RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013038
(451 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 = 583 bits (1505), Expect = 0.0
Identities = 148/394 (37%), Positives = 226/394 (57%), Gaps = 25/394 (6%)
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 RLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPL 247
+ VMTVS HKF FFPGTGDV ++G +G++Y++NVP+
Sbjct: 194 K----------------------VMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPI 231
Query: 248 KDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFV 307
+DGI D + ++ ++++ +V + + P A+VLQ GAD++AGD + FN++ G +C++++
Sbjct: 232 QDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYI 291
Query: 308 KKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNG 367
++ L L+ GGGGY N ARCWT TG++L L +EIP++E+ + P+ L I
Sbjct: 292 LQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPS 351
Query: 368 HIENLNSKSYLSTIKMQVLENLRSIQHAPSVQMQ 401
+ N + I + NL+ +
Sbjct: 352 CRPDRNEPHRIQQILNYIKGNLKHVVIEGRSHHH 385
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 573 bits (1478), Expect = 0.0
Identities = 225/397 (56%), Positives = 289/397 (72%), Gaps = 23/397 (5%)
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 YFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAI 243
Y TDR VMTVSFHK+G+ FFPGTGD+ E+G G++Y +
Sbjct: 182 YLTDR----------------------VMTVSFHKYGNYFFPGTGDMYEVGAESGRYYCL 219
Query: 244 NVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAEC 303
NVPL+DGIDD S+ LF+ +I++VV+ Y P IVLQCGADSL DRLGCFNLSI GH EC
Sbjct: 220 NVPLRDGIDDQSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGEC 279
Query: 304 VRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLR 363
V +VK FN+PLLV GGGGYT NVARCWT ET +L++ + E+P +EY +YFAP+ +L
Sbjct: 280 VEYVKSFNIPLLVLGGGGYTVRNVARCWTYETSLLVEEAISEELPYSEYFEYFAPDFTLH 339
Query: 364 IP-NGHIENLNSKSYLSTIKMQVLENLRSIQHAPSVQ 399
+ IEN NS+ YL I+ + ENL+ + HAPSVQ
Sbjct: 340 PDVSTRIENQNSRQYLDQIRQTIFENLKMLNHAPSVQ 376
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 571 bits (1474), Expect = 0.0
Identities = 226/390 (57%), Positives = 295/390 (75%), Gaps = 23/390 (5%)
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 FYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYA 242
FY TDR VMTVSFHK+G+ +FPGTGD+++IG +GK+YA
Sbjct: 181 FYTTDR----------------------VMTVSFHKYGE-YFPGTGDLRDIGAGKGKYYA 217
Query: 243 INVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAE 302
+N P++DGIDD S+ ++FK IISKV+E Y P A+VLQCGADSL+GDRLGCFNL++ GHA+
Sbjct: 218 VNFPMRDGIDDESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAK 277
Query: 303 CVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSL 362
CV VK FNLPLL+ GGGGYT NVARCWT ET + LD E+PNE+P N+Y +YF P+ L
Sbjct: 278 CVEVVKTFNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNELPYNDYFEYFGPDFKL 337
Query: 363 RIPNGHIENLNSKSYLSTIKMQVLENLRSI 392
I ++ N N+ Y+ IK ++ ENLR +
Sbjct: 338 HISPSNMTNQNTPEYMEKIKQRLFENLRML 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 = 523 bits (1350), Expect = 0.0
Identities = 117/402 (29%), Positives = 180/402 (44%), Gaps = 35/402 (8%)
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 VEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFP-GTGDVKEIGERE 237
V+EAFY TD+ V +S H+ + FP G ++EIGE +
Sbjct: 175 VQEAFYDTDQ----------------------VFVLSLHQSPEYAFPFEKGFLEEIGEGK 212
Query: 238 GKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSI 297
GK Y +N+PL G++D F + + V E + P +LQ G D L D L FNLS
Sbjct: 213 GKGYNLNIPLPKGLNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSN 272
Query: 298 DGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFA 357
