RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780728|ref|YP_003065141.1| pilus assembly protein [Candidatus Liberibacter asiaticus str. psy62] (263 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 = 51.9 bits (124), Expect = 2e-07 Identities = 61/330 (18%), Positives = 92/330 (27%), Gaps = 155/330 (46%) Query: 8 GIVVSGVFALVAGIIAMRLVSPHHVQTEEVITENPAKFINVLISKGDLAVG--------- 58 G+V A IA + E + K I VL +G Sbjct: 276 GLVT-------AVAIAE-------TDSWESFFVSVRKAITVL-----FFIGVRCYEAYPN 316 Query: 59 MVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVL-VRVPILKGDPI-RLEKLVDR 116 + P+ILE EN P+ M L + +++ V++ Sbjct: 317 TSLPPSILE---DSLENNEG-------VPSPM------LSIS-----NLTQEQVQDYVNK 355 Query: 117 GNGGLSSLLPKGKRAATMDISIS---SA----VGG-------------MIKPNDHVDVVM 156 N S LP GK+ + IS A V G K +D Sbjct: 356 TN----SHLPAGKQ-----VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD--- 403 Query: 157 VRS---LSERKPTVTVVLSNIRVIAIDHNIDSDERVLVGSTATLELTPMQAKALVAAQSV 213 +S SERK SN R L + +P + LV A + Sbjct: 404 -QSRIPFSERKL----KFSN--------------RFLPVA------SPFHSHLLVPASDL 438 Query: 214 AKLSLVLRSIADLNPSS-------SEDSDVWDVQEEGKEI--QIIKA------------- 251 LV +++ N + D D++ I +I+ Sbjct: 439 INKDLVKNNVS-FNAKDIQIPVYDTFDGS--DLRVLSGSISERIVDCIIRLPVKWETTTQ 495 Query: 252 -----------------GVIV--NKDGEGI 262 GV+ NKDG G+ Sbjct: 496 FKATHILDFGPGGASGLGVLTHRNKDGTGV 525 Score = 49.6 bits (118), Expect = 7e-07 Identities = 39/191 (20%), Positives = 64/191 (33%), Gaps = 81/191 (42%) Query: 9 IVVSG----VFALV---------AGI-------------IAMRLV---SPHHVQ----TE 35 +VVSG ++ L +G+ + R + SP H Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPAS 436 Query: 36 EVITENPAKFINVLISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDG 95 ++I ++ K NV + D+ P + FDG D ++ L G Sbjct: 437 DLINKDLVK-NNVSFNAKDIQ--------------IPVYDTFDG--SD------LRVLSG 473 Query: 96 ----VLVRVPILKGDPIRLEK--------LVDRGNGGLSSLLP--------KGKR---AA 132 +V I++ P++ E ++D G GG S L G R A Sbjct: 474 SISERIVDC-IIR-LPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAG 531 Query: 133 TMDISISSAVG 143 T+DI+ G Sbjct: 532 TLDINPDDDYG 542 Score = 31.1 bits (70), Expect = 0.30 Identities = 42/186 (22%), Positives = 73/186 (39%), Gaps = 45/186 (24%) Query: 32 VQTEEV---ITENPAKFINVLISKGDLAVGMVVTP--NILEWVAF---------PEENVF 77 ++TE++ I E+ + KG L+ P ++E AF P + F Sbjct: 1701 LKTEKIFKEINEHSTSY-TFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATF 1759 Query: 78 DGFIDDVHQPNAMQELDGV-----LVRVPILKGDPIRLEKLVD---RGNGGLSSLLPKGK 129 G + + A+ L V LV V +G +++ D R N G+ ++ P G+ Sbjct: 1760 AG--HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINP-GR 1816 Query: 130 RAATMDIS----ISSAVGGM-----------IKPNDHVDVVMVRSLSERKPTVTVVLSNI 174 AA+ + VG ++ +V +R+L TVT VL+ I Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALD----TVTNVLNFI 1872 Query: 175 RVIAID 180 ++ ID Sbjct: 1873 KLQKID 1878 >3frn_A Flagellar protein FLGA; structural genomics, periplasmic, PSI-2, protein structure initiative; 2.05A {Thermotoga maritima} Length = 278 Score = 37.6 bits (87), Expect = 0.003 Identities = 21/151 (13%), Positives = 49/151 (32%), Gaps = 15/151 (9%) Query: 33 QTEEVITENPAKFINVLISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQE 92 T + K NV++ K ++ VG V+ + ++ D + E Sbjct: 130 DTYVTLNMLLRKERNVVVLKRNINVGDVIKEEDVRLEKRNVFEIYGEPFFD------VSE 183 Query: 93 LDGVLVRVPILKGDPIRLEKLVD--RGNGGLSSLLPKGKRAATMDISISSAVGGMIKPND 150 + G + R + +G + + + D G + + + G + Sbjct: 184 VVGKISRRYLKEGTVLTADMVKDPPDVVKGQVVPAYVDMGSIKVTTFVEVLENGYL---- 239 Query: 151 HVDVVMVRSLSERKPTVTVVLSN--IRVIAI 179 + V ++ RK V +R++ + Sbjct: 240 -GETVRAMNVESRKYVFGRVERGPVLRILEV 269 >2fty_A Dihydropyrimidinase; alpha/beta barrel, beta-sandwich, hydrolase; HET: KCX; 2.40A {Lachancea kluyveri} SCOP: b.92.1.3 c.1.9.6 PDB: 2fvk_A* 2fvm_A* Length = 559 Score = 30.4 bits (67), Expect = 0.37 Identities = 20/110 (18%), Positives = 36/110 (32%), Gaps = 19/110 (17%) Query: 36 EVITENPAKFINVLISKGDLAVGM------VVTPNILEWVAFPEENVFDGFIDDVHQ--- 86 E+ NPAK + KG + G+ + P+ + + + + Sbjct: 421 EIQCTNPAKVYGMYPQKGSILPGVSDADLVIWYPDDSKKEYNSKPKLITN--KLMEHNCD 478 Query: 87 --PNAMQELDGVLVRVPILKGDPIRLEK--LVDRGNGGLSSLLPKGKRAA 132 P E+ I+KG + E L + +G L +GK Sbjct: 479 YTPFEGIEIKNWPRYT-IVKGKIVYKEGEILKENADG---KYLKRGKSFM 524 >3ooq_A Amidohydrolase; structural genomics, protein structure INI NEW YORK structural genomix research consortium, NYSGXRC, H PSI-2; 2.06A {Thermotoga maritima} Length = 396 Score = 29.2 bits (64), Expect = 0.87 Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 5/49 (10%) Query: 36 EVITENPAKFINVLISKGDLAVGM-----VVTPNILEWVAFPEENVFDG 79 +++T NPAK + + G + G V + + + + E DG Sbjct: 334 KILTVNPAKILGLEDRIGSIEPGKDADLVVWSGHPFDMKSVVERVYIDG 382 >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 = 28.0 bits (61), Expect = 2.1 Identities = 8/24 (33%), Positives = 11/24 (45%), Gaps = 7/24 (29%) Query: 211 QSVAKLSLVLRSIADLNPSSSEDS 234 Q++ KL L+ AD DS Sbjct: 20 QALKKLQASLKLYAD-------DS 36 >2ki8_A Tungsten formylmethanofuran dehydrogenase, subunit D (FWDD-2); beta-barrel, structural genomics, PSI-2, protein structure initiative; NMR {Archaeoglobus fulgidus} Length = 146 Score = 28.0 bits (62), Expect = 2.4 Identities = 10/64 (15%), Positives = 21/64 (32%) Query: 53 GDLAVGMVVTPNILEWVAFPEENVFDGFIDDVHQPNAMQELDGVLVRVPILKGDPIRLEK 112 G++ V + P + ID M + GV V + +++ Sbjct: 80 GEVVVFAKKGDVPKGMIFIPMGPYANMVIDPSTDGTGMPQFKGVKGTVEKTDEKVLSVKE 139 Query: 113 LVDR 116 L++ Sbjct: 140 LLEA 143 >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 = 28.0 bits (62), Expect = 2.4 Identities = 13/60 (21%), Positives = 26/60 (43%), Gaps = 9/60 (15%) Query: 169 VVLSNI-RVIAIDHNIDSDERVLVGSTATLELTPMQAKALVAAQSVAKLSLVLRSIADLN 227 + L +I +I+ D+D+ + +L+ QA+A+ L + LR + L Sbjct: 587 IALDHIDEIISTIRESDTDKVAMESLQQRFKLSEKQAQAI--------LDMRLRRLTGLE 638 >3hm7_A Allantoinase; metallo-dependent hydrolase, protein structure initiative, PSI-2, NEW YORK structural genomix research consortium, nysgxrc; 2.60A {Bacillus halodurans} Length = 448 Score = 27.9 bits (60), Expect = 2.7 Identities = 14/89 (15%), Positives = 29/89 (32%), Gaps = 16/89 (17%) Query: 36 EVITENPAKFINVLISKGDLAVGM-----VVTPNILEWVAFPEENVFDGFIDDVHQPNAM 90 ++++ PAK + KG + VG ++ N + + + P Sbjct: 365 QLLSTEPAKRFGLYPQKGTIQVGAEASFTLIDLN-ESYTLNASDLYYRH----PISPYVG 419 Query: 91 QELDGVLVRVPILKGDPIRLEKLVDRGNG 119 Q G + I +G + + G Sbjct: 420 QRFRGKVKHT-ICQG-----KHVYQDHEG 442 >3iyl_X VP3; non-enveloped virus, membrane penetration protein, autocleav myristol group, icosahedral virus; HET: MYR; 3.30A {Grass carp reovirus} PDB: 3k1q_C 3k1q_B Length = 1214 Score = 26.8 bits (58), Expect = 5.9 Identities = 15/101 (14%), Positives = 31/101 (30%), Gaps = 13/101 (12%) Query: 50 ISKGDLAVGMVVTPNILEWVAFPEENVFDGFIDDVH----------QPN--AMQELDGVL 97 +++G+L + T +A F +V +PN Q +D Sbjct: 977 VARGNLYLVQTATNGNWSPMAPVAAPPFVRGGPNVRVVGRFGTIVPRPNGLEPQLIDDGN 1036 Query: 98 VRVPILKGDPIRLEKLVDRGNGGLSSLLPKGKRAATMDISI 138 V I GD + ++ + +A + + Sbjct: 1037 VPRDIA-GDWVYPSDVLQVSVAVFRDYVWPMVKAGRTRVLV 1076 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 0.317 0.135 0.370 Gapped Lambda K H 0.267 0.0421 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,191,604 Number of extensions: 101833 Number of successful extensions: 283 Number of sequences better than 10.0: 1 Number of HSP's gapped: 278 Number of HSP's successfully gapped: 14 Length of query: 263 Length of database: 5,693,230 Length adjustment: 91 Effective length of query: 172 Effective length of database: 3,487,026 Effective search space: 599768472 Effective search space used: 599768472 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 56 (26.1 bits)