RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780687|ref|YP_003065100.1| flagellar C-ring protein [Candidatus Liberibacter asiaticus str. psy62] (318 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 = 58.0 bits (140), Expect = 2e-09 Identities = 59/375 (15%), Positives = 105/375 (28%), Gaps = 184/375 (49%) Query: 31 IEKISSSLGYLYKKFLP----KIFKEKMDL-----------DVD------IS-------- 61 I+ + +L L + K+F + +++ D D IS Sbjct: 188 IKFSAETLSELIR--TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ 245 Query: 62 ----YTSCQS-----GKFSHII-----HSFKENFVFSQ--------ASLSSWSS---N-- 94 + + G+ + HS Q A SW S + Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHS--------QGLVTAVAIAETDSWESFFVSVR 297 Query: 95 ------FFIGCSNNLVITLLENLLGASHETIPQLYNRSLSTVEKKLAKRTIAQISAVLNQ 148 FFIG +E P N SL ++L Sbjct: 298 KAITVLFFIGV--------------RCYEAYP---NTSLP--------------PSILED 326 Query: 149 CISTTQESSPN------------LEDFYDID----YLKKNTNRLSNEFVTTINMNMTIEN 192 + E P+ ++D+ ++ +L ++ ++ +N Sbjct: 327 SLE-NNEGVPSPMLSISNLTQEQVQDY--VNKTNSHLPAG-KQVE---ISLVNG------ 373 Query: 193 VASSFVLIIPQETL--LKTTL--ISLSSQNKSENQSEDLIDPFA-RKTYQLNVNIDTRIN 247 A + V+ P ++L L TL S +QS I PF+ RK + R Sbjct: 374 -AKNLVVSGPPQSLYGLNLTLRKAKAPS---GLDQSR--I-PFSERK-----LKFSNRF- 420 Query: 248 LKKTTLKDVVTLKIGQVIPFLH-------REKTCAILSANGKEIYSCELG------RVGK 294 L + PF H + L N + ++ G Sbjct: 421 -----------LPVA--SPF-HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466 Query: 295 NYTIR-----ITDRI 304 + +R I++RI Sbjct: 467 D--LRVLSGSISERI 479 Score = 55.3 bits (133), Expect = 2e-08 Identities = 67/406 (16%), Positives = 112/406 (27%), Gaps = 139/406 (34%) Query: 10 TSPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDISYTSCQSGK 69 T+P L+ + G + K+ L L F+ DI Sbjct: 55 TTPAE--LVGKFLGYVSSLVEPSKVGQFDQVL-NLCL-TEFENCYLEGNDI--------- 101 Query: 70 FSH-IIHSFKENFVFSQASLSSWSSNFFIGCSN-NLVITLLEN--LLGASHETIPQLY-- 123 H + + + N+ N L A E QL Sbjct: 102 --HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI 159 Query: 124 -----N--------RSLSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFY----DI 166 N R L L I + L++ I TT ++ E + +I Sbjct: 160 FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA----EKVFTQGLNI 215 Query: 167 -DYLKKNTNRLSNEF--------------------VTTINMNMTIENVASSFV------- 198 ++L+ +N ++ VT + T + S Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275 Query: 199 -LIIP------------QETLLK--TTL--ISLSSQNKSENQS------EDLID-----P 230 L+ ++ K T L I + N S ED ++ P Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP 335 Query: 231 FARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANG--------- 281 + L+++ NL + ++D + + L K I NG Sbjct: 336 ----SPMLSIS-----NLTQEQVQDY----VNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382 Query: 282 -KEIYSCELGRVGKNYTIR-I-----TD--RINFDQKSLK---NFL 315 + +Y G N T+R D RI F ++ LK FL Sbjct: 383 PQSLY-------GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421 >1o6a_A Putative flagelar motor switch protein FLIN; TM0680A, C- terminal proteolytic fragment of TM0680A, structural genomics, JCSG, PSI; 1.85A {Thermotoga maritima} SCOP: b.139.1.1 PDB: 1yab_A Length = 96 Score = 54.7 bits (132), Expect = 3e-08 Identities = 18/99 (18%), Positives = 41/99 (41%), Gaps = 6/99 (6%) Query: 216 SQNKSENQSEDLIDPFARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCA 275 S+ + D ++ + + + + + TLK V+ + G +I Sbjct: 1 SETRKTEVPSDKLELL----LDIPLKVTVELGRTRMTLKRVLEMIHGSIIELDKLTGEPV 56 Query: 276 