RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= 537021.9.peg.1142_1 (218 letters) >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 34.9 bits (80), Expect = 0.016 Identities = 46/250 (18%), Positives = 80/250 (32%), Gaps = 102/250 (40%) Query: 11 STIQDKRWITGKDG------SVNNLARLMGQFLVMPISWSRMHL-----IEI-------- 51 S ++D + +G S++NL + + + ++ + HL +EI Sbjct: 322 SILEDS--LENNEGVPSPMLSISNLTQ---EQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376 Query: 52 ------PSSLVGVSSQVYRAKALVIGILGEELIRKTLVPLISGKEPQLDFSDPTEYIKAL 105 P SL G++ + +AKA G + R +P FS+ + L Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPS----GLDQSR---IP----------FSE-----RKL 414 Query: 106 INGITHYERF----SPFNSS--------------GWDVLGPWSSQAGKLAIAGKEAVWDE 147 ++ RF SPF+S +V ++ A + I V+D Sbjct: 415 K--FSN--RFLPVASPFHSHLLVPASDLINKDLVKNNV--SFN--AKDIQI----PVYD- 461 Query: 148 GTRKQRGKAQAQFGKELVN------TFVPFQNLWYARGAFN--HFVRNSIDDVLNPGGRA 199 T G + +P + W F H + PGG + Sbjct: 462 -TFD--GSDLRVLSGSISERIVDCIIRLPVK--WETTTQFKATHIL------DFGPGGAS 510 Query: 200 RAEVYRQRQK 209 V R K Sbjct: 511 GLGVLTHRNK 520 >1jsd_A Haemagglutinin (HA1 chain); viral protein; HET: NAG; 1.80A {Influenza a virus} SCOP: b.19.1.2 PDB: 1jsh_A* 1jsi_A* Length = 319 Score = 28.9 bits (65), Expect = 0.93 Identities = 7/32 (21%), Positives = 17/32 (53%), Gaps = 1/32 (3%) Query: 94 DFSDPTEYIKALINGITHYERFSPFNSSGWDV 125 + + E +++L + + Y+R F + W+V Sbjct: 94 NVENLEE-LRSLFSSASSYQRIQIFPDTIWNV 124 >2wr1_A Hemagglutinin; glycoprotein, lipoprotein, envelope protein, viral protein; HET: SIA GAL NAG BMA MAN; 2.10A {Unidentified influenza virus} PDB: 2wr0_A* 2wr2_A* 2wr3_A* 2wr4_A* 2wr5_A 2wrf_A* 2wr7_A* 2wrb_A* 2wrc_A 2wrd_A 2wre_A* Length = 509 Score = 28.9 bits (65), Expect = 0.96 Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%) Query: 94 DFSDPTEYIKALINGITHYERFSPFNSSGW 123 F+D E +K LI +TH+E+ W Sbjct: 109 SFNDYEE-LKHLITSVTHFEKVKILPRDQW 137 >2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 1688 Score = 28.6 bits (63), Expect = 1.2 Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 17/72 (23%) Query: 92 QLDFSD--PTEYIK----ALINGITHYERFSPFNSSGWDVLGPWSSQA--------GKLA 137 QLDF + P + +K A + G+ ER +G+ +GPW S G+ + Sbjct: 790 QLDFPELKPYKQVKQIAPAELEGLLDLERV--IVVTGFAEVGPWGSARTRWEMEAFGEFS 847 Query: 138 IAG-KEAVWDEG 148 + G E W G Sbjct: 848 LEGCVEMAWIMG 859 >3ku3_A Hemagglutinin HA1 chain; viral envelope protein, viral fusion protein, envelope protein; HET: NAG; 1.60A {Influenza a virus} PDB: 3ku6_A* 3ku5_A* 1jsm_A* 1jsn_A* 1jso_A* Length = 327 Score = 27.8 bits (62), Expect = 2.1 Identities = 8/30 (26%), Positives = 15/30 (50%), Gaps = 1/30 (3%) Query: 94 DFSDPTEYIKALINGITHYERFSPFNSSGW 123 F+D E +K L++ + H+E+ W Sbjct: 96 SFNDYEE-LKHLLSSVKHFEKVKILPKDRW 124 >2ibx_A Hemagglutinin, fragment; haemagglutinin, H5N1, viral protein; HET: NAG; 2.80A {Influenza a virus} SCOP: b.19.1.2 Length = 340 Score = 26.6 bits (59), Expect = 4.6 Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 1/30 (3%) Query: 94 DFSDPTEYIKALINGITHYERFSPFNSSGW 123 DF+D E +K L++ I H+E+ S W Sbjct: 110 DFNDYEE-LKHLLSRINHFEKIQIIPKSSW 138 >3m1i_C Exportin-1; heat repeat, GTP-binding, nucleotide-binding, NUCL protein transport, transport, cytoplasm, GTPase activation; HET: GTP; 2.00A {Saccharomyces cerevisiae} Length = 1049 Score = 26.5 bits (57), Expect = 4.7 Identities = 13/70 (18%), Positives = 25/70 (35%), Gaps = 1/70 (1%) Query: 46 MHLIEIPSSLVGVSSQVYRAKALVIGILGEELIRKTLVPLISGKEPQLDFSDPTEYIKAL 105 M LI + +S +Y+ + G + + + L ++S P L ++ AL Sbjct: 925 MKLISL-VYDNKISVPLYQEAEVPQGTSNQVYLSQYLANMLSNAFPHLTSEQIASFLSAL 983 Query: 106 INGITHYERF 115 F Sbjct: 984 TKQYKDLVVF 993 >3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase, structural genomics, PSI- nostoc, protein structure initiative; 2.70A {Nostoc SP} Length = 465 Score = 25.9 bits (56), Expect = 6.5 Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 3/46 (6%) Query: 64 RAKALVIGILGE-ELIRKTLV--PLISGKEPQLDFSDPTEYIKALI 106 + I+G E + L SG++ ++ +D E IK + Sbjct: 419 KQGIRFCVIIGADEAAAQKSSLKDLQSGEQVEVALADLAEEIKRRL 464 >1ra6_A P3D, genome polyprotein; nucleotidyltransferase, RNA-dependent, polymerase, N-terminus; 2.00A {Human poliovirus 1 mahoney} SCOP: e.8.1.4 PDB: 1ra7_A* 2ily_A* 2ilz_A* 2im0_A* 2im1_A* 2im2_A* 2im3_A* 2ijf_A 1tql_A 1rdr_A 1raj_A 3ddk_A 3cdu_A 3cdw_A Length = 461 Score = 26.1 bits (57), Expect = 7.4 Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 11/106 (10%) Query: 66 KALVIGILGEELIRKTLVPLISGKEPQLDFSDPTEYIKALINGITHYERFSPFNSSGWDV 125 I + E + K V +G+ LD + ++ + G E S+G+ Sbjct: 63 VGNKITEVDEYM--KEAVDHYAGQLMSLDINTEQMXLEDAMYGTDGLEALDLSTSAGY-- 118 Query: 126 LGPWSSQAGKLAIAGKEAVWDEGTRKQRGKAQAQFGKELVNTFVPF 171 P+ + K K + ++ TR + + + V + Sbjct: 119 --PYVAMGKK-----KRDILNKQTRDTKEMQKLLDTYGINLPLVTY 157 >2rft_A Influenza B hemagglutinin (HA); viral protein, receptor specificity, envelope protein, fusion protein, membrane, transmembrane, virion; HET: NAG SIA BGC GAL NDG; 2.80A {Influenza b virus} PDB: 2rfu_A* 3bt6_A* Length = 344 Score = 25.6 bits (56), Expect = 9.3 Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 1/30 (3%) Query: 94 DFSDPTEYIKALINGITHYERFSPFNSSGW 123 D T+ + L N + YE + Sbjct: 97 IMHDRTKI-RQLPNLLRGYENIRLSARNVT 125 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.318 0.135 0.408 Gapped Lambda K H 0.267 0.0499 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,950,220 Number of extensions: 88513 Number of successful extensions: 203 Number of sequences better than 10.0: 1 Number of HSP's gapped: 201 Number of HSP's successfully gapped: 14 Length of query: 218 Length of database: 5,693,230 Length adjustment: 89 Effective length of query: 129 Effective length of database: 3,535,514 Effective search space: 456081306 Effective search space used: 456081306 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 (21.7 bits) S2: 55 (25.5 bits)