RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780636|ref|YP_003065049.1| ribonuclease D [Candidatus Liberibacter asiaticus str. psy62] (207 letters) >3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown function, ribonuclease D, exonuclease; 2.10A {Bifidobacterium adolescentis ATCC15703} Length = 440 Score = 134 bits (338), Expect = 2e-32 Identities = 37/175 (21%), Positives = 66/175 (37%), Gaps = 4/175 (2%) Query: 17 ARYVDAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGML-VDEKR 75 A ++A D E +VQ + ++ A + Sbjct: 35 ASSHGSLAADAERASGFRYGHEDWLVQFKRDGAGIGLLDPQALAAAGADWNDFNRAVGDA 94 Query: 76 EKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQ 135 I H D+ G+ + +F T+IA+RL + GL + LG+ ++K Sbjct: 95 VWILHDSLQDLPGF-DELGMEPQRLFDTEIAARLL--GLKRFGLAAVTEHFLGLTLAKEH 151 Query: 136 QSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDR 190 ++DWS L + YAA DV L L + +L+R G+ + A ++ + Sbjct: 152 SAADWSYRPLPRDWRNYAALDVELLIELETKMRAELKRQGKMEWAQEEFDYALKE 206 >2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form, hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A 2fbv_A 2fbx_A 2fbt_A 2fc0_A* Length = 208 Score = 92.7 bits (229), Expect = 6e-20 Identities = 30/164 (18%), Positives = 60/164 (36%), Gaps = 4/164 (2%) Query: 21 DAIAVDTETLGL--MPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKI 78 D + D E + +R R+ ++QL + + I++ L +L ++ +K Sbjct: 41 DVVGFDMEWPPIYKPGKRSRVAVIQLCVSESKCYLFHISSMSVFPQGLKMLLENKSIKKA 100 Query: 79 FHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISK--AQQ 136 D L F V++ + L +K +LG + K + + Sbjct: 101 GVGIEGDQWKLLRDFDVKLESFVELTDVANEKLKCAETWSLNGLVKHVLGKQLLKDKSIR 160 Query: 137 SSDWSADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLA 180 S+WS L+++Q YAA+D + + + L Sbjct: 161 CSNWSNFPLTEDQKLYAATDAYAGLIIYQKLGNLGDTVQVFALN 204 >1vk0_A Hypothetical protein; homohexamer, AT5G06450, structural genomics, protein structure initiative, center for eukaryotic structural genomics; 2.10A {Arabidopsis thaliana} SCOP: c.55.3.5 PDB: 2q3s_A Length = 206 Score = 90.1 bits (223), Expect = 3e-19 Identities = 24/169 (14%), Positives = 54/169 (31%), Gaps = 14/169 (8%) Query: 14 ECAARYVDAIAVDTETLGLMPRRD--------RLCIVQLSPGDGTVDIIRI-AAGQKNAP 64 + A+ D P + L V+LS + + +R+ N Sbjct: 40 DSILNGNRAVIFDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCL-FLRLPKPFHDNLK 98 Query: 65 NLVGMLVDEKREKIFHYGRFDIAVLFYTFGVRVRPVFCT--KIASRLTRTYTNQHGLKDN 122 +L + + D+ +L G+ +R A G ++ Sbjct: 99 DLYRFFASKFVTFVGVQIEEDLDLLRENHGLVIRNAINVGKLAAEARGTLVLEFLGTREL 158 Query: 123 LKELLGINISK-AQQSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEK 170 +L ++ + + W +EQL+ AA + + + Q +++ Sbjct: 159 AHRVLWSDLGQLDSIEAKWEKA-GPEEQLEAAAIEGWLIVNVWDQLSDE 206 >1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase, tRNA processing, hydrolase,translation; 1.60A {Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5 Length = 375 Score = 87.7 bits (216), Expect = 2e-18 Identities = 43/171 (25%), Positives = 74/171 (43%), Gaps = 3/171 (1%) Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80 