RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16996
(268 letters)
>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 = 46.4 bits (109), Expect = 5e-06
Identities = 50/339 (14%), Positives = 97/339 (28%), Gaps = 113/339 (33%)
Query: 2 YVWMFQRFTVVMEYEQKPALPPPFIILSHILL------FIKY----------LRRKCEGV 45
Y ++ E Q P++ I L F KY LR+ +
Sbjct: 91 YKFLMSPIKT--EQRQ-PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 46 RETYDNGLKLFLD------KEDL--ERLYDFEEECVE---------GYFREKETKLAM-- 86
R + +D K + + ++ +C ET L M
Sbjct: 148 R----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 87 -----------STDERIRNTTERVENINQKVEDINQKENSQNS--------SIQVMSSLA 127
S + N R+ +I ++ + + + +N + + ++
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263
Query: 128 FLRTTLVAFWNSGITD----------ELETVCGLLSPPRSPRLLSPPV---PGEIPPPSA 174
L+ +TD L+ L+P LL + P ++P
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR-EV 322
Query: 175 ISGGPTARNFRRCRHASEMSNPEMAVYLEKEHLRDAEESDYHLMEEIIHTRFNN-KEAGS 233
++ P + + E +RD ++N K
Sbjct: 323 LTTNP------------------RRLSIIAESIRDG------------LATWDNWKH--V 350
Query: 234 DADKFDNNAFFLTVNEETASEIRANFKKNSLF----NIP 268
+ DK ++N +E R F + S+F +IP
Sbjct: 351 NCDKL-TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
Score = 42.9 bits (100), Expect = 8e-05
Identities = 39/263 (14%), Positives = 71/263 (26%), Gaps = 72/263 (27%)
Query: 48 TYDNGLKLFL-----DKEDLERLYDFEEECVEGYFREKETKLAMST-DERIRNTTERVEN 101
T D L L +DL R E +S E IR+ +N
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPR-----EVL-------TTNPRRLSIIAESIRDGLATWDN 346
Query: 102 INQKVEDINQKENSQNSSIQVMS---------SLAFLR-------TTLVAFWNSGITDEL 145
+ ++ SS+ V+ L+ L W I ++
Sbjct: 347 WKH--VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 146 ETVCGLL---------SPPRSPRL------LSPPVPGEIPPPSAISGGPTARNFRRCRHA 190
V L + + L + E +I N + +
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV---DHYNIPKTFDS 461
Query: 191 SEMSNPEMAVYLEKE---HLRDAEES-----------DYHLMEE-IIHTRFNNKEAGSDA 235
++ P + Y HL++ E D+ +E+ I H +GS
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSIL 521
Query: 236 DKFDNNAF---FLTVNEETASEI 255
+ F ++ N+ +
Sbjct: 522 NTLQQLKFYKPYICDNDPKYERL 544
Score = 32.5 bits (73), Expect = 0.18
Identities = 33/231 (14%), Positives = 73/231 (31%), Gaps = 69/231 (29%)
Query: 3 VWMFQRFTVVM----EYEQKPAL---PPPFIILSHILLFIKYLRRKCEGVRETYDNGLKL 55
+W + VM + + + P I + L+ K E + +
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE--LKVKLENEYALH----RS 448
Query: 56 FLDKEDLERLYDFEE---ECVEGYFREKETKLA--MSTDERIRNTTERVENINQKVED-- 108
+D ++ + +D ++ ++ YF + + E ER+ D
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSH---IGHHLKNIEH----PERMTLFRMVFLDFR 501
Query: 109 -INQK----ENSQNSSIQVMSSLAFLRTTLVAFWNSGITDELETVCGLLSPPRSPRLLSP 163
+ QK + N+S ++++L L+ F+ I D + P+ RL++
Sbjct: 502 FLEQKIRHDSTAWNASGSILNTLQQLK-----FYKPYICD---------NDPKYERLVNA 547
Query: 164 -----PVPGEIPPPSAISGGPTARNFRRCRHAS----EMSNPEMAVYLEKE 205
P E N ++ + + A++ E
Sbjct: 548 ILDFLPKIEE--------------NLICSKYTDLLRIALMAEDEAIFEEAH 584
Score = 27.1 bits (59), Expect = 8.8
Identities = 9/98 (9%), Positives = 26/98 (26%), Gaps = 21/98 (21%)
Query: 185 RRCRHASEMSNPEMAVYL------------EKEHLRDAEESDYHLMEEIIHTRFNNKEAG 232
H + ++ + + +Y + I T
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM 108
Query: 233 SDA-----DK-FDNNAFF--LTVN-EETASEIRANFKK 261
+ D+ +++N F V+ + ++R +
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146
>3e7k_A TRPM7 channel; coiled-coil, antiparallel, ION channel, assembly
domain, Trp channel, membrane protein; 2.01A {Rattus
norvegicus}
Length = 56
Score = 39.6 bits (92), Expect = 4e-05
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 90 ERIRNTTERVENINQKVEDINQKENSQNSSIQVMSS 125
R T ERVE ++ +++++ + N S+Q + S
Sbjct: 2 AGSRVTFERVEQMSIQIKEVGDRVNYIKRSLQSLDS 37
