RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780689|ref|YP_003065102.1| flagellar motor switch protein G [Candidatus Liberibacter asiaticus str. psy62] (345 letters) >3hjl_A Flagellar motor switch protein FLIG; armadillo repeat motif, superhelix, conformational plasticit repeat, torque generation; 2.40A {Aquifex aeolicus} Length = 329 Score = 190 bits (484), Expect = 3e-49 Identities = 73/325 (22%), Positives = 150/325 (46%), Gaps = 6/325 (1%) Query: 21 SLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQ 80 +L++ KA +LL++ ++VS +++ + EL+++ A AK L + EE+E+I +E + Sbjct: 8 ALSKAQKAAVLLLSLPEEVSMNIVKELSEEELQKLFALAKDLESVPEEEIENIAEELLDE 67 Query: 81 FIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFL 140 + + +++ + EK + + I +++ D ++A L Sbjct: 68 IKKAGIKIKKPEEFIENIKKVIPPTLAEKFRGI--LELGDAEKILKEIEKVDSRILASLL 125 Query: 141 SKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPKISPYIQKTIEKCIVE- 199 EHPQT A LS + P A ++ P ++ +++KR L ++ K + + ++E Sbjct: 126 KNEHPQTIALFLSQLSPKKSAEIIQNLPEELKKEVVKRIATLENVNVQYVKELAQILLEE 185 Query: 200 --MLPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLIT 257 L + G A L+N L+K + +L S+ + +++R K+F F+D+ Sbjct: 186 ISSLGAKEALKLEGTAVAAELLNTLDKETRELILQSIGQEDPLLEERIREKMFTFEDIRK 245 Query: 258 LSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPRE 317 LS D+ + + L AL G + + L +S R K+ E++ + E Sbjct: 246 LSDRDIIEILKVVDKNTLMIALLGAPEDIKQKFLSNMSKRAAKLFLEDME-ALGPVKKSE 304 Query: 318 VAMARRSIVQEAISLLKTNKIELSN 342 + A+R +V ++ KIE+ + Sbjct: 305 IEKAQRQVVNIIRKMIDEGKIEIGD 329 >1lkv_X Flagellar motor switch protein FLIG; chemotaxis, flagellar motion, structural protein; 2.80A {Thermotoga maritima} SCOP: a.118.14.1 Length = 232 Score = 97.1 bits (241), Expect = 6e-21 Identities = 54/220 (24%), Positives = 111/220 (50%), Gaps = 4/220 (1%) Query: 125 WDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKRTVNLPK 184 + +++TDP + +FL EHPQT A VLS + P + A +L P ++ +++KR L + Sbjct: 5 FSFVRDTDPVQLVNFLQSEHPQTIAVVLSYLDPPVAAQILGALPEELQTEVLKRIALLER 64 Query: 185 ISPYIQKTIEKCIVEM---LPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEA 241 SP + K IE+ + + + G + A ++N L++ K++ L + + E Sbjct: 65 TSPEVVKEIERNLEKKISGFVSRTFSKVGGIDTAAEIMNNLDRTTEKKIMDKLVQENPEL 124 Query: 242 FDKVRPKVFLFDDLITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKI 301 D++R ++F+F+D++ L + +V + L AL G S E + I +S R + Sbjct: 125 ADEIRRRMFVFEDILKLDDRSIQLVLREVDTRDLALALKGASDELKEKIFKNMSKRAAAL 184 Query: 302 IEENIVLNDSSIAPREVAMARRSIVQEAISLLKTNKIELS 341 +++ + + ++V A++ I+ L + +I ++ Sbjct: 185 LKDELEY-MGPVRLKDVEEAQQKIINIIRRLEEAGEIVIA 223 >1qc7_A Protein (FLIG); flagellar motor switch protein, structural protein; 2.20A {Thermotoga maritima} SCOP: a.118.14.1 Length = 101 Score = 70.5 bits (173), Expect = 5e-13 Identities = 19/92 (20%), Positives = 43/92 (46%), Gaps = 1/92 (1%) Query: 250 FLFDDLITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLN 309 F+F+D++ L + +V + L AL G S E + I +S R ++++ + Sbjct: 2 FVFEDILKLDDRSIQLVLREVDTRDLALALKGASDELKEKIFKNMSKRAAALLKDELE-Y 60 Query: 310 DSSIAPREVAMARRSIVQEAISLLKTNKIELS 341 + ++V A++ I+ L + +I ++ Sbjct: 61 MGPVRLKDVEEAQQKIINIIRRLEEAGEIVIA 92 >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 = 63.8 bits (155), Expect = 6e-11 Identities = 71/498 (14%), Positives = 137/498 (27%), Gaps = 244/498 (48%) Query: 19 PVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPE-----------ISP 67 P++L+ +L V F ++L+E K+LPE +P Sbjct: 8 PLTLSHGSLEHVLL------VPTAS--FFIASQLQE--QFNKILPEPTEGFAADDEPTTP 57 Query: 68 EEL------------ED------------IIDEFESQFIAGIGLTENSKNIESILEEGLE 103 EL E + EFE+ ++ G +I ++ + L Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG-------NDIHALAAK-LL 109 Query: 104 QNELEKLLNKSDI--------------------S-------------------QENNNSI 124 Q L+ ++ S Q N + Sbjct: 110 QENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY 169 Query: 125 WDHLKE---TDPGVIADFLSK-----------------------------EHPQTT---A 149 ++ L++ T ++ D + E+P T Sbjct: 170 FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229 Query: 150 YVLSMMP---PSIGASVLLRFPNKIHADIMKRTVNLPK-ISPYIQ--------------- 190 Y+LS +P P IG L + + A ++ T P + Y++ Sbjct: 230 YLLS-IPISCPLIGVIQLAHY--VVTAKLLGFT---PGELRSYLKGATGHSQGLVTAVAI 283 Query: 191 ----------KTIEKCIVEML-----------PQSNSNTSTGPEKVAN--------L-IN 220 ++ K + +L P ++ S + + N L I+ Sbjct: 284 AETDSWESFFVSVRKA-ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342 Query: 221 ELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLITLSSHDLSIVFNN--ISLEVLG-- 276 L + QV + + P + I N +L V G Sbjct: 343 NLTQEQVQDYV--------NKTNSHLPA----------GKQ-VEISLVNGAKNLVVSGPP 383 Query: 277 KALHG----------TSIETQNAILHCLSNRQRK------------------------II 302 ++L+G S Q+ I +RK +I Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPF----SERKLKFSNRFLPVASPFHSHLLVPASDLI 439 Query: 303 EENIVLNDSSIAPREVAM 320 +++V N+ S +++ + Sbjct: 440 NKDLVKNNVSFNAKDIQI 457 Score = 52.3 bits (125), Expect = 2e-07 Identities = 54/307 (17%), Positives = 90/307 (29%), Gaps = 149/307 (48%) Query: 19 PVS-----LTQKDKATAILLA--MEKQVSGKLLRHFTHAELKE------------IVASA 59 P+S + Q LA + V+ KLL FT EL+ + A A Sbjct: 235 PISCPLIGVIQ--------LAHYV---VTAKLL-GFTPGELRSYLKGATGHSQGLVTAVA 282 Query: 60 KLLPEISPEELEDIIDEFESQFIAGIGLTENSKN-IE--------------------SIL 98 I+ D +ES F + + I SIL Sbjct: 283 -----IA------ETDSWES-FF------VSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324 Query: 99 EE----------------GLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFL-- 140 E+ L Q +++ +NK+ NS HL I+ L Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQDYVNKT-------NS---HLPAGKQVEIS--LVN 372 Query: 141 SKEHPQTTAYVLSMMPPSI-GASVLLR--------FPNKIHADIMKRTVN-----LPKI- 185 + V+S P S+ G ++ LR ++I +R + LP + Sbjct: 373 G---AK--NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS--ERKLKFSNRFLP-VA 424 Query: 186 ----SPYIQKTIEKCIVEMLPQSNS------------NTSTGP---EKVANLINEL---- 222 S + + I + L ++N +T G ++ + Sbjct: 425 SPFHSHLLVPASDL-INKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI 483 Query: 223 -EKPQVD 228 P V Sbjct: 484 IRLP-VK 489 >2zy9_A Mg2+ transporter MGTE; membrane protien, metal transport; 2.94A {Thermus thermophilus HB8} PDB: 2yvx_A Length = 473 Score = 35.9 