RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014167
(429 letters)
>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 = 594 bits (1534), Expect = 0.0
Identities = 148/372 (39%), Positives = 226/372 (60%), Gaps = 3/372 (0%)
Query: 8 SYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSAD 67
Y Y + S + P R M H L+ +Y LHK+M I +P A E+A FH+
Sbjct: 17 VYIYSPEYVS--MCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDA 74
Query: 68 YVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDI 127
Y++ L +++ + + +Y LG CP E +F++ G TI AA+ L + +C +
Sbjct: 75 YLQHLQKVSQEGDDDHPDSI-EYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKV 133
Query: 128 AINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTD 187
AINW+GG HHAKK EASGFCY+ND VLGIL L + R+LY+D+D+HHGDGVE+AF FT
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTS 193
Query: 188 RVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVE 247
+VMTVS HKF FFPGTGDV ++G +G++Y++NVP++DGI D + ++ ++++ +V +
Sbjct: 194 KVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQ 253
Query: 248 TYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVAR 307
+ P A+VLQ GAD++AGD + FN++ G +C++++ ++ L L+ GGGGY N AR
Sbjct: 254 AFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTAR 313
Query: 308 CWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENL 367
CWT TG++L L +EIP++E+ + P+ L I + N + I + NL
Sbjct: 314 CWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNL 373
Query: 368 RSIQHAPSVQMQ 379
+ +
Sbjct: 374 KHVVIEGRSHHH 385
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 584 bits (1507), Expect = 0.0
Identities = 225/375 (60%), Positives = 289/375 (77%), Gaps = 1/375 (0%)
Query: 4 KDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQF 63
++YFYD DVG+ ++G HPMKPHRL +TH LVL Y L+KKM +++P++A ++ +F
Sbjct: 2 AKTVAYFYDPDVGNFHYGAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRF 61
Query: 64 HSADYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQ 123
HS DY++FL R++P F + L +N+G+DCPVF LFEFC Y G ++ A +LNN+
Sbjct: 62 HSEDYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNK 121
Query: 124 LCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEAF 183
+CDIAINWAGGLHHAKK EASGFCY+ND+V+GILELLKYH RVLYIDID+HHGDGV+EAF
Sbjct: 122 ICDIAINWAGGLHHAKKFEASGFCYVNDIVIGILELLKYHPRVLYIDIDIHHGDGVQEAF 181
Query: 184 YFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIIS 243
Y TDRVMTVSFHK+G+ FFPGTGD+ E+G G++Y +NVPL+DGIDD S+ LF+ +I+
Sbjct: 182 YLTDRVMTVSFHKYGNYFFPGTGDMYEVGAESGRYYCLNVPLRDGIDDQSYKHLFQPVIN 241
Query: 244 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 303
+VV+ Y P IVLQCGADSL DRLGCFNLSI GH ECV +VK FN+PLLV GGGGYT
Sbjct: 242 QVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVEYVKSFNIPLLVLGGGGYTVR 301
Query: 304 NVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIP-NGHIENLNSKSYLSTIKMQ 362
NVARCWT ET +L++ + E+P +EY +YFAP+ +L + IEN NS+ YL I+
Sbjct: 302 NVARCWTYETSLLVEEAISEELPYSEYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQT 361
Query: 363 VLENLRSIQHAPSVQ 377
+ ENL+ + HAPSVQ
Sbjct: 362 IFENLKMLNHAPSVQ 376
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 582 bits (1503), Expect = 0.0
Identities = 226/368 (61%), Positives = 295/368 (80%), Gaps = 1/368 (0%)