>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 = 41.6 bits (97), Expect = 2e-04
Identities = 42/277 (15%), Positives = 84/277 (30%), Gaps = 108/277 (38%)
Query: 38 LRRKCEGVRETYDNGLKLFLDKEDLERLYDFE-EECVEG-------YF--------REKE 81
L + + ++ ++ F D Y F + V +F RE
Sbjct: 1635 LYKTSKAAQDVWNRADNHFKDT------YGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 82 TKLAMSTDERIRNTTERV-ENINQKV---------EDINQKENSQNSSIQVMSSLAF--L 129
+ + T + TE++ + IN+ ++ + +Q ++ +M AF L
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ-PALTLMEKAAFEDL 1747
Query: 130 RTTLVAFWNSGITDELETVCGLLSPPRSPRLLSPPVPGEIPPPSA---ISG--------- 177
+ + G+ T G S L GE +A ++
Sbjct: 1748 K-------SKGLIPADATFAG-HS------L------GEY---AALASLADVMSIESLVE 1784
Query: 178 -----GPTARNFRRCRHASEMSNPEM-AVYLEKEHLRDAEESDYHLMEEIIHTRFNNKEA 231
G T + R SN M A+ + ++E+ +++E + K
Sbjct: 1785 VVFYRGMTMQVAVP-RDELGRSNYGMIAINPGRVAASFSQEALQYVVERV------GKRT 1837
Query: 232 GSDADKFDNNAFFLTVNEETASEIRANFKKNSLFNIP 268
G + + EI N +N+
Sbjct: 1838 G----------WLV--------EI-VN------YNVE 1849
Score = 33.9 bits (77), Expect = 0.066
Identities = 34/195 (17%), Positives = 58/195 (29%), Gaps = 51/195 (26%)
Query: 44 GVRETYDNGLKLFLDKEDLERLYDFEEECVEGYFREKETKLAMSTDERIRNTTERVENIN 103
G + Y F E+L LY V + L + TT E +
Sbjct: 164 GNTDDY------F---EELRDLYQTYHVLVGDLIKFSAETL-----SELIRTTLDAEKVF 209
Query: 104 QKVEDINQ-KENSQNSSIQVMSSLAFLRTTLVAFWNSGITD--ELETVCGLLSPPRSPRL 160
+ +I + EN N+ +L + ++ G+ LL +P
Sbjct: 210 TQGLNILEWLENPSNT-----PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG--FTPGE 262
Query: 161 LSPPVPG------EIPPPSAISGGPTARNFR---------------RCRHASEMSNPEMA 199
L + G + AI+ + +F RC A P +
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY----PNTS 318
Query: 200 VYLEKEHLRDAEESD 214
L L D+ E++
Sbjct: 319 --LPPSILEDSLENN 331
>1evs_A Oncostatin M; 4-helix bundle, GP130 binding cytokine; 2.20A {Homo
sapiens} SCOP: a.26.1.1
Length = 187
Score = 27.1 bits (59), Expect = 5.2
Identities = 20/125 (16%), Positives = 40/125 (32%), Gaps = 3/125 (2%)
Query: 67 DFEEECVE--GYFREKETKLAMSTDERIRNTTERVENINQKVEDINQKENSQNSSIQVMS 124
E C E G F +ET + ++ + + ++ D+ Q+ +
Sbjct: 44 KLREHCRERPGAFPSEETLRGLGRRGFLQTLNATLGCVLHRLADLEQRLPKAQDLERSGL 103
Query: 125 SLAFLRTTLVAFWN-SGITDELETVCGLLSPPRSPRLLSPPVPGEIPPPSAISGGPTARN 183
++ L +A N G+ + + + LL + PP + R
Sbjct: 104 NIEDLEKLQMARPNILGLRNNIYCMAQLLDNSDTAEPTKAGRGASQPPTPTPASDAFQRK 163
Query: 184 FRRCR 188
CR
Sbjct: 164 LEGCR 168
>2pgf_A Adenosine deaminase; metallo-dependent hydrolase, structural
genomics, medical ST genomics of pathogenic protozoa
consortium, MSGPP; HET: MSE ADN; 1.89A {Plasmodium
vivax} PDB: 2pgr_A* 2qvn_A* 3ewc_A* 3ewd_A* 2amx_A
Length = 371
Score = 26.8 bits (60), Expect = 8.9
Identities = 6/29 (20%), Positives = 9/29 (31%), Gaps = 1/29 (3%)
Query: 47 ETYDNGLKLFLDKEDLERL-YDFEEECVE 74
E +F D E +E L +
Sbjct: 98 EKAIKVADIFHDYEVIEDLAKHAVFNKYK 126
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation,
ADP, nucleotide binding, CARD, apoptosis; HET: ADP;
2.21A {Homo sapiens}
Length = 591
Score = 26.7 bits (59), Expect = 9.5
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 58 DKEDLERLYDFEEECVEGYFRE 79
+ L L+D E E VE +E
Sbjct: 396 PTKVLCILWDMETEEVEDILQE 417
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
0.317 0.134 0.390
Gapped
Lambda K H
0.267 0.0571 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,142,978
Number of extensions: 247114
Number of successful extensions: 541
Number of sequences better than 10.0: 1
Number of HSP's gapped: 540
Number of HSP's successfully gapped: 30
Length of query: 268
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 176
Effective length of database: 4,133,061
Effective search space: 727418736
Effective search space used: 727418736
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.7 bits)