AIA+DTE + +L ++QL G+ I + + L +L D K H Sbjct: 23 PAIALDTEFVRTRTYYPQLGLIQLFDGEHLALIDPLG--ITDWSPLKAILRDPSITKFLH 80 Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140 G D+ V FG +P+ T+I + G ++E G+ + K++ +DW Sbjct: 81 AGSEDLEVFLNVFGELPQPLIDTQILAAFCG-RPMSWGFASMVEEYSGVTLDKSESRTDW 139 Query: 141 SADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDRA 191 A L++ Q +YAA+DV +L + + + + G A C + R Sbjct: 140 LARPLTERQCEYAAADVWYLLPITAKLMVETEASGWLPAALDECRLMQMRR 190 >2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance, RNA processing, hydrolase, gene regulation; 2.10A {Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB: 2hbk_A 2hbl_A* 2hbm_A* Length = 410 Score = 83.0 bits (204), Expect = 5e-17 Identities = 39/170 (22%), Positives = 61/170 (35%), Gaps = 3/170 (1%) Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80 IAVD E +C++Q+S + ++ ++N L + + K+FH Sbjct: 107 KEIAVDLEHHDYRSYYGIVCLMQISTRERDY-LVDTLKLRENLHILNEVFTNPSIVKVFH 165 Query: 81 YGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDW 140 DI L G+ V +F T AS+ +H L L+ SK Q +DW Sbjct: 166 GAFMDIIWLQRDLGLYVVGLFDTYHASKAIG--LPRHSLAYLLENFANFKTSKKYQLADW 223 Query: 141 SADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDR 190 LS A +D L + Q KL + + R Sbjct: 224 RIRPLSKPMTAAARADTHFLLNIYDQLRNKLIESNKLAGVLYESRNVAKR 273 >2hhv_A DNA polymerase I; DNA replication, klenow fragment, protein- DNA complex, O6-methyl-guanine, transferase/DNA complex; HET: DNA 6OG SUC; 1.55A {Geobacillus stearothermophilus} SCOP: c.55.3.5 e.8.1.1 PDB: 2hhs_A* 2hht_A* 2hhu_A* 2hhq_A* 2hhx_A* 2hw3_A* 1nk4_A* 1l3t_A* 1l3u_A* 1l3v_A* 1l5u_A* 1njw_A* 1l3s_A* 1njy_A* 1njz_A* 1nk0_A* 1njx_A* 1nk5_A* 1nk6_A* 1nk7_A* ... Length = 580 Score = 80.8 bits (198), Expect = 2e-16 Identities = 18/130 (13%), Positives = 37/130 (28%), Gaps = 4/130 (3%) Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFH 80 D A+ E + + + + G + A P V L DE ++K Sbjct: 18 DKAALVVEVVEENYHDAPIVGIAVVNEHGRFFLRPETA--LADPQFVAWLGDETKKKSMF 75 Query: 81 YGRFDIAVLFYTFGVRVR-PVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSD 139 + L + G+ + F +A+ L + K + + Sbjct: 76 DSKRAAVALKW-KGIELCGVSFDLLLAAYLLDPAQGVDDVAAAAKMKQYEAVRPDEAVYG 134 Query: 140 WSADDLSDEQ 149 A ++ Sbjct: 135 KGAKRAVPDE 144 >2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A* Length = 605 Score = 65.6 bits (159), Expect = 7e-12 Identities = 29/141 (20%), Positives = 54/141 (38%), Gaps = 12/141 (8%) Query: 21 DAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPN----------LVGML 70 A DTET L L + + G I +A +AP+ L +L Sbjct: 27 PVFAFDTETDSLDNISANLVGLSFAIEPGVAAYIPVAHDYLDAPDQISRERALELLKPLL 86 Query: 71 VDEKREKIFHYGRFDIAVLFYTFGVRVR-PVFCTKIASRLTRTYTNQHGLKDNLKELLGI 129 DEK K+ ++D +L +G+ +R F T + S + + +H + + L Sbjct: 87 EDEKALKVGQNLKYDRGIL-ANYGIELRGIAFDTMLESYILNSVAGRHDMDSLAERWLKH 145 Query: 130 NISKAQQSSDWSADDLSDEQL 150 ++ + + L+ Q+ Sbjct: 146 KTITFEEIAGKGKNQLTFNQI 166 >1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB: 1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A* 1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A* 