Query: 3 SKDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQ 62
+K K+ Y+YDGD+G+ Y+G HPMKPHR+ MTH+L+L+Y L++KMEIYRPHKA E+ +
Sbjct: 1 AKKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTK 60
Query: 63 FHSADYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNN 122
+HS +Y++FL I PD + +++ ++N+GEDCPVF+ LFEFCQ+ GG++ A +LN
Sbjct: 61 YHSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNR 120
Query: 123 QLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHARVLYIDIDVHHGDGVEEA 182
Q D+A+NWAGGLHHAKK EASGFCY+ND+VL ILELLKYH RVLYIDID+HHGDGVEEA
Sbjct: 121 QQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLKYHQRVLYIDIDIHHGDGVEEA 180
Query: 183 FYFTDRVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTII 242
FY TDRVMTVSFHK+G+ +FPGTGD+++IG +GK+YA+N P++DGIDD S+ ++FK II
Sbjct: 181 FYTTDRVMTVSFHKYGE-YFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDESYGQIFKPII 239
Query: 243 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTK 302
SKV+E Y P A+VLQCGADSL+GDRLGCFNL++ GHA+CV VK FNLPLL+ GGGGYT
Sbjct: 240 SKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVEVVKTFNLPLLMLGGGGYTI 299
Query: 303 ENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQ 362
NVARCWT ET + LD E+PNE+P N+Y +YF P+ L I ++ N N+ Y+ IK +
Sbjct: 300 RNVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKLHISPSNMTNQNTPEYMEKIKQR 359
Query: 363 VLENLRSI 370
+ ENLR +
Sbjct: 360 LFENLRML 367
>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 = 534 bits (1378), Expect = 0.0
Identities = 117/380 (30%), Positives = 180/380 (47%), Gaps = 13/380 (3%)
Query: 1 MRSKDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVEL 60
M+ K+ D G + NHP+K R+ + + +L + E+ + A EL
Sbjct: 1 MK---KVKLIGTLDYGKYRYPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEEL 57
Query: 61 AQFHSADYVEFLHRITPDTQHLFRQELTKYNLG-EDCPVFENLFEFCQIYAGGTIDAARR 119
FH+ DY+ L Q + + KYN+G + PV +F + G T+ A
Sbjct: 58 LLFHTEDYINTLMEAERC-QCVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEE 116
Query: 120 LNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLK-YHARVLYIDIDVHHGDG 178
++A N AGG+HHA K A+GFCYIN+ +GI L K R+LYID+D HH DG
Sbjct: 117 FLK--GNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLRKKGFKRILYIDLDAHHCDG 174
Query: 179 VEEAFYFTDRVMTVSFHKFGDLFFP-GTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRL 237
V+EAFY TD+V +S H+ + FP G ++EIGE +GK Y +N+PL G++D F
Sbjct: 175 VQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLEEIGEGKGKGYNLNIPLPKGLNDNEFLFA 234
Query: 238 FKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG 297
+ + V E + P +LQ G D L D L FNLS + V++ + GG
Sbjct: 235 LEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAFLKAFNIVREVFGEGVYLGG 294
Query: 298 GGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRI----PNGHIENLNSK 353
GGY +AR WT+ L E+P ++ + + + +E L
Sbjct: 295 GGYHPYALARAWTLIWCELSGREVPEKLNNKAKELLKSIDFEEFDDEVDRSYMLETLKDP 354
Query: 354 SYLSTIKMQVLENLRSIQHA 373
++ +V + L + +
Sbjct: 355 WRGGEVRKEVKDTLEKAKAS 374
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 164 bits (417), Expect = 4e-47
Identities = 71/331 (21%), Positives = 113/331 (34%), Gaps = 34/331 (10%)
Query: 1 MRSKDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVEL 60
+YF G + P R +++ + P +
