RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= 537021.9.peg.1079_1 (251 letters) >2wbn_A G2P, terminase large subunit; large terminase, nuclease, viral protein, DNA packaging; 1.90A {Bacillus phage SPP1} PDB: 2wc9_A Length = 212 Score = 58.6 bits (141), Expect = 1e-09 Identities = 20/139 (14%), Positives = 43/139 (30%), Gaps = 12/139 (8%) Query: 109 LGSGRIF--PIVEEDIVINSLDIPEHWVQIGGMDFGW-HHPFAAGHLVWNRDSDVIYVVK 165 LGSG + + E+ +I ++ G+DFG+ P A +++ + IY + Sbjct: 23 LGSGVVPFENLQIEEGIITDAEVARFDNIRQGLDFGYGPDPLAFVRWHYDKRKNRIYAID 82 Query: 166 NYRCREQTPIFHVAALKSWGKWLPWAWPHDGLQHDKRSGEQLSAQYRRQGMKMLPECATF 225 + + ++ + A G+ + Sbjct: 83 ELVDHKVSLKRTADFVRKNKYESARIIADSS------EPRSIDALKLEHGINRIEGA--- 133 Query: 226 DDGSNGVEAGISDMLDRMR 244 G + VE G + + Sbjct: 134 KKGPDSVEHGERWLDELDA 152 >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 = 42.6 bits (100), Expect = 8e-05 Identities = 62/358 (17%), Positives = 100/358 (27%), Gaps = 153/358 (42%) Query: 2 KAYEQGRD--KWQSNTVHYVWFDEEPPED------VYFE--GLTRINATQGLVT---LTL 48 K + QG + +W N P +D + G+ ++ +VT L Sbjct: 207 KVFTQGLNILEWLENP------SNTPDKDYLLSIPISCPLIGVIQL--AHYVVTAKLLGF 258 Query: 49 TPLKGRSPIIEHYLSASSSDRQ--VIRMTINET---PHYNEQERK----------RIIDS 93 TP + RS YL ++ Q V + I ET + RK R ++ Sbjct: 259 TPGELRS-----YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313 Query: 94 YP--------LHEREARTKGEP-----ILGSGRIFPIVEEDI-VINSLDIPE--HWVQIG 137 YP L + +G P I + V++ + NS +P V+I Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQ--EQVQDYVNKTNS-HLPAGKQ-VEIS 369 Query: 138 GMDFGWHHPFAAGHLVWNRDSDVIYVVK---------NYRCRE--------QT------- 173 LV + VV N R+ Q+ Sbjct: 370 --------------LVNGAKN---LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSER 412 Query: 174 ---------PI---FH-------VAALKS--WGKWLPWAWPHDGLQ---HDKRSGEQLSA 209 P+ FH + + + D +Q +D G L Sbjct: 413 KLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN-AKD-IQIPVYDTFDGSDL-- 468 Query: 210 QYRRQGMKMLP-------------ECAT-F------DDGSNGVEAGISDMLDRMRSGR 247 R + E T F D G G +G+ + R + G Sbjct: 469 --RVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGA-SGLGVLTHRNKDGT 523 Score = 29.1 bits (65), Expect = 1.0 Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 2/50 (4%) Query: 71 VIRMTINETPHYNEQERKRIIDSYPLHEREARTKGEPILGSGRIFPIVEE 120 VI +N T H+ ++ KRI ++Y E G+ L + +IF + E Sbjct: 1665 VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGK--LKTEKIFKEINE 1712 Score = 27.2 bits (60), Expect = 3.4 Identities = 45/326 (13%), Positives = 82/326 (25%), Gaps = 160/326 (49%) Query: 1 LKAYEQGRDKWQSNTVHYVWFDEEPPEDVYFEGLTRINATQGLVTLTLTPLKGRSPIIEH 60 L +E + N +H + A + L+ T L +I++ Sbjct: 88 LTEFE--NCYLEGNDIHAL-------------------AAK-LLQENDTTLVKTKELIKN 125 Query: 61 YLSA------------------SSSDRQVIRMTI------NETPHYNEQERKRIIDSYPL 96 Y++A + + + I + Y E E + + +Y Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD--YFE-ELRDLYQTYH- 181 Query: 97 HEREARTKGEPILGSGRIFPIVEEDIV------INSL-----DIPEHWVQIGGMDF-GW- 143 +V D++ ++ L D + + Q G++ W Sbjct: 182 -------------------VLV-GDLIKFSAETLSELIRTTLDAEKVFTQ--GLNILEWL 219 Query: 144 HHPFAAGHLVWNRDS--DVIYVVK--------------NYR--CR--EQTP-----IF-- 176 +P + D Y++ +Y + TP Sbjct: 220 ENP----------SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269 Query: 177 ---H---------VAALKSWG----------KWLPWAWPHDGLQHDKRSGEQLSAQYRRQ 214 H +A SW L + G+ R + Y