+ V++ + GGGGY +AR WT+ L E+P ++ +
Sbjct: 273 VAFLKAFNIVREVFGEGVYLGGGGYHPYALARAWTLIWCELSGREVPEKLNNKAKELLKS 332
Query: 358 PECSLRI----PNGHIENLNSKSYLSTIKMQVLENLRSIQHA 395
+ + +E L ++ +V + L + +
Sbjct: 333 IDFEEFDDEVDRSYMLETLKDPWRGGEVRKEVKDTLEKAKAS 374
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 153 bits (389), Expect = 9e-43
Identities = 73/353 (20%), Positives = 115/353 (32%), Gaps = 56/353 (15%)
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 LLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHK 218
L HARV +D D+HHG G++E FY R D V+ VS H
Sbjct: 200 LRARHARVAVLDTDMHHGQGIQEIFY--AR------------------RD--VLYVSIHG 237
Query: 219 FGDLFFPG-TGDVKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIV 277
F+P G E G EG Y +N+P+ G + +F + + + +AP A+V
Sbjct: 238 DPTNFYPAVAGFDDERGAGEGLGYNVNLPMPHGSSEAAFFERVDDAL-RELRRFAPDALV 296
Query: 278 LQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARC 330
L G D D ++ DG + LP ++ GGY E++
Sbjct: 297 LSLGFDVYRDDPQSQVAVTTDGFGRLGHLIGALRLPTVIVQEGGYHIESLEAN 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 = 150 bits (380), Expect = 2e-41
Identities = 76/373 (20%), Positives = 130/373 (34%), Gaps = 52/373 (13%)
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--RVLYIDIDVHHGDGVEEAFYFTDRLLQTCR 194
HA A GFC N+ + RV +D DVHHG+G ++ ++
Sbjct: 143 HAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVHHGNGTQDIWW---------- 192
Query: 195 YNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDDT 254
D V+T+S H+ F P +G E G G Y INVPL G +
Sbjct: 193 ------------NDPSVLTISLHQHL-CFPPDSGYSTERGAGNGHGYNINVPLPPGSGNA 239
Query: 255 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF---- 310
++ ++ + Y P I++ G D+ D L ++ DG + R
Sbjct: 240 AYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADGFRQMARRTIDCAADI 299
Query: 311 -NLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHI 369
+ ++ GGY+ + C L + P +E++ L I
Sbjct: 300 CDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPD-PYHEFLAGMGGNTLLDAERAAI 358
Query: 370 ENLNSKSYLSTIK 382
E + L+ I+
Sbjct: 359 EEI--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 = 141 bits (356), Expect = 3e-38
Identities = 62/336 (18%), Positives = 101/336 (30%), Gaps = 59/336 (17%)
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 GDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPG-TGDVKEIG 234
G+G ++ FY V S H FP G +E G
Sbjct: 199 GNGTQDIFYERGD----------------------VFFASLHGDPAEAFPHFLGYAEETG 236
Query: 235 EREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFN 294
+ G N P+ G + + + K + + AIV+ G D+ D + F
Sbjct: 237 KGAGAGTTANYPMGRGTPYSVWGEALTDSL-KRIAAFGAEAIVVSLGVDTFEQDPISFFK 295
Query: 295 LSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARC 330
L+ + R + +PLLV GGY +
Sbjct: 296 LTSPDYITMGRTIAASGVPLLVVMEGGYGVPEIGLN 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 = 136 bits (344), Expect = 6e-36
Identities = 73/339 (21%), Positives = 122/339 (35%), Gaps = 56/339 (16%)
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 EEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGD-LFFPGTGDVKEIGEREG 238
++ F Y D V+ +S H+ D FFPG+G V E+G G
Sbjct: 233 QQTF----------------------YQDPSVLYISLHRHDDGNFFPGSGAVDEVGAGSG 270
Query: 239 KFYAINVPLKDGID----DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDR--LGC 292
+ + +NV G+D D + F+ ++ + ++P +++ G D+ G LG
Sbjct: 271 EGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGG 330
Query: 293 FNLSIDGHAECVRFVKKF-NLPLLVTGGGGYTKENVARC 330
+++S + + +++ GG+ +