Sbjct: 30 QSLHHPRTYFSRGRM------RMPQEVPERA----ARLVAAAFAMGFPVREPDDFGIAPI 79
Query: 61 AQFHSADYVEFLHRITPDTQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRL 120
A H Y+ FL + + + + + L A D + +
Sbjct: 80 AAVHDTHYLRFLETVHREWKAMPEDWGDEAMSNIFVREPNALRGVLAQAARHLADGSCPV 139
Query: 121 NNQLCDIAINWAGGL----------------------HHAKKCEASGFCYINDLVLGILE 158
A A HHA+ A GFCY+N+ +
Sbjct: 140 GEHTWRAAYWSAQSALAAAAAVRDGAPAAYALCRPPGHHARVDAAGGFCYLNNAAIAAQA 199
Query: 159 LLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPG-TGDVKEIGEREGK 217
L HARV +D D+HHG G++E FY V+ VS H F+P G E G EG
Sbjct: 200 LRARHARVAVLDTDMHHGQGIQEIFYARRDVLYVSIHGDPTNFYPAVAGFDDERGAGEGL 259
Query: 218 FYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDG 277
Y +N+P+ G + +F + + + +AP A+VL G D D ++ DG
Sbjct: 260 GYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPDALVLSLGFDVYRDDPQSQVAVTTDG 318
Query: 278 HAECVRFVKKFNLPLLVTGGGGYTKENVARC 308
+ LP ++ GGY E++
Sbjct: 319 FGRLGHLIGALRLPTVIVQEGGYHIESLEAN 349
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 161 bits (409), Expect = 7e-46
Identities = 75/351 (21%), Positives = 129/351 (36%), Gaps = 30/351 (8%)
Query: 22 PNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQH 81
HP R H LV + + + A ++ + HSA ++E + R++
Sbjct: 37 LAHPDTKRRF---HELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSNLPTG 93
Query: 82 LFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAA-----RRLNNQLCDIAINWAGGLH 136
+ E ++ AGG ++ L+ +N G H
Sbjct: 94 GDT-------GDGITMMGNGGLEIARLSAGGAVELTRRVATGELSAGYA--LVNPPG--H 142
Query: 137 HAKKCEASGFCYINDLVLGILELLKYHA--RVLYIDIDVHHGDGVEEAFYFTDRVMTVSF 194
HA A GFC N+ + RV +D DVHHG+G ++ ++ V+T+S
Sbjct: 143 HAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWWNDPSVLTISL 202
Query: 195 HKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAI 254
H+ F P +G E G G Y INVPL G + ++ ++ + Y P I
Sbjct: 203 HQHL-CFPPDSGYSTERGAGNGHGYNINVPLPPGSGNAAYLHAMDQVVLPALRAYRPQLI 261
Query: 255 VLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF-----NLPLLVTGGGGYTKENVARCW 309
++ G D+ D L ++ DG + R + ++ GGY+ + C
Sbjct: 262 IVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAADICDGRIVFVQEGGYSPHYLPFCG 321
Query: 310 TVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIK 360
L + P +E++ L IE + L+ I+
Sbjct: 322 LAVIEELTGVRSLPD-PYHEFLAGMGGNTLLDAERAAIEEI--VPLLADIR 369
>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 = 152 bits (386), Expect = 9e-43
Identities = 62/314 (19%), Positives = 101/314 (32%), Gaps = 37/314 (11%)
Query: 24 HPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHL- 82
P R V + P + + + H A Y+ FL +
Sbjct: 26 PFEAPFRAEWILAAVKEAGFDDVVA---PARHGLETVLKVHDAGYLNFLETAWDRWKAAG 82
Query: 83 ----------------------FRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRL 120
++ Y + + +E ID A +
Sbjct: 83 YKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNAAETAISPGTWEAALSSMASAIDGADLI 142
Query: 121 ----NNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHA-RVLYIDIDVHH 175
G HHA G+C+IN+ + LL A ++ +D+D HH
Sbjct: 143 AAGHKAAFS--LCRPPG--HHAGIDMFGGYCFINNAAVAAQRLLDKGAKKIAILDVDFHH 198
Query: 176 GDGVEEAFYFTDRVMTVSFHKFGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDTSF 234
G+G ++ FY V S H FP G +E G+ G N P+ G + +