Sbjct: 270 ATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI----GV----RC--YEA--YPNT 317 Query: 215 GMKMLPECATFDDGSNGVEAGISDML 240 LP D N E S ML Sbjct: 318 ---SLPPSILEDSLENN-EGVPSPML 339 >1qe3_A PNB esterase, para-nitrobenzyl esterase; alpha-beta hydrolase directed evolution; 1.50A {Bacillus subtilis} SCOP: c.69.1.1 PDB: 1c7j_A 1c7i_A Length = 489 Score = 31.9 bits (71), Expect = 0.16 Identities = 9/37 (24%), Positives = 11/37 (29%) Query: 132 HWVQIGGMDFGWHHPFAAGHLVWNRDSDVIYVVKNYR 168 W+ G G +VI V NYR Sbjct: 101 VWIHGGAFYLGAGSEPLYDGSKLAAQGEVIVVTLNYR 137 >1p0i_A Cholinesterase; serine hydrolase, butyrate; HET: NAG FUC MES; 2.00A {Homo sapiens} SCOP: c.69.1.1 PDB: 1p0m_A* 1p0p_A* 1p0q_A* 1xlu_A* 1xlv_A* 1xlw_A* 2wsl_A* 2pm8_A* 3djy_A* 3dkk_A* 2wij_A* 2wif_A* 2wik_A* 2j4c_A* 2wig_A* 2wid_A* 2wil_A* Length = 529 Score = 31.9 bits (71), Expect = 0.16 Identities = 11/36 (30%), Positives = 12/36 (33%) Query: 133 WVQIGGMDFGWHHPFAAGHLVWNRDSDVIYVVKNYR 168 W+ GG G R VI V NYR Sbjct: 112 WIYGGGFQTGTSSLHVYDGKFLARVERVIVVSMNYR 147 >3a58_A Exocyst complex component SEC3; protein complex, PH domain, GTPase, membrane traffic, coiled coil, exocytosis, phosphoprotein; HET: GNP; 2.60A {Saccharomyces cerevisiae} Length = 320 Score = 31.1 bits (70), Expect = 0.23 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 4/56 (7%) Query: 38 NATQGLVTLTLTPLKGRSPIIEHYLSASSSDRQVIRMTINETPHYNEQERKRIIDS 93 N +QG V + P+ G + + +S +S+ Q T N E++RK II+ Sbjct: 41 NVSQGAVPSSAPPVSGGNYSHKRNVSRASNSSQ----TSNFLAEQYERDRKAIINC 92 >1ea5_A Acetylcholinesterase; hydrolase, serine hydrolase, neurotransmitter cleavage, catalytic triad, alpha/beta hydrolase; HET: NAG; 1.80A {Torpedo californica} SCOP: c.69.1.1 PDB: 1ax9_A* 1amn_A* 1cfj_A* 1fss_A* 1gpk_A* 1gpn_A* 1oce_A* 1qid_A 1qie_A 1qif_A 1qig_A 1qih_A 1qii_A 1qij_A 1qik_A 1qim_A 1qti_A* 1vot_A* 1vxo_A* 1vxr_A* ... Length = 537 Score = 30.3 bits (67), Expect = 0.43 Identities = 8/36 (22%), Positives = 12/36 (33%) Query: 133 WVQIGGMDFGWHHPFAAGHLVWNRDSDVIYVVKNYR 168 W+ GG G +V+ V +YR Sbjct: 114 WIYGGGFYSGSSTLDVYNGKYLAYTEEVVLVSLSYR 149 >3bny_A Aristolochene synthase; sesquiterpene cyclase, isoprenoid, farnesyl diphosphate, magnesium, cyclization, lyase; HET: FPF; 1.89A {Aspergillus terreus} PDB: 2e4o_A 2oa6_A* 3bnx_A* 3cke_A* Length = 320 Score = 30.1 bits (67), Expect = 0.52 Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 3/71 (4%) Query: 174 PIFHVAALKSWGKWLPWAWPHDGLQHDKRSGEQLSAQYRRQGMKMLPECATFDDGSNGVE 233 P + + L + D + S E+ SA + + D S VE Sbjct: 69 PKALDDRIHFACRLLTVLFLIDD-LLEYMSFEEGSAYNEKLIPISRGDVLP--DRSIPVE 125 Query: 234 AGISDMLDRMR 244 I D+ + MR Sbjct: 126 YIIYDLWESMR 136 >1dx4_A Acetylcholinesterase; hydrolase (serine esterase), hydrolase, serine esterase, synapse, membrane, nerve, muscle, signal; HET: NAG MAN BMA 760; 2.70A {Drosophila melanogaster} SCOP: c.69.1.1 PDB: 1qo9_A* 1qon_A* Length = 585 Score = 30.0 bits (66), Expect = 0.59 Identities = 8/36 (22%), Positives = 11/36 (30%) Query: 133 WVQIGGMDFGWHHPFAAGHLVWNRDSDVIYVVKNYR 168 W+ GG G + +VI YR Sbjct: 146 WIYGGGFMTGSATLDIYNADIMAAVGNVIVASFQYR 181 >1umu_A UMUD'; induced mutagenesis, SOS mutagenesis, DNA repair, beta- lactamase cleavage reaction, LEXA repressor, lambda CI; 2.50A {Escherichia coli} SCOP: b.87.1.1 PDB: 1i4v_A 1ay9_A Length = 116 Score = 28.0 bits (62), Expect = 