ILSANGKEIYSCELGRVGKNYTIRITDRINFDQ--KSLK 312 + NGK I E+ + +N+ +RIT+ ++ + + L Sbjct: 57 DILVNGKLIARGEVVVIDENFGVRITEIVSPKERLELLN 95 >1o9y_A HRCQ2; secretory protein, HRP, type III secretion system, phytopathogenicity; 2.29A {Pseudomonas syringae} SCOP: b.139.1.1 Length = 84 Score = 46.7 bits (111), Expect = 8e-06 Identities = 13/68 (19%), Positives = 26/68 (38%) Query: 237 QLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNY 296 L +++ R + TL ++ L G ++ A L + + EL V Sbjct: 14 SLALDLTLRCGELRLTLAELRRLDAGTILEVTGISPGHATLCHGEQVVAEGELVDVEGRL 73 Query: 297 TIRITDRI 304 ++IT + Sbjct: 74 GLQITRLV 81 >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 = 33.1 bits (74), Expect = 0.082 Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 3/31 (9%) Query: 27 DKKTIEKISSSLGYLY-KKFLPKI-FKEKMD 55 +K+ ++K+ +SL LY P + K M+ Sbjct: 18 EKQALKKLQASLK-LYADDSAPALAIKATME 47 >2arr_A Plasminogen activator inhibitor-2; serpin, peptide binding, peptide binding protein; 1.55A {Homo sapiens} PDB: 2arq_A 1jrr_A 1by7_A Length = 382 Score = 28.0 bits (61), Expect = 2.6 Identities = 20/122 (16%), Positives = 45/122 (36%), Gaps = 6/122 (4%) Query: 70 FSHIIHSFK-ENFVFSQASLSSWSSNFFIGCSNN----LVITLLENLLGASHETIPQLYN 124 F H+ + +N S S+SS + ++G + + L N +GA+ + I + Sbjct: 16 FKHLAKASPTQNLFLSPWSISSTMAMVYMGSRGSTEDQMASVLQFNEVGAAADKIHSSFR 75 Query: 125 RSLSTVEKKLAKRTIAQISAV-LNQCISTTQESSPNLEDFYDIDYLKKNTNRLSNEFVTT 183 S + + ++ + + S +E + +Y + + + E Sbjct: 76 SLSSAINASTGNYLLESVNKLFGEKSASFREEYIRLCQKYYSSEPQAVDFLECAEEARKK 135 Query: 184 IN 185 IN Sbjct: 136 IN 137 >1nwa_A Peptide methionine sulfoxide reductase MSRA; oxidoreductase, product complex, structural genomics, PSI, protein structure initiative; 1.50A {Mycobacterium tuberculosis} SCOP: d.58.28.1 Length = 203 Score = 27.6 bits (61), Expect = 3.4 Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 6/49 (12%) Query: 132 KKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDI-----DYLKKNTNR 175 K++A TIA + A E SP DF++ DYL++ N Sbjct: 125 KRIALDTIADVEASGLWPGKVVTEVSP-AGDFWEAEPEHQDYLQRYPNG 172 >2j6i_A Formate dehydrogenase; oxidoreductase, D-specific-2- hydroxy acid dehydrogenase, cofactor regenerator, yeast, CBFDH; HET: PG4; 1.55A {Candida boidinii} PDB: 2fss_A Length = 364 Score = 27.6 bits (60), Expect = 3.7 Identities = 9/50 (18%), Positives = 14/50 (28%) Query: 11 SPLHPILLARLTGKLGDKKTIEKISSSLGYLYKKFLPKIFKEKMDLDVDI 60 + L KLG ++ L K ++ D DI Sbjct: 14 AADEEKLYGCTENKLGIANWLKDQGHELITTSDKEGGNSVLDQHIPDADI 63 >3ld7_A LIN0431 protein; DUF1312, PF07009, LKR112, NESG, structural genomics, PSI-2, protein structure initiative; 1.55A {Listeria innocua} Length = 101 Score = 27.8 bits (62), Expect = 3.8 Identities = 10/33 (30%), Positives = 14/33 (42%) Query: 271 EKTCAILSANGKEIYSCELGRVGKNYTIRITDR 303 ++ AI+S NGK I L N I + Sbjct: 6 DEVVAIISQNGKVIREIPLTGHKGNEQFTIKGK 38 >3f1s_A Protein Z-dependent protease inhibitor; PZ, ZPI, complex, serpin, protease inhibitor, protease, glycoprotein, polymorphism, secreted; HET: FLC NAG; 2.30A {Homo sapiens} Length = 385 Score = 27.5 bits (60), Expect = 3.9 Identities = 15/100 (15%), Positives = 29/100 (29%), Gaps = 1/100 (1%) Query: 70 FSHIIHSFKENFVFSQASLSSWSSNFFIGCSNNLVITLLENL-LGASHETIPQLYNRSLS 128 I N VFS +S + +G + + L L A T P L Sbjct: 28 LRKISMRHDGNMVFSPFGMSLAMTGLMLGATGPTETQIKRGLHLQALKPTKPGLLPSLFK 87 Query: 129 TVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDIDY 168 + + L++ ++ I + + + Sbjct: 88 