Sbjct: 199 GNGTQDIFYERGDVFFASLHGDPAEAFPHFLGYAEETGKGAGAGTTANYPMGRGTPYSVW 258
Query: 235 TRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLV 294
+ K + + AIV+ G D+ D + F L+ + R + +PLLV
Sbjct: 259 GEALTDSL-KRIAAFGAEAIVVSLGVDTFEQDPISFFKLTSPDYITMGRTIAASGVPLLV 317
Query: 295 TGGGGYTKENVARC 308
GGY +
Sbjct: 318 VMEGGYGVPEIGLN 331
>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 = 147 bits (374), Expect = 2e-40
Identities = 72/317 (22%), Positives = 121/317 (38%), Gaps = 34/317 (10%)
Query: 22 PNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQH 81
HP R+ + L + E R KA EL HS +V
Sbjct: 57 SRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRLK 116
Query: 82 LFRQELTKY--------------NLGEDCPVFENL-FEFCQIYAGGTIDAA-----RRLN 121
L +L + D E + AG D A R L
Sbjct: 117 LDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELK 176
Query: 122 NQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYHA--RVLYIDIDVHHGDGV 179
N + G HHA A GFC+ N + + +L + ++L +D DVHHG+G
Sbjct: 177 NGFA--VVRPPG--HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVHHGNGT 232
Query: 180 EEAFYFTDRVMTVSFHKFGD-LFFPGTGDVKEIGEREGKFYAINVPLKDGID----DTSF 234
++ FY V+ +S H+ D FFPG+G V E+G G+ + +NV G+D D +
Sbjct: 233 QQTFYQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSGEGFNVNVAWAGGLDPPMGDPEY 292
Query: 235 TRLFKTIISKVVETYAPGAIVLQCGADSLAGDR--LGCFNLSIDGHAECVRFVKKF-NLP 291
F+ ++ + ++P +++ G D+ G LG +++S + +
Sbjct: 293 LAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAGGA 352
Query: 292 LLVTGGGGYTKENVARC 308
+++ GG+ +
Sbjct: 353 VVLALEGGHDLTAICDA 369
>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 = 44.3 bits (104), Expect = 8e-05
Identities = 41/230 (17%), Positives = 72/230 (31%), Gaps = 90/230 (39%)
Query: 17 SVYFGPNH-----PMKPHRLCMTHHLVLSYDLHK-----KMEIYR-PH---KAY------ 56
S+ G + P P L + L L+ L K ++ R P K
Sbjct: 369 SLVNGAKNLVVSGP--PQSL---YGLNLT--LRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
Query: 57 PVELAQFHSADYVEFLHRITPDTQHLFRQELTKYNL---GED--CPVF-----ENLFEFC 106
PV + FHS + L ++L K N+ +D PV+ +L
Sbjct: 422 PV-ASPFHS-HLLV-------PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL---- 468
Query: 107 QIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDL----VLGILELLKY 162
++ +G + R+ + + + + W + +A+ +I D G+ L
Sbjct: 469 RVLSG---SISERIVDCIIRLPVKWET----TTQFKAT---HILDFGPGGASGLGVLTHR 518
Query: 163 HARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDVKEIG 212
+ G GV RV+ G L + G
Sbjct: 519 NKD----------GTGV--------RVIVA-----GTL---DINPDDDYG 542
Score = 31.9 bits (72), Expect = 0.45
Identities = 42/285 (14%), Positives = 79/285 (27%), Gaps = 104/285 (36%)
Query: 157 LELLKYHARVL-YIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDV-----KE 210
EL+ + L Y+ V + D+V+ + +F + + G D+ K
Sbjct: 58 AELV---GKFLGYVSSLVEPSKVGQ-----FDQVLNLCLTEFENCYLEGN-DIHALAAKL 108
Query: 211 IGEREGK----------FYAINVPLKDGIDDTSFTRLFKTIISKVV-------------- 246
+ E + + + K D S + LF+ +
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 247 ---------ETYAP--GAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVT 295
+TY G ++ + + L L F + N+
Sbjct: 169 YFEELRDLYQTYHVLVGDLI------KFSAETL--SELIRTTLDAEKVFTQGLNI----- 215
Query: 296 GGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIP-NGHIENLNSKS 354