bits (82), Expect = 0.015 Identities = 23/130 (17%), Positives = 50/130 (38%), Gaps = 19/130 (14%) Query: 116 ISQENNNSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADI 175 + ++ S+ + L+E D + + L + HPQ + + VL P A++ Sbjct: 24 MEEKLAVSLQEALQEGDTRALREVLEEIHPQDLLALWDELKGEHRYVVLTLLPKAKAAEV 83 Query: 176 MKRTVNLPKISPYIQKTIEKCIVEMLPQSNSNTSTGPEKVANLINELEKPQVDKLLTSLQ 235 L +SP Q ++ LP P ++ ++ EL + L +++ Sbjct: 84 ------LSHLSPEEQAE----YLKTLP---------PWRLREILEELSLDDLADALQAVR 124 Query: 236 EVSKEAFDKV 245 + F ++ Sbjct: 125 KEDPAYFQRL 134 >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 = 31.5 bits (70), Expect = 0.26 Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 8/36 (22%) Query: 239 KEAFDKVRPKVFLF-DDLITLSSHDLSIVFNNISLE 273 K+A K++ + L+ DD S+ L+I ++E Sbjct: 19 KQALKKLQASLKLYADD----SAPALAI---KATME 47 Score = 31.5 bits (70), Expect = 0.29 Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 13/33 (39%) Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEIS-P 67 EKQ LK++ AS KL + S P Sbjct: 18 EKQA------------LKKLQASLKLYADDSAP 38 >3lut_A Voltage-gated potassium channel subunit beta-2; voltage gating, potassium channel, KV1.2, gating charges, no analysis, acetylation; HET: NAP; 2.90A {Rattus norvegicus} Length = 367 Score = 30.8 bits (69), Expect = 0.46 Identities = 6/24 (25%), Positives = 15/24 (62%) Query: 50 AELKEIVASAKLLPEISPEELEDI 73 +L E + + ++LP++S + +I Sbjct: 328 EQLMENIGAIQVLPKLSSSIVHEI 351 >3eau_A Voltage-gated potassium channel subunit beta-2; kvbeta, cortisone, NADPH, cytoplasm, ION transport, ionic channel, NADP, phosphoprotein; HET: NDP PDN; 1.82A {Rattus norvegicus} SCOP: c.1.7.1 PDB: 2r9r_A* 2a79_A* 1exb_A* 3eb4_A* 3eb3_A* 1qrq_A* 1zsx_A* Length = 327 Score = 30.8 bits (68), Expect = 0.49 Identities = 6/24 (25%), Positives = 15/24 (62%) Query: 50 AELKEIVASAKLLPEISPEELEDI 73 +L E + + ++LP++S + +I Sbjct: 294 EQLMENIGAIQVLPKLSSSIVHEI 317 >2d2r_A Undecaprenyl pyrophosphate synthase; prenyltransferase; 1.88A {Helicobacter pylori} PDB: 2dtn_A Length = 245 Score = 30.6 bits (68), Expect = 0.52 Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 3/44 (6%) Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79 E ++S LL ++AEL + L P+ +P++LE+II +F Sbjct: 195 EMRLSNFLLWQSSYAEL---FFTPILWPDFTPKDLENIISDFYK 235 >2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell WALL biogenesis/degradation, cell cycle, cell shape, cell division; HET: GPP; 1.8A {Mycobacterium tuberculosis} PDB: 2vg2_A* 2vg4_A Length = 284 Score = 30.2 bits (67), Expect = 0.78 Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 3/44 (6%) Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79 E++ S +L +AE + KL P+ +L +E+ S Sbjct: 236 EQRSSNFMLWQAAYAEY---IFQDKLWPDYDRRDLWAACEEYAS 276 >1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding site, hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A* Length = 507 Score = 29.9 bits (67), Expect = 0.87 Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 2/44 (4%) Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83 +L + E +EI++S K E + L++ I E +F+ Sbjct: 460 