1zyq_A* 2ajq_A* Length = 698 Score = 50.1 bits (118), Expect = 4e-07 Identities = 34/214 (15%), Positives = 58/214 (27%), Gaps = 39/214 (18%) Query: 23 IAVDTETLGLMPRRDRL-CIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHY 81 I D E L+ + C V R + L + +FH Sbjct: 2 IVSDIEANALLESVTKFHCGVIYDYSTAEYVSYRPSDFGAYLDALEAEVARGG-LIVFHN 60 Query: 82 G-RFDIAVLFYTFGVRVRP--------VFCTKIASRL------------TRTYTNQHGL- 119 G ++D+ L +++ T + SRL R+ L Sbjct: 61 GHKYDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMGLLRSGKLPGALE 120 Query: 120 -------------KDNLKELLGINISKAQQSSDWSADDLSDEQLQYAASDVVHLHALRLQ 166 KD+ K +L + +W ++E + Y DVV AL + Sbjct: 121 AWGYRLGEMKGEYKDDFKRMLEEQGEEYVDGMEWWN--FNEEMMDYNVQDVVVTKALLEK 178 Query: 167 FTEKLQRLGRSDLATSCCNFLMDRAELDLLGWEN 200 T L+ + E+ Sbjct: 179 LLSDKHYFPPEIDFTDVGYTTFWSESLEAVDIEH 212 >3m8r_A DNA polymerase I, thermostable; DNA polymerase, DNA replication, nucleotides, modified nucleotide, artificial nucleotide; HET: DNA DOC HXZ 15P; 2.00A {Thermus aquaticus} PDB: 1jxe_A* 3ktq_A* 3lwl_A* 3lwm_A* 3m8s_A* 1ktq_A* 5ktq_A* 4ktq_A* 1qtm_A* 2ktq_A* 1qss_A* 1qsy_A* Length = 540 Score = 45.5 bits (107), Expect = 8e-06 Identities = 18/148 (12%), Positives = 37/148 (25%), Gaps = 24/148 (16%) Query: 28 ETLGLMPRRDRLCIVQLS-PGDGTVDIIRIAAGQKNAPN--LVGMLVDEKREKIFHYGRF 84 E P LS D++ +AA + + ++ Sbjct: 3 EEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLKEARGLLAK 62 Query: 85 DIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDWSADD 144 D++VL G+ + P + + L + + + G Sbjct: 63 DLSVLALREGLGLPPGDDPMLLAYLLD--PSNTTPEGVARRYGG---------------- 104 Query: 145 LSDEQLQYAASDVVHLHALRLQFTEKLQ 172 E + A L +L+ Sbjct: 105 ---EWTEEAGERAALSERLFANLWGRLE 129 >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 = 39.2 bits (91), Expect = 6e-04 Identities = 21/134 (15%), Positives = 36/134 (26%), Gaps = 38/134 (28%) Query: 75 REKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDN-LKELLGINISK 133 R +G + + V P T ++ L++ K L Sbjct: 7 RPLTLSHGSLE-----HVLLV---P----------TASFFIASQLQEQFNKIL------- 41 Query: 134 AQQSSDWSADDLSDEQLQYAASDVVHLHALRLQFTEKLQRLGRSDLATSCCNFLMDRAEL 193 + ++ A D DE + L L + L + N + E Sbjct: 42 -PEPTEGFAAD--DEP-----TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93 Query: 194 DLLGWENVDIFSHS 207 L DI H+ Sbjct: 94 CYLE--GNDI--HA 103 Score = 36.1 bits (83), Expect = 0.007 Identities = 29/227 (12%), Positives = 51/227 (22%), Gaps = 105/227 (46%) Query: 12 PAECAARYVDAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLV 71 PAE ++ LG + + P ++ + + Sbjct: 57 PAELVGKF----------LGYVSSL-------VEPSK-----------VGQFDQVLNLCL 88 Query: 72 DEKREKIFHYGRFDIAVLF----YTFGVRVRPVFCTKIASR--LTRTYTNQHGLKDNLKE 125 E F+ L + ++ T + L + Y Sbjct: 89 TE----------FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITAR-------I 131 Query: 126 LLGINISKAQQSSDWSADDLSDEQLQYAASDVVHLHA--------------LR------- 164 + K S+ L + L A LR Sbjct: 132 MAKRPFDKKSNSA------L----FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH 181 Query: 165 ------LQF-TEKLQRLGRSDLATSCCNFLMDRAE------LDLLGW 