W L+ P+ P+ +Y+ P S P G I+ +
Sbjct: 216 -----------LEW-------LEN--PSNTPDKDYLLS-IP-ISC--PLIGVIQLAH--- 248
Query: 355 YLSTIKMQVL--ENLRSIQHAPSVQMQEVP-----------PDFY 386
Y+ T K+ LRS + Q + F+
Sbjct: 249 YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
>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 = 31.1 bits (69), Expect = 0.36
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 6/21 (28%)
Query: 45 KKME----IYRPHKAYPVELA 61
KK++ +Y A P LA
Sbjct: 23 KKLQASLKLYADDSA-PA-LA 41
Score = 31.1 bits (69), Expect = 0.41
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 15/41 (36%)
Query: 239 KTIISKV---VETYAPGAIVLQCGADSLAGDRLGCFNLSID 276
K + K+ ++ YA + A +LA +++
Sbjct: 19 KQALKKLQASLKLYADDS------APALA------IKATME 47
Score = 29.1 bits (64), Expect = 1.5
Identities = 5/30 (16%), Positives = 12/30 (40%), Gaps = 6/30 (20%)
Query: 323 NEIP--ENEYIKYFAPEC--SLRIPNGHIE 348
+ + +K +A + +L I +E
Sbjct: 20 QALKKLQAS-LKLYADDSAPALAI-KATME 47
>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 = 31.4 bits (70), Expect = 0.77
Identities = 62/474 (13%), Positives = 120/474 (25%), Gaps = 161/474 (33%)
Query: 22 PNHPMKPHRLCMTHHLVLSYDLH--KKMEIYRPHKAYPVE--LAQFHSADYVEFLHRITP 77
P R+ + L D K + R + L + A V +
Sbjct: 102 QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV-LID---- 156
Query: 78 DTQHLFRQELTKYNLG-----------EDC--PVFENLFEFCQIY---AGGTIDAARRLN 121
G + C + +F +I+ L
Sbjct: 157 ---------------GVLGSGKTWVALDVCLSYKVQCKMDF-KIFWLNLKNCNSPETVLE 200
Query: 122 NQ--LC-DIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKY--HARVLYI-DIDVHH 175
L I NW H+ + I+ + + LLK + L + +V +
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLR----IHSIQAELRRLLKSKPYENCLLVLL-NVQN 255
Query: 176 GDGVEEAFYFTDRV-MTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDTSF 234
AF + ++ +T T K++ + ++ L +
Sbjct: 256 AKAWN-AFNLSCKILLT-------------TRF-KQVTDFLSAATTTHISLDHHSM--TL 298
Query: 235 T-RLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLL 293
T K+++ K ++ C L R V N P
Sbjct: 299 TPDEVKSLLLKYLD----------CRPQDLP------------------REVLTTN-PRR 329
Query: 294 VTGGGGYTKENVAR--------CWTVETGIL--LDTELPNE----------------IPE 327
++ ++ +A C + T I L+ P E IP
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389
Query: 328 -------------------NEYIKYF-----APECSLRIPNGHIENLNSKSYLSTIKMQV 363
N+ KY E ++ IP+ ++E + +
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI 449
Query: 364 LENLRSIQHAPSVQMQEVPPDFYIPEFDEDEQNPDERMDQH-TQDKQIQRDDEF 416
+++ + S + D Y + H + +R F
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSH----------IGHHLKNIEHPERMTLF 493
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.1
Identities = 6/41 (14%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 387 IPEFDEDEQNPDERMDQHTQDKQIQRDDEFYEGDNDNDHMD 427
+ E D + M+Q ++K + +E+ + ++ ++
Sbjct: 98 LQELDAAS----KVMEQEWREKAKKDLEEWNQ--RQSEQVE 132
>3h74_A Pyridoxal kinase; PSI-II, structural genomics, prote structure
initiative, NEW YORK SGX research center for STRU
genomics, nysgxrc; 1.30A {Lactobacillus plantarum} PDB:
3hyo_A* 3ibq_A*
Length = 282
Score = 29.1 bits (66), Expect = 2.8
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 2/53 (3%)
Query: 156 ILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRVMTVSFHKFGDLFFPGTGDV 208
