RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780483|ref|YP_003064896.1| putative inner membrane protein translocase component YidC [Candidatus Liberibacter asiaticus str. psy62] (581 letters) >3blc_A Inner membrane protein OXAA; YIDC, membrane assembly facilitator, chaperone, periplasmic domain, transmembrane, chaperone; 2.50A {Escherichia coli K12} Length = 330 Score = 160 bits (405), Expect = 8e-40 Identities = 49/321 (15%), Positives = 112/321 (34%), Gaps = 22/321 (6%) Query: 41 QTVKQPNQVDNSYAAVLIDDRAQALSMSPRVELKNPSLIGSINLKGAQFDDLNLRGYHLD 100 +Q Q + A D A + +K L +IN +G + L Y + Sbjct: 7 PQAQQTTQTTTTAAGSAADQGVPASGQGKLISVKTDVLDLTINTRGGDVEQALLPAYPKE 66 Query: 101 VSSNSPIVTLLSPSNTKNAYFAELDYVSTAN-NIELPNSNTVWNLISGKILT----PTTP 155 ++S P L ++ + Y A+ + ++N+ + Sbjct: 67 LNSTQPFQLL--ETSPQFIYQAQSGLTGRDGPDNPANGPRPLYNVEKDAYVLAEGQNELQ 124 Query: 156 IKLVFKNANNILFERTISL-DEHYLFKIVDTVTNNSIDQIRFSPRGRIMRH-------KP 207 + + + +A F +T L Y + V N + S G++ + Sbjct: 125 VPMTYTDAAGNTFTKTFVLKRGDYAVNVNYNVQNAGEKPLEISSFGQLKQSITLPPHLDT 184 Query: 208 QTATNTFGVQEGFIAVLGDKSLVEQKYSDIEKSSISNFHESNSWLGISDKYWASVFIPSK 267 ++ G D + + I + N W+ + +Y+A+ +IP Sbjct: 185 GSSNFALHTFRGAAYSTPDAAYAAYAFDTIADNENLNISSKGGWVAMLQQYFATAWIPHN 244 Query: 268 ETSFHSQFKYLSDGHARYQAKFSANEITILPGKSITTTNFLFAGAKEFPTIHHYEKDLAI 327 + + + L +G + + + + PG++ + L+ G + + Sbjct: 245 DGTNNFYTANLGNG--IAAIGYKSQPVLVQPGQTGAMNSTLWVGPEIQDKMAAVA----- 297 Query: 328 PRFEMLIDWGWFYFIAKPMFM 348 P ++ +D+GW +FI++P+ + Sbjct: 298 PHLDLTVDYGWLWFISQPLLV 318 >3bs6_A Inner membrane protein OXAA; YIDC/OXA1/ALB3 family, membrane insertion, chaperone, SEC translocon, periplasmic domain, beta supersandwich fold; HET: PG4 PGE 2PE; 1.80A {Escherichia coli} Length = 280 Score = 131 bits (331), Expect = 3e-31 Identities = 42/278 (15%), Positives = 94/278 (33%), Gaps = 20/278 (7%) Query: 70 RVELKNPSLIGSINLKGAQFDDLNLRGYHLDVSSNSPIVTLLSPSNTKNAYFAELDYVST 129 + +K L +IN +G + L Y +++S P LL S Sbjct: 5 LISVKTDVLDLTINTRGGDVEQALLPAYPKELNSTQPFQ-LLETSPQFIYQAQSGLTGRD 63 Query: 130 ANNIELPNSNTVWNLISG----KILTPTTPIKLVFKNANNILFERTISL-DEHYLFKIVD 184 + ++N+ + + + +A F +T L Y + Sbjct: 64 GPDNPANGPRPLYNVEKDAYVLAEGQNELQVPMTYTDAAGNTFTKTFVLKRGDYAVNVNY 123 Query: 185 TVTNNSIDQIRFSPRGRIMRH-----KPQTATNTFGVQEGFIAVLG--DKSLVEQKYSDI 237 V N + S G++ + T ++ F + A D+ + K+ I Sbjct: 124 NVQNAGEKPLEISSFGQLKQSITLPPHLDTGSSNFALHTFRGAAYSTPDEKYEKYKFDTI 183 Query: 238 EKSSISNFHESNSWLGISDKYWASVFIPSKETSFHSQFKYLSDGHARYQAKFSANEITIL 297 + N W+ + +Y+A+ +IP + + + L +G + + + + Sbjct: 184 ADNENLNISSKGGWVAMLQQYFATAWIPHNDGTNNFYTANLGNG--IAAIGYKSQPVLVQ 241 Query: 298 PGKSITTTNFLFAGAKEFPTIHHYEKDLAIPRFEMLID 335 PG++ + L+ G + + L ++ +D Sbjct: 242 PGQTGAMNSTLWVGPEIQDKMAAVAPHL-----DLTVD 274 >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 = 46.5 bits (110), Expect = 2e-05 Identities = 34/228 (14%), Positives = 59/228 (25%), Gaps = 76/228 (33%) Query: 396 IDELREKFKQSPPQVLQKAMIQLYKTH-----NINPLAGCWPILLQIPVFFAIYKVISIS 450 + QVL + ++ +I+ LA + ++I Sbjct: 69 SSLVEPSKVGQFDQVL-NLCLTEFENCYLEGNDIHALAAKLLQENDTTLV-KTKELIKNY 126 Query: 451 LEMRHA---PFWGWIK----DLAAADPTNIFTLFG--------------ILPFYLPGFMH 489 + R PF + +FG + Y Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV---L 183 Query: 490 VGIWPIIMSLS-MFIQMKMSPPPADK--GQAM-ILNWM---------------PVVFVFA 530 VG +I + ++ + A+K Q + IL W+ P+ Sbjct: 184 VG--DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI----- 236 Query: 531 LSSFPAGLIIYWSWSNVISIVQQAV---IMKMHGAEIGLIDRLRSTFS 575 S P LI VI + V ++ E LRS Sbjct: 237 --SCP--LI------GVIQLAHYVVTAKLLGFTPGE------LRSYLK 268 Score = 44.9 bits (106), Expect = 4e-05 Identities = 55/343 (16%), Positives = 85/343 (24%), Gaps = 182/343 (53%) Query: 9 VAIALSVIIVYAWQNFYVYPRIEEMNNERKNIQTVKQPNQVDNSYAAV--L--IDDRAQ- 63 A+A++ +W++F+ + A+ L I R Sbjct: 279 TAVAIAE--TDSWESFF------------------------VSVRKAITVLFFIGVRCYE 312 Query: 64 ---ALSMSPRV---ELKN----PSLIGSI-NLKGAQFDDLNLRGYHLDVSSNSPIVTLLS 112 S+ P + L+N PS + SI NL Q D +++ + Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD------YVNKT---------- 356 Query: 113 PSNTKNAYFAELDYVSTANNIELPNS--NTVWNLISGKILTPTTPIKLVFKNANNILFER 170 N++ V I L N N V +SG P P L Sbjct: 357 -----NSHLPAGKQVE----ISLVNGAKNLV---VSG----P--PQSLY----------- 387 Query: 171 TISLDEHYLFKI-VDTVTNNSIDQIR--FSPRGRIMRHKPQTATNTFGVQEGFIAVLGDK 227 L+ L K + +DQ R FS R K Sbjct: 388 --GLN-LTLRKAKAPS----GLDQSRIPFSER------KL-------------------- 414 Query: 228 SLVEQKYSDIEKSSISNFHESNSWLGISDKYWASVFIPSKETSFHSQFKYLSDGHARYQA 287 F N +L ++ P FHS L Sbjct: 415 ----------------KFS--NRFLPVA--------SP-----FHSH--LLVPASDLINK 441 Query: 288 KFSANEITILPGKSITTTNFLFAGAKEFPTIHHYEKDLAIPRF 330 N ++ KD+ IP + Sbjct: 442 DLVKNNVSFNA------------------------KDIQIPVY 460 Score = 40.3 bits (94), Expect = 0.001 Identities = 39/243 (16%), Positives = 68/243 (27%), Gaps = 97/243 (39%) Query: 219 GFIAVLGDKSLVEQK----YSDIEKSSISNFHESN-----------SWLGISDK------ 257 G+++ SLVE + + ++ F L +D Sbjct: 66 GYVS-----SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120 Query: 258 -----YWASVFIPSKETSFHSQ---FKYLSDGHAR-YQAKFSANEITILPGKSITTTNFL 308 Y + + + S F+ + +G+A+ I G+ T F Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV---------AIFGGQGNTDDYF- 170 Query: 309 FAGAKEFPTIHH-YEKDLAIPRFEMLIDWGWFYFIAKPMFML------MSYFYNLVGNFG 361 +E ++ Y LI F A+ + L + G Sbjct: 171 ----EELRDLYQTYH-----VLVGDLIK-----FSAETLSELIRTTLDAEKVFTQ----G 212 Query: 362 IAIM--------------LTTVFVKLLFFP------LAKKQYVSTANMKNIQPKIDELRE 401 + I+ L ++ + P LA YV TA + P ELR Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPIS---CPLIGVIQLA--HYVVTAKLLGFTPG--ELRS 265 Query: 402 KFK 404 K Sbjct: 266 YLK 268 Score = 37.2 bits (86), Expect = 0.011 Identities = 62/281 (22%), Positives = 115/281 (40%), Gaps = 63/281 (22%) Query: 