198 ++F E L L R+ AE L++L W Sbjct: 182 VLVGDLIKFSAETLSELIRTT----------LDAEKVFTQGLNILEW 218 >1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5 Length = 189 Score = 34.2 bits (77), Expect = 0.021 Identities = 28/177 (15%), Positives = 56/177 (31%), Gaps = 18/177 (10%) Query: 21 DAIAVDTETLGLMPRRD-RLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIF 79 + +A+D E +GL P R+ L L G V + + + + + + Sbjct: 6 EVVAMDCEMVGLGPHRESGLARCSLVNVHGAVLYDKFIRPEGEITDYRTRVSGVTPQHMV 65 Query: 80 HYGRFD--IAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQS 137 F + ++ K + + + + + D + L +K Sbjct: 66 GATPFAVARLEILQLLKGKLVVGHDLKHDFQALKEDMSGYTIYDTSTDRLLWREAKLDHC 125 Query: 138 SDWSADDLSDEQLQY----------AASDV-----VHLHALRLQFTEKLQRLGRSDL 179 S LS+ L + D ++ + R++ L RL SDL Sbjct: 126 RRVSLRVLSERLLHKSIQNSLLGHSSVEDARATMELYQISQRIRARRGLPRLAVSDL 182 >2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8} Length = 186 Score = 29.3 bits (64), Expect = 0.72 Identities = 7/18 (38%), Positives = 11/18 (61%) Query: 23 IAVDTETLGLMPRRDRLC 40 + +D ET GL P+ D + Sbjct: 15 VVLDFETTGLDPQVDEII 32 >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 = 28.8 bits (63), Expect = 0.85 Identities = 12/36 (33%), Positives = 14/36 (38%), Gaps = 9/36 (25%) Query: 120 KDNLKELLGINISKAQQSSDWSADDLSDEQLQYAAS 155 K LK+L Q S ADD S L A+ Sbjct: 19 KQALKKL--------QASLKLYADD-SAPALAIKAT 45 >1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo sapiens} SCOP: c.55.3.5 Length = 238 Score = 28.4 bits (62), Expect = 1.0 Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%) Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45 + +D E GL I +LS Sbjct: 13 VFLDLEATGLPSVEPE--IAELS 33 >2is3_A Ribonuclease T; RNAse, exoribonuclease, exonuclease, hydrolase, stable RNA maturation, tRNA END-turnover; 3.10A {Escherichia coli K12} Length = 215 Score = 28.5 bits (62), Expect = 1.2 Identities = 6/35 (17%), Positives = 13/35 (37%), Gaps = 3/35 (8%) Query: 23 IAVDTETLGLMPRRDR---LCIVQLSPGDGTVDII 54 + +D ET G + D + + L + + Sbjct: 20 VVIDVETAGFNAKTDALLEIAAITLKMDEQGWLMP 54 >2ioc_B Three prime repair exonuclease 1; proline helix, nucleotide complex, DNAQ family, hydrolase; HET: D5M; 2.10A {Mus musculus} SCOP: c.55.3.5 PDB: 3b6o_A* 2o4g_A* 3b6p_A* 2o4i_A 2oa8_A Length = 242 Score = 28.4 bits (62), Expect = 1.3 Identities = 7/23 (30%), Positives = 10/23 (43%), Gaps = 2/23 (8%) Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45 I +D E GL R + +L Sbjct: 15 IFLDLEATGLPSSRPE--VTELC 35 >2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily, SH3-like domain, product bound structure, DNA damage, DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia coli K12} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A Length = 482 Score = 28.0 bits (61), Expect = 1.6 Identities = 8/23 (34%), Positives = 10/23 (43%), Gaps = 2/23 (8%) Query: 23 IAVDTETLGLMPRRDRLCIVQLS 45 + D ET G P DR Q + Sbjct: 12 LFHDYETFGTHPALDR--PAQFA 32 >2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PSI, MCSG, protein structure initiative; 2.09A {Pseudomonas aeruginosa PAO1} SCOP: c.55.3.5 Length = 224 Score = 27.3 bits (59), Expect = 2.6 Identities = 8/23 (34%), Positives = 9/23 (39%) Query: 18 RYVDAIAVDTETLGLMPRRDRLC 40 R + VD ET G D L Sbjct: 27 RGYLPVVVDVETGGFNSATDALL 49 >2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, X-RAY diffraction, hydrolase; 2.30A {Xanthomonas campestris PV} Length = 194 Score = 27.2 bits (59), Expect = 2.9 Identities = 8/22 (36%), Positives = 12/22 (54%), Gaps = 2/22 (9%) Query: 23 IAVDTETLGLMPRRDRLCIVQL 44 I +D E GL RD I+++ Sbjct: 12 IWIDLEMTGLDTDRDS--IIEI 31 >2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli K12} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A Length = 180 Score = 26.9 bits (58), Expect = 3.1 Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 2/22 (9%) Query: 23 IAVDTETLGLMPRRDRLCIVQL 44 I +D E GL P RDR I+++ Sbjct: 8 IWIDLEMTGLDPERDR--IIEI 27 >3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A Length = 308 Score = 26.2 bits (57), Expect = 5.1 Identities = 16/121 (13%), Positives = 33/121 (27%), Gaps = 34/121 (28%) Query: 23 IAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHYG 82 + +D ET +D C ++I+ A + D Sbjct: 22 LILDFETTSDAANQDYPC-----------EVIQFAI----------VAYDVPN------D 54 Query: 83 RFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDWSA 142 + + F + V+P + LT+ + G+ + +Q W Sbjct: 55 KIREDISFNKY---VKP----VLNRTLTKNCVDFTGIPQRSIDTADTFDVVYEQFQQWLI 107 Query: 143 D 143 Sbjct: 108 T 108 >3be6_A Putative iron compound-binding protein of ABC transporter family; open form, closed form, group III periplasmic binding protein; HET: MSE; 1.82A {Escherichia coli O157} PDB: 3be5_A* Length = 297 Score = 26.1 bits (56), Expect = 5.3 Identities = 13/83 (15%), Positives = 25/83 (30%) Query: 76 EKIFHYGRFDIAVLFYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQ 135 + + I L T + V + + H L L++ + Sbjct: 141 AILERRYQAQINALKATLDSQKITVSVIQANQGKINVMHSYHSLGRVLRDAGFRFPPLIE 200 Query: 136 QSSDWSADDLSDEQLQYAASDVV 158 + D+S E+L +D V Sbjct: 201 SIPEGGRMDVSAERLPELDADFV 223 >2fgy_A Carboxysome shell polypeptide; beta class of carbonic anhydrase, lyase; 2.20A {Halothiobacillus neapolitanus} Length = 542 Score = 25.6 bits (56), Expect = 8.0 Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 1/42 (2%) Query: 4 IRVHEGDIPAE-CAARYVDAIAVDTETLGLMPRRDRLCIVQL 44 IRVH D RYVD +TL L P R+ I + Sbjct: 330 IRVHIPDSKGFLNPYRYVDNTVTYAQTLHLAPDEARVIIHEA 371 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 0.323 0.137 0.408 Gapped Lambda K H 0.267 0.0504 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,797,806 Number of extensions: 78685 Number of successful extensions: 210 Number of sequences better than 10.0: 1 Number of HSP's gapped: 197 Number of HSP's successfully gapped: 27 Length of query: 207 Length of database: 5,693,230 Length adjustment: 88 Effective length of query: 119 Effective length of database: 3,559,758 Effective search space: 423611202 Effective search space used: 423611202 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 54 (25.1 bits)