
Identities = 28/145 (19%), Positives = 51/145 (35%), Gaps = 56/145 (38%)
Query: 38 HPL----AL-SFAD-LSVWCYVCEAYVDNHLLA---LLIYL-----------YGVMYVNP 77
H L AL S AD +S+ E+ V+ ++ + + + YG++ +NP
Sbjct: 1762 HSLGEYAALASLADVMSI-----ESLVE--VVFYRGMTMQVAVPRDELGRSNYGMIAINP 1814
Query: 78 MSIIITEHPLALSFADLSVWC--------YVCEA---------YV---DNHLLALLIYLY 117
+ + S L ++ E YV D L +
Sbjct: 1815 GRVAAS-----FSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVT--- 1866
Query: 118 GVM-YVKPMSIIITEHPLALSFADL 141
V+ ++K I I E +LS ++
Sbjct: 1867 NVLNFIKLQKIDIIELQKSLSLEEV 1891
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.139 0.444
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,320,250
Number of extensions: 652057
Number of successful extensions: 1356
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1274
Number of HSP's successfully gapped: 58
Length of query: 632
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 533
Effective length of database: 3,937,614
Effective search space: 2098748262
Effective search space used: 2098748262
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: 60 (27.1 bits)