175 DEH----YLFKIVDTVTNNSID-QIRF-SPRGRIMRHKPQTATNTFGVQEGFIAVLGDKS 228 D H Y F I+D V NN ++ I F +G+ +R F ++ K Sbjct: 1650 DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI--------FETIVDGKL 1701 Query: 229 LVEQKYSDIEKSSISNFHESNSWLGISDKYWASVFIPSKETSFHS-QFKYL--SD----G 281 E+ + +I + S S S L + ++ ++ +F + K L +D G Sbjct: 1702 KTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAG 1761 Query: 282 HA--RYQAKFS-ANEITILPGKSITTTNFLFAGAKEFPTIHHYEKDLAIPRFEM-LIDWG 337 H+ Y A S A+ ++I +S+ F + G T+ +A+PR E+ ++G Sbjct: 1762 HSLGEYAALASLADVMSI---ESLVEVVF-YRGM----TMQ-----VAVPRDELGRSNYG 1808 Query: 338 WFYFIA-KPMFMLMS-------YFYNLVGNFGIAIMLTTVFVKLLFFPLAKKQYVSTANM 389 IA P + S Y VG T V+++ + + +QYV+ ++ Sbjct: 1809 ---MIAINPGRVAASFSQEALQYVVERVGK------RTGWLVEIVNYNVENQQYVAAGDL 1859 Query: 390 KNIQPKIDELREKFKQSPPQVLQKA-MIQLYKTHNINPLAG 429 + + + L F + LQK +I+L K+ ++ + G Sbjct: 1860 RALDTVTNVL--NFIK-----LQKIDIIELQKSLSLEEVEG 1893 >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 = 36.5 bits (83), Expect = 0.017 Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 15/41 (36%) Query: 36 ER---KNIQ-TVKQPNQVDNSYAAVLIDDRAQALSMSPRVE 72 E+ K +Q ++K YA DD A AL++ +E Sbjct: 18 EKQALKKLQASLKL-------YA----DDSAPALAIKATME 47 Score = 30.4 bits (67), Expect = 1.1 Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 10/31 (32%) Query: 401 EKFKQSPPQVLQK--AMIQLYKTHNINP-LA 428 EK Q L+K A ++LY + P LA Sbjct: 18 EK------QALKKLQASLKLYADDSA-PALA 41 >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 = 2.9 Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 18/78 (23%) Query: 22 QNFYVYPRIEEMNNERKN-IQTVKQPNQVDNSYAAVLIDDRAQALSMSPRVELKNPSLIG 80 QN ++ R E++NE ++ ++ +Q Q N + PR+ P L G Sbjct: 1283 QNEFLLERTREIHNEAESQLRAAQQ--QWGNDF-----------YKRDPRIA---P-LRG 1325 Query: 81 SINLKGAQFDDLNLRGYH 98 ++ G DDL + +H Sbjct: 1326 ALATYGLTIDDLGVASFH 1343 >2htq_A Neuraminidase; zanamivir, hydrolase; HET: ZMR; 2.20A {Influenza a virus} PDB: 2ht7_A* 2ht8_A* 2ht5_A* 2htr_A* 2htu_A* Length = 390 Score = 28.3 bits (63), Expect = 5.0 Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 3/41 (7%) Query: 160 FKNANNILFERTISLDEHY---LFKIVDTVTNNSIDQIRFS 197 F+ ++ RTIS + +I + T S +QIR Sbjct: 271 FRQGTDVWMGRTISRTSRSGFEILRIKNGWTQTSKEQIRKQ 311 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 0.417 Gapped Lambda K H 0.267 0.0455 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 5,070,268 Number of extensions: 235466 Number of successful extensions: 633 Number of sequences better than 10.0: 1 Number of HSP's gapped: 624 Number of HSP's successfully gapped: 30 Length of query: 581 Length of database: 5,693,230 Length adjustment: 98 Effective length of query: 483 Effective length of database: 3,317,318 Effective search space: 1602264594 Effective search space used: 1602264594 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: 59 (27.2 bits)