ELRTYVKTNKPEFQEIISSTKTFTEEAEALLKEAIQEQMERFLL 503 >1zq1_C Glutamyl-tRNA(Gln) amidotransferase subunit E; X-RAY, 3D structure, asparaginase 1 family, GATD subfamily, lyase; 3.00A {Pyrococcus abyssi} SCOP: a.182.1.2 d.74.4.1 d.128.1.5 Length = 633 Score = 29.6 bits (66), Expect = 0.99 Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 8/74 (10%) Query: 10 FKNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHF-------THAELKEIVASAKLL 62 K L KE+ ++T + A L +E +++ + +E+ K L Sbjct: 510 LKGLRKEVPIENVTDEHIREAFQLYLEGKIAKEAFEEIFKELARNPSKSAREVAE-EKGL 568 Query: 63 PEISPEELEDIIDE 76 +S EE+ II+E Sbjct: 569 TLLSEEEVTRIIEE 582 >3e0x_A Lipase-esterase related protein; APC60309, clostridium acetobutylicum ATCC 824, structural genomics, PSI-2; HET: MSE; 1.45A {Clostridium acetobutylicum} Length = 245 Score = 29.2 bits (63), Expect = 1.4 Identities = 6/36 (16%), Positives = 15/36 (41%) Query: 42 KLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEF 77 + + ++ELK L ++ + + + I F Sbjct: 209 IIKKEVENSELKIFETGKHFLLVVNAKGVAEEIKNF 244 >2ck3_A ATP synthase alpha chain heart isoform; ATP phosphorylase, ATP phosphorylase (H+ transporting), F1FO ATP synthase, F1-ATPase, hydrolase, ATP synthesis; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* 1efr_A* ... Length = 510 Score = 29.4 bits (66), Expect = 1.4 Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 2/44 (4%) Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83 L H H L + + + E S +L++I+ F + F A Sbjct: 467 AFLSHVISQHQALLGKIRTDGKISEESDAKLKEIVTNFLAGFEA 510 >2vg0_A Short-chain Z-isoprenyl diphosphate synthetase; peptidoglycan synthesis, cell WALL biogenesis/degradation, secreted, cell shape; HET: GPP; 1.7A {Mycobacterium tuberculosis} PDB: 2vfw_A* 2vg1_A* Length = 227 Score = 29.1 bits (64), Expect = 1.6 Identities = 7/44 (15%), Positives = 19/44 (43%), Gaps = 3/44 (6%) Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79 E+++SG LL ++E + + P + + ++ + Sbjct: 186 EQRLSGFLLWQSAYSE---MWFTEAHWPAFRHVDFLRALRDYSA 226 >3fsg_A Alpha/beta superfamily hydrolase; PF00561, MCSG, PSI, PSI-2, structural genomics, protein structure initiative; 2.00A {Oenococcus oeni psu-1} Length = 272 Score = 28.9 bits (63), Expect = 1.7 Identities = 8/36 (22%), Positives = 14/36 (38%) Query: 42 KLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEF 77 KL+ H + E+ + + L E + D F Sbjct: 229 KLINHNENGEIVLLNRTGHNLMIDQREAVGFHFDLF 264 >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 = 29.0 bits (64), Expect = 1.8 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 15/75 (20%) Query: 13 LYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKL---LPE----- 64 L KE+ V ++ KA +I A+E +V +A++ EI A + PE Sbjct: 744 LRKEL--VETSEVRKAVSIETALEHKVVNGNSADAAYAQV-EIQPRANIQLDFPELKPYK 800 Query: 65 ----ISPEELEDIID 75 I+P ELE ++D Sbjct: 801 QVKQIAPAELEGLLD 815 >3lwj_A Putative TETR-family transcriptional regulator; structural genomics, joint center for structural genomics, JCSG; 2.07A {Syntrophomonas wolfei subsp} Length = 202 Score = 28.8 bits (64), Expect = 1.8 Identities = 9/44 (20%), Positives = 18/44 (40%) Query: 