Sbjct: 331 YHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDA 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 = 43.1 bits (101), Expect = 2e-04
Identities = 31/176 (17%), Positives = 56/176 (31%), Gaps = 57/176 (32%)
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 QIYAGGTIDAARRLNNQLCDIAINW----AGGLHHAKKCEASGFCYINDLVLGILE 158
++ +G + R+ + + + + W H G + L +
Sbjct: 469 RVLSG---SISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD 521
>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 = 40.6 bits (94), Expect = 0.001
Identities = 66/481 (13%), Positives = 128/481 (26%), Gaps = 153/481 (31%)
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 GDGVEEAFYFTDRLLQTCRY-NLTKYLILVTYPDVKVMTVS-----------FHKF---- 219
AF + ++L T R+ +T +L T + + S K+
Sbjct: 256 AKAWN-AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314
Query: 220 -GDLFFPG---TGD---VKEIGEREGKFYAINVPLKDGIDDTSFTRL-----FKTIISKV 267
DL P T + + I E ++DG+ + TII
Sbjct: 315 PQDL--PREVLTTNPRRLSIIAES----------IRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 268 VETYAPGAIVLQCGADSLAGDRLGCF-NLSIDGHAECVRFVKKFNLPLLVTGGGGYTKEN 326
+ P + F LS+ F ++P ++
Sbjct: 363 LNVLEPA-------------EYRKMFDRLSV--------FPPSAHIPTIL---------- 391
Query: 327 VARCWTVETGILLDTELPNEIPE---NEYIKYF-----APECSLRIPNGHIENLNSKSYL 378
++ W ++ N+ KY E ++ IP+ ++E
Sbjct: 392 LSLIWF---------DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 379 STIKMQVLENLRSIQHAPSVQMQEVPPDFYIPEFDEDEQNPDERMDQH-TQDKQIQRDDE 437
+ ++++ + S + D Y + H + +R
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH----------IGHHLKNIEHPERMTL 492
Query: 438 F 438
F
Sbjct: 493 F 493
>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 = 0.41
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 = 30.7 bits (68), Expect = 0.47
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 15/41 (36%)
Query: 261 KTIISKV---VETYAPGAIVLQCGADSLAGDRLGCFNLSID 298
K + K+ ++ YA + A +LA +++
Sbjct: 19 KQALKKLQASLKLYADDS------APALA------IKATME 47
Score = 29.1 bits (64), Expect = 1.8
Identities = 5/30 (16%), Positives = 12/30 (40%), Gaps = 6/30 (20%)
Query: 345 NEIP--ENEYIKYFAPEC--SLRIPNGHIE 370
+ + +K +A + +L I +E
Sbjct: 20 QALKKLQAS-LKLYADDSAPALAI-KATME 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 1.8
Identities = 9/68 (13%), Positives = 22/68 (32%), Gaps = 24/68 (35%)
Query: 395 APSVQMQEVPPDFYIPE--------FDE-----DEQNPDERMDQHTQDKQIQRDDEFYEG 441
QE PE + D + M+Q ++K + +E+ +
Sbjct: 76 QADRLTQE-------PESIRKWREEQRKRLQELDAA--SKVMEQEWREKAKKDLEEWNQ- 125
Query: 442 DNDNDHMD 449
++ ++
Sbjct: 126 -RQSEQVE 132
>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 = 3.3
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 12/51 (23%)
Query: 301 AECVRFVKKFNLPLLVTGGG----GYTKENVARCWTVETGILLDTELPNEI 347
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 = 4.4
Identities = 5/28 (17%), Positives = 9/28 (32%), Gaps = 2/28 (7%)
Query: 314 LLVTGGGGYTKENVARCWTVETGILLDT 341
+ 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 = 6.7
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 = 28.1 bits (63), Expect = 7.5
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
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: 7,386,215
Number of extensions: 461186
Number of successful extensions: 997
Number of sequences better than 10.0: 1
Number of HSP's gapped: 966
Number of HSP's successfully gapped: 32
Length of query: 451
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 354
Effective length of database: 3,993,456
Effective search space: 1413683424
Effective search space used: 1413683424
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)