1.9 Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 6/61 (9%) Query: 115 FPIVEEDIVINSLDIPEHWVQIGGMDFGWHHPFAAGHLVWN---RDSDVIYVVKNYRCRE 171 FP D V +D+ + +Q + A+G + + D D++ V Sbjct: 2 FPSPAADYVEQRIDLNQLLIQHPSATYFVK---ASGDSMIDGGISDGDLLIVDSAITASH 58 Query: 172 Q 172 Sbjct: 59 G 59 >1f6k_A N-acetylneuraminate lyase; beta barrel; 1.60A {Haemophilus influenzae} SCOP: c.1.10.1 PDB: 1f5z_A 1f6p_A 1f73_A* 1f74_A* 1f7b_A* Length = 293 Score = 27.7 bits (61), Expect = 2.7 Identities = 11/60 (18%), Positives = 20/60 (33%), Gaps = 8/60 (13%) Query: 41 QGLVTLTLTPLK--------GRSPIIEHYLSASSSDRQVIRMTINETPHYNEQERKRIID 92 +G+ + L G II H + D + + E + +E+K I Sbjct: 5 KGIFSALLVSFNEDGTINEKGLRQIIRHNIDKMKVDGLYVGGSTGENFMLSTEEKKEIFR 64 >1ni7_A ER75, hypothetical protein YGDK; RD-structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Escherichia coli} SCOP: d.224.1.1 Length = 155 Score = 27.1 bits (60), Expect = 3.6 Identities = 10/40 (25%), Positives = 21/40 (52%), Gaps = 2/40 (5%) Query: 19 VWFDEEPPED--VYFEGLTRINATQGLVTLTLTPLKGRSP 56 VW E+ ++F G + +GL+ + LT ++G++ Sbjct: 65 VWLGYTVAENGKMHFFGDSEGRIVRGLLAVLLTAVEGKTA 104 >2rkv_A Trichothecene 3-O-acetyltransferase; BAHD superfamily, deoxynivalenol, acetyl COA, fusarium; HET: COA MPO ZBA; 1.60A {Gibberella zeae} PDB: 3b2s_A* 3b30_A* 2rkt_A* 2zba_A* Length = 451 Score = 27.1 bits (59), Expect = 4.2 Identities = 8/38 (21%), Positives = 11/38 (28%) Query: 144 HHPFAAGHLVWNRDSDVIYVVKNYRCREQTPIFHVAAL 181 P+ AG + S+ E P V L Sbjct: 52 AVPWVAGQVKAEGISEGNTGTSFIVPFEDVPRVVVKDL 89 >2ifa_A Hypothetical protein SMU.260; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: FMN; 2.30A {Streptococcus mutans UA159} SCOP: d.90.1.1 Length = 208 Score = 26.3 bits (57), Expect = 6.2 Identities = 6/24 (25%), Positives = 10/24 (41%) Query: 120 EDIVINSLDIPEHWVQIGGMDFGW 143 + V D+P +W + FG Sbjct: 155 DAQVAEKYDLPTNWKMRAQIPFGS 178 >2wqf_A Copper induced nitroreductase D; COPR regulated protein, oxidoreductase; HET: FMN; 1.35A {Lactococcus lactis} Length = 202 Score = 26.3 bits (57), Expect = 6.3 Identities = 7/29 (24%), Positives = 14/29 (48%) Query: 115 FPIVEEDIVINSLDIPEHWVQIGGMDFGW 143 + + ++ V ++PE W G + FG Sbjct: 153 YNPLIDEAVAKEWNLPESWKLRGQLVFGS 181 >3eh1_A Protein transport protein SEC24B; copii coat protein, vesicle transport, transport signal sequence, cytoplasm, endoplasmic reticulum; 1.80A {Homo sapiens} PDB: 2nut_B 2nup_B 3egd_B 3egx_B Length = 751 Score = 26.2 bits (57), Expect = 7.8 Identities = 14/57 (24%), Positives = 20/57 (35%) Query: 32 EGLTRINATQGLVTLTLTPLKGRSPIIEHYLSASSSDRQVIRMTINETPHYNEQERK 88 E L +N TQ L +TP+ P + L + R T+ P K Sbjct: 3 ESLRPVNLTQERNILPMTPVWAPVPNLNADLKKLNCSPDSFRCTLTNIPQTQALLNK 59 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 0.319 0.137 0.444 Gapped Lambda K H 0.267 0.0561 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,446,461 Number of extensions: 114695 Number of successful extensions: 313 Number of sequences better than 10.0: 1 Number of HSP's gapped: 309 Number of HSP's successfully gapped: 26 Length of query: 251 Length of database: 5,693,230 Length adjustment: 90 Effective length of query: 161 Effective length of database: 3,511,270 Effective search space: 565314470 Effective search space used: 565314470 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 (21.8 bits) S2: 55 (25.3 bits)