42 KLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQFIAGI 85 + H A K + +L I+ EE+ +++ F G+ Sbjct: 154 SPIAHSILAIEKFSLYKWVVLKAITKEEMIEMVLSFHKTLAVGL 197 >3d23_B 3C-like proteinase; main protease, ATP-binding, cytoplasm, endonuclease, exonuclease, helicase, hydrolase, membrane, metal-binding; HET: 3IH; 2.50A {Human coronavirus HKU1} Length = 302 Score = 28.6 bits (64), Expect = 1.9 Identities = 9/39 (23%), Positives = 18/39 (46%), Gaps = 4/39 (10%) Query: 255 LITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289 L ++ D +I+ +SL V+ + G ++ QN Sbjct: 60 LCRVTLGDFTIMSGRMSLTVVSYQMQGCQLVLTVSLQNP 98 >1ueh_A Undecaprenyl pyrophosphate synthase; parallel alpha-beta, rossmann-like fold, transferase; HET: OXN; 1.73A {Escherichia coli} SCOP: c.101.1.1 PDB: 1jp3_A* 1v7u_A* 1x06_A* 1x07_A* 2e98_A* 2e99_A* 2e9a_A* 2e9c_A* 2e9d_A* 1x09_A* 1x08_A* Length = 253 Score = 28.6 bits (63), Expect = 1.9 Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 3/44 (6%) Query: 36 EKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFES 79 E ++S LL +AE + + L P+ ++ E ++ F + Sbjct: 198 EHRISNFLLWQIAYAE---LYFTDVLWPDFDEQDFEGALNAFAN 238 >2oux_A Magnesium transporter; 10001B, structural genomics, PSI-2, protein structure initiative, nysgxrc; 2.16A {Enterococcus faecalis V583} SCOP: a.118.26.1 d.37.1.1 Length = 286 Score = 28.3 bits (62), Expect = 2.4 Identities = 9/66 (13%), Positives = 17/66 (25%) Query: 111 LNKSDISQENNNSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNK 170 LN+ +E + + LK + H + + K Sbjct: 2 LNEGQEMEEQFALLLETLKNQQMNEFRELFLALHIYEQGQFYQSLDEKDRQHLYNYLSPK 61 Query: 171 IHADIM 176 AD+ Sbjct: 62 ELADMF 67 >2d6f_C Glutamyl-tRNA(Gln) amidotransferase subunit E; ligase, ligase/RNA complex; 3.15A {Methanothermobacterthermautotrophicus} SCOP: a.182.1.2 d.74.4.1 d.128.1.5 Length = 619 Score = 28.5 bits (63), Expect = 2.6 Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 7/67 (10%) Query: 15 KEISPVSLTQKDKATAILLAMEKQVSGKLLRH-----FTHAELKEIVASAKLLPEISPEE 69 ++ + L + AI L ++S LR E A L ++ +E Sbjct: 506 HDVDGLGLDEL--RDAIKLLEVGKISKDALRDIVACMADEGLAAEDAARKLNLLLLAEDE 563 Query: 70 LEDIIDE 76 +E II E Sbjct: 564 IESIIQE 570 Score = 27.3 bits (60), Expect = 4.9 Identities = 12/74 (16%), Positives = 26/74 (35%), Gaps = 11/74 (14%) Query: 51 ELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIG-------LTENSKNIESILEE-GL 102 L+E+ + + +EL D I E I+ + + E + L Sbjct: 497 TLRELRREGHDVDGLGLDELRDAIKLLEVGKISKDALRDIVACMADEGLAAEDAARKLNL 556 Query: 103 EQ---NELEKLLNK 113 +E+E ++ + Sbjct: 557 LLLAEDEIESIIQE 570 >3h0l_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi protein complex, ligase, protein biosynthesis; HET: ADP; 2.30A {Aquifex aeolicus} PDB: 3h0m_B 3h0r_B* Length = 478 Score = 27.9 bits (62), Expect = 3.2 Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 6/68 (8%) Query: 15 KEISPVSLTQKDKATAILLAMEKQVSGKLLRHF------THAELKEIVASAKLLPEISPE 68 I + + A + L EK +S K+ + T +IV L Sbjct: 360 ISIEESPVKPEHLAELVKLIKEKVISTKIGKEVIKEMVETGKTPSQIVEEKGLKQITDEN 419 Query: 69 ELEDIIDE 76 ++++++ + Sbjct: 420 QIKELVKK 427 >2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515 Score = 27.9 bits (62), Expect = 3.6 Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 2/42 (4%) Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQF 81 + LR H ++ + + + K L + E+L+ I+EF++ F Sbjct: 472 EFLRFMHEKHQDILDDIKTKKELTSETEEKLKKAIEEFKTTF 513 >2h2z_A PP1AB, ORF1AB, replicase polyprotein 1AB; main protease, authentic N and C termini, viral protein; 1.60A {Sars coronavirus} PDB: 1uk2_A 1uk3_A 1uk4_A 1z1i_A 2a5a_A 1uj1_A* 2bx3_A 2bx4_A 2c3s_A 2a5i_A 2gt7_A* 2gx4_A* 2gz7_A* 2gz8_A* 2gz9_A 2duc_A 2hob_A* 2v6n_A* 2z3c_A* 2z3d_A* ... Length = 306 Score = 27.9 bits (62), Expect = 3.6 Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 4/41 (9%) Query: 253 DDLITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289 D LI S+H + N+ L V+G ++ ++T N Sbjct: 56 DLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNP 96 >3al0_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; protein-RNA complex, ligase-RNA complex; HET: GSU; 3.37A {Thermotoga maritima} Length = 482 Score = 27.6 bits (61), Expect = 4.0 Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 6/72 (8%) Query: 11 KNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHF------THAELKEIVASAKLLPE 64 EI+ LT + A L E ++S K+ + T +IV L Sbjct: 360 NERNIEITESKLTPQHFADLFKLMDEGKISIKIAKEIFPEVFETGKMPSQIVEEKGLTQI 419 Query: 65 ISPEELEDIIDE 76 + +E+++ + Sbjct: 420 NDEKLIEELVKK 431 >2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single particle analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502 Score = 27.4 bits (61), Expect = 4.6 Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 4/44 (9%) Query: 42 KLLRHF--THAELKEIVASAKLLPEISPEELEDIIDEFESQFIA 83 +LL L + + LP+ +EL+ I+EF+ F Sbjct: 459 ELLSFMRANKDSLLDHIRQTGELPDT--KELDAAIEEFKKGFTP 500 >1c07_A Protein (epidermal growth factor receptor pathway substrate 15); calcium binding, signaling domain, NPF binding, FW binding, EF-hand, EH domain; NMR {Homo sapiens} SCOP: a.39.1.6 Length = 95 Score = 27.3 bits (60), Expect = 5.3 Identities = 20/102 (19%), Positives = 29/102 (28%), Gaps = 18/102 (17%) Query: 65 ISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSI 124 +SP E + F G + E L+ GL L + + D + Sbjct: 4 VSPAEKAKYDEIFLKTDKDMDGFVSGLEVREIFLKTGLPSTLLAHIWSLCDT---KDCGK 60 Query: 125 WD--------HLKETDPGVIADFLSKEHPQTTAYVLSMMPPS 158 HL I+ L K M+PPS Sbjct: 61 LSKDQFALAFHL-------ISQKLIKGIDPPHVLTPEMIPPS 95 >2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV, GRAM-positive bacteria, quinolone target, DNA binding, DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae} PDB: 3foe_A* 3fof_A* Length = 496 Score = 27.3 bits (60), Expect = 5.6 Identities = 6/28 (21%), Positives = 14/28 (50%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 A L I+ + + + +EL ++ +F Sbjct: 447 AMLAAIIGDERTMYNLMKKELREVKKKF 474 >2wtl_A Bacterioferritin, BFR; metal binding protein, bacterioferritin A, heme, iron, biliverdin, iron storage, metal-binding; HET: UNL; 2.59A {Mycobacterium tuberculosis} PDB: 3bkn_A* Length = 173 Score = 27.3 bits (60), Expect = 5.7 