+ LK A + I DV D + A+ + + + GTGD
Sbjct: 166 LQAQLKTGAHAV-I-TDVQRADQIGCAWLDEAGHVQYCGARRLPGHYNGTGDT 216
>2bvf_A 6-hydroxy-D-nicotine oxidase; autoflavinylation, enantiomeric
substrates, flavoenzymes, NI degradation; HET: FAD;
1.92A {Arthrobacter nicotinovorans} PDB: 2bvg_A* 2bvh_A*
Length = 459
Score = 28.9 bits (65), Expect = 3.4
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 12/51 (23%)
Query: 279 AECVRFVKKFNLPLLVTGGG----GYTKENVARCWTVETGILLDTELPNEI 325
A+ VR+ L + V GG GY T + GI+LD L N I
Sbjct: 52 AKSVRYACDNGLEISVRSGGHNPNGYA--------TNDGGIVLDLRLMNSI 94
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 28.7 bits (65), Expect = 4.5
Identities = 5/28 (17%), Positives = 9/28 (32%), Gaps = 2/28 (7%)
Query: 292 LLVTGGGGYTKENVARCWTVETGILLDT 319
+ G G +E + +TG
Sbjct: 117 RIAAVGEG--RERFGHVFLFDTGTSNGN 142
>2c5a_A GDP-mannose-3', 5'-epimerase; short chain dehydratase/reductase,
GDP-gulose, GDP-galactose, keto intermediate, vitamin C,
SDR; HET: GDC NAD BTB; 1.4A {Arabidopsis thaliana} SCOP:
c.2.1.2 PDB: 2c59_A* 2c54_A* 2c5e_A*
Length = 379
Score = 28.1 bits (63), Expect = 6.6
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 146 FCYINDLVLGILELLKY 162
F +I++ V G+L L K
Sbjct: 247 FTFIDECVEGVLRLTKS 263
>3t6c_A RSPA, putative MAND family dehydratase; enolase, mannonate
dehydratase related protein, enzyme funct intitiative,
lyase, hydro-lyases; HET: GCO; 1.60A {Pantoea ananatis}
PDB: 3tw9_A 3twa_A 3twb_A*
Length = 440
Score = 27.7 bits (62), Expect = 8.3
Identities = 24/99 (24%), Positives = 35/99 (35%), Gaps = 23/99 (23%)
Query: 69 VEFLHRITPDTQHLFRQELTKYNLG--EDCPVF-ENLFEFCQIYAGGTI----------- 114
+ RITP + L Y L ED PV EN + +
Sbjct: 245 HDAHERITPINAIHMAKALEPYQLFFLED-PVAPENTEWLKMLRQQSSTPIAMGELFVNV 303
Query: 115 -DAARRLNNQLCDIA---INWAGGLHHAKK----CEASG 145
+ ++N+L D I+ GG+ AKK E +G
Sbjct: 304 NEWKPLIDNKLIDYIRCHISSIGGITPAKKIAIYSELNG 342
>2b69_A UDP-glucuronate decarboxylase 1; UDP-glucoronic acid decarboxylase,
structural genomics, STRU genomics consortium, SGC,
lyase; HET: MSE NAD UDP; 1.21A {Homo sapiens} SCOP:
c.2.1.2 PDB: 4ef7_A*
Length = 343
Score = 27.4 bits (61), Expect = 9.4
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 146 FCYINDLVLGILELL 160
F Y++DLV G++ L+
Sbjct: 238 FQYVSDLVNGLVALM 252
>2bll_A Protein YFBG; decarboxylase, short chain dehydrogenase, L-ARA4N
biosynthes methyltransferase, transferase; 2.3A
{Escherichia coli} SCOP: c.2.1.2 PDB: 1u9j_A 1z73_A
1z75_A 1z7b_A 1z74_A
Length = 345
Score = 27.4 bits (61), Expect = 10.0
Identities = 3/15 (20%), Positives = 7/15 (46%)
Query: 146 FCYINDLVLGILELL 160
F I D + + ++
Sbjct: 222 FTDIRDGIEALYRII 236
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 0.141 0.437
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,049,464
Number of extensions: 443111
Number of successful extensions: 994
Number of sequences better than 10.0: 1
Number of HSP's gapped: 970
Number of HSP's successfully gapped: 36
Length of query: 429
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 333
Effective length of database: 4,021,377
Effective search space: 1339118541
Effective search space used: 1339118541
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: 59 (26.5 bits)