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 3/58 (5%) Query: 32 LLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQF--IAGIGL 87 LA+E V +L K+ SA LL +I +E E+ ID E+Q + +G Sbjct: 94 DLAIEYDVLNRLKPGIVMCREKQDTTSAVLLEKIVADE-EEHIDYLETQLELMDKLGE 150 >2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xcr_B* 2xcq_A* 2xco_A* Length = 692 Score = 27.2 bits (60), Expect = 5.9 Identities = 10/28 (35%), Positives = 19/28 (67%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 +EL+ I+A ++L ++ +EL +I D F Sbjct: 654 SELETILADEEVLLQLVRDELTEIRDRF 681 >2zu2_A 3C-like proteinase; protease-inhibitor complex, cytoplasm, hydrolase, membrane, metal-binding, protease, ribosomal frameshifting; 1.80A {Human coronavirus 229E} PDB: 1p9s_A Length = 302 Score = 27.1 bits (60), Expect = 5.9 Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 4/41 (9%) Query: 253 DDLITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289 + + H+ SI+ L V+G +HG + N Sbjct: 55 HEYSIMRLHNFSIISGTAFLGVVGATMHGVTLKIKVSQTNM 95 >2ex0_A A2,3-sialyltransferase, A2,6-sialyltransferase; two rossman fold; 1.65A {Pasteurella multocida} SCOP: c.87.1.9 PDB: 2ihj_A* 2ihk_A* 2ihz_A* 2iiq_A* 2ilv_A* 2ii6_A* 2iib_A* 2ex1_A* 2c83_A 2iy7_A* 2c84_A* 2iy8_A* Length = 399 Score = 27.1 bits (60), Expect = 6.2 Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 4/59 (6%) Query: 217 NLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDLITLSSHDLSIVFNNISLEVL 275 NL+N + + D + + + K P+ +D I ++ +++ + NIS EVL Sbjct: 262 NLLNHFTQAEGDLFIGD----HYKIYFKGHPRGGEINDYILNNAKNITNIPANISFEVL 316 >1lvo_A Replicase, hydrolase domain; 3C like, corona, proteinase, chymotrypsin, cysteine histidine DYAD, beta barrel; 1.96A {Transmissible gastroenteritis virus} SCOP: b.47.1.4 PDB: 1p9u_A 2amp_A* Length = 302 Score = 27.1 bits (60), Expect = 6.3 Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 4/41 (9%) Query: 253 DDLITLSSHDLSIVFNNISLEVLGKALHGT----SIETQNA 289 +++ ++ H+ S+ NN+ L V+ G + N Sbjct: 55 NEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNP 95 >2wl2_A GYRA, DNA gyrase subunit A; isomerase, aminocoumarin antibiotic, drug target, protein-ligand complex; HET: DNA SM8; 2.62A {Escherichia coli} PDB: 1ab4_A 1x75_A* Length = 522 Score = 27.2 bits (60), Expect = 6.3 Identities = 13/28 (46%), Positives = 18/28 (64%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 AEL I+ SA L E+ EELE + ++F Sbjct: 485 AELLRILGSADRLMEVIREELELVREQF 512 >2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* Length = 767 Score = 26.9 bits (59), Expect = 6.3 Identities = 6/28 (21%), Positives = 15/28 (53%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 A ++E + + + L + EL++ +F Sbjct: 713 AIIREQLENPESLKNLIISELKEDAKKF 740 >3kts_A Glycerol uptake operon antiterminator regulatory protein; structural genomics, PSI-2, protein structure initiative; HET: UNL; 2.75A {Listeria monocytogenes str} Length = 192 Score = 26.9 bits (60), Expect = 6.8 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%) Query: 61 LLPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEG 101 LLP I PE+++ + + IAG GL E S+ + ++ G Sbjct: 133 LLPGIIPEQVQKMTQKLHIPVIAG-GLIETSEQVNQVIASG 172 >3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic resistance, breakage-reunion domain, structural genomics; HET: DNA; 1.60A {Mycobacterium tuberculosis} Length = 470 Score = 26.9 bits (59), Expect = 7.0 Identities = 9/28 (32%), Positives = 17/28 (60%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 A+L++I+A + I +EL +I+D Sbjct: 433 ADLEDILAKPERQRGIVRDELAEIVDRH 460 >2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA; 2.80A {Staphylococcus aureus} Length = 514 Score = 26.5 bits (58), Expect = 8.5 Identities = 8/28 (28%), Positives = 15/28 (53%) Query: 50 AELKEIVASAKLLPEISPEELEDIIDEF 77 +L+ I+ + L + EEL +I +F Sbjct: 471 KQLRHILDNHDALLNVIKEELNEIKKKF 498 >3ip4_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi protein complex, ligase, ATP-binding, nucleotide- binding; 1.90A {Staphylococcus aureus subsp} PDB: 2df4_B 2dqn_B* 2g5h_B 2g5i_B* 2f2a_B Length = 483 Score = 26.5 bits (58), Expect = 8.7 Identities = 12/66 (18%), Positives = 24/66 (36%), Gaps = 6/66 (9%) Query: 17 ISPVSLTQKDKATAILLAMEKQVSGKLLRHF------THAELKEIVASAKLLPEISPEEL 70 + LT ++ A I L + +S K+ + K+I+ L+ L Sbjct: 359 LLDTKLTPENLAGMIKLIEDGTMSSKIAKKVFPELAAKGGNAKQIMEDNGLVQISDEATL 418 Query: 71 EDIIDE 76 ++E Sbjct: 419 LKFVNE 424 >3iyd_C DNA-directed RNA polymerase subunit beta; transcription, initiation, class I, activator, RNA polymerase, holoenzyme, sigma70, open complex, CAP, CRP, CAMP-dependent; HET: DNA CMP; 19.80A {Escherichia coli k-12} Length = 1342 Score = 26.6 bits (58), Expect = 9.4 Identities = 20/136 (14%), Positives = 50/136 (36%), Gaps = 8/136 (5%) Query: 2 NKTTDTVSFKNLYKEISPVSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKL 61 NK + + L E + + K + + ++++ + +R ++K I + Sbjct: 235 NKLQMELVPERLRGETASFDIEANGK---VYVEKGRRITARHIRQLEKDDVKLIEVPVEY 291 Query: 62 LPEISPEELEDIIDEFESQFIAGIGLTENSKNIESILEEGLEQNELEKLLNKSDISQENN 121 + +D IDE + I + + + + + G ++ E L +D+ Sbjct: 292 I--AGKVVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIE---TLFTNDLDHGPY 346 Query: 122 NSIWDHLKETDPGVIA 137 S + T+ + A Sbjct: 347 ISETLRVDPTNDRLSA 362 >1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F Length = 297 Score = 26.2 bits (57), Expect = 9.9 Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 2/44 (4%) Query: 87 LTENSKNIESILEEGLEQNELEKLLNKSDISQENNNSIWDHLKE 130 S + + +E+ ++ EL+K L +D++ + S+ + +KE Sbjct: 14 FLTGSSSYDKAVEDFIK--ELQKSLISADVNVKLVFSLTNKIKE 55 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 0.312 0.130 0.346 Gapped Lambda K H 0.267 0.0503 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,733,718 Number of extensions: 126662 Number of successful extensions: 613 Number of sequences better than 10.0: 1 Number of HSP's gapped: 597 Number of HSP's successfully gapped: 70 Length of query: 345 Length of database: 5,693,230 Length adjustment: 93 Effective length of query: 252 Effective length of database: 3,438,538 Effective search space: 866511576 Effective search space used: 866511576 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 57 (26.3 bits)