GLRETLSRNLELGLTQGSFAFIHKDFDVKETFFNLSKRYF 127 >1sek_A Serpin K; serine protease inhibitor, protease; 2.10A {Manduca sexta} SCOP: e.1.1.1 PDB: 1k9o_I Length = 378 Score = 27.5 bits (60), Expect = 4.1 Identities = 14/120 (11%), Positives = 34/120 (28%), Gaps = 6/120 (5%) Query: 70 FSHIIHSFK-ENFVFSQASLSSWSSNFFIGCSNNLVITL--LENLLGASHETIPQLYNRS 126 FS ++ + +N V S S+ + + L L ++ + + Sbjct: 23 FSEVVKANPGQNVVLSAFSVLPPLGQLALASVGE---SHDELLRALALPNDNVTKDVFAD 79 Query: 127 LSTVEKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDIDYLKKNTNRLSNEFVTTINM 186 L+ + + + S + + + ++ S E IN Sbjct: 80 LNRGVRAVKGVDLKMASKIYVAKGLELNDDFAAVSRDVFGSEVQNVDFVKSVEAAGAINK 139 >2r9y_A Alpha-2-antiplasmin; inhibitory serpin, plasmin inhibitor, acute phase, glycoprotein, protease inhibitor, secreted, serine protease inhibitor; 2.65A {Mus musculus} Length = 430 Score = 27.1 bits (59), Expect = 5.4 Identities = 16/75 (21%), Positives = 29/75 (38%), Gaps = 3/75 (4%) Query: 78 KENFVFSQASLSSWSSNFFIGCSNNLVITLLENLLGASHETIPQL---YNRSLSTVEKKL 134 N V S S++ S+ +G N + +L L + +P L + ++L +L Sbjct: 42 SSNLVLSPLSVALALSHLALGAQNQTLHSLHRVLHMNTGSCLPHLLSHFYQNLGPGTIRL 101 Query: 135 AKRTIAQISAVLNQC 149 A R Q + Sbjct: 102 AARIYLQKGFPIKDD 116 >2qrv_A DNA (cytosine-5)-methyltransferase 3A; DNA methyltransferase 3A (DNMT3A) and ITS regulatory factor; HET: DNA SAH; 2.89A {Homo sapiens} Length = 295 Score = 27.2 bits (59), Expect = 5.6 Identities = 6/88 (6%), Positives = 19/88 (21%), Gaps = 2/88 (2%) Query: 228 IDPFARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSC 287 + + + + + + ++ + C LS Sbjct: 48 VCEDSITVGMVR-HQGKIMYVGDVRSVTQKHIQEWGPFDLVIGGSPCNDLSIVNPARKGL 106 Query: 288 ELGRVGKNY-TIRITDRINFDQKSLKNF 314 G + R+ + + F Sbjct: 107 YEGTGRLFFEFYRLLHDARPKEGDDRPF 134 >2kpp_A LIN0431 protein; solution structure, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Listeria innocua} Length = 114 Score = 26.7 bits (59), Expect = 7.2 Identities = 10/33 (30%), Positives = 14/33 (42%) Query: 271 EKTCAILSANGKEIYSCELGRVGKNYTIRITDR 303 ++ AI+S NGK I L N I + Sbjct: 6 DEVVAIISQNGKVIREIPLTGHKGNEQFTIKGK 38 >3b8c_A ATPase 2, plasma membrane-type; P-type ATPase, proton pump, ATP-binding, hydrogen ION transport, hydrolase, ION transport; HET: ACP; 3.60A {Arabidopsis thaliana} Length = 885 Score = 26.7 bits (58), Expect = 7.7 Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 7/77 (9%) Query: 190 IENVASSFVLIIPQETLLKTTLISLSSQNKSENQSEDLIDPFARKTYQLNVNIDTRINLK 249 + V +L+I + IS +N + N + L+ A KT L + Sbjct: 94 QDFVGIICLLVI-------NSTISFIEENNAGNAAAALMAGLAPKTKVLRDGKWSEQEAA 146 Query: 250 KTTLKDVVTLKIGQVIP 266 D+V++K+G +IP Sbjct: 147 ILVPGDIVSIKLGDIIP 163 >3me5_A Cytosine-specific methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 1.75A {Shigella flexneri 2A} PDB: 3lx6_A Length = 482 Score = 26.3 bits (57), Expect = 8.0 Identities = 8/45 (17%), Positives = 15/45 (33%) Query: 228 IDPFARKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREK 272 + A +TY+ N D + ++D+ V E Sbjct: 118 WNKHAVRTYKANHYCDPATHHFNEDIRDITLSHQEGVSDEAAAEH 162 >2v95_A Corticosteroid-binding globulin; transport protein, CBG, RCL, serpin, secreted, transport, glycoprotein, lipid-binding, glucocorticoids; HET: HCY; 1.93A {Rattus norvegicus} Length = 371 Score = 26.4 bits (57), Expect = 8.2 Identities = 17/111 (15%), Positives = 34/111 (30%), Gaps = 8/111 (7%) Query: 79 ENFVFSQASLSSWSSNFFIGCSNN-LVITLLENLLGASHETIPQLY-------NRSLSTV 130 +N + S S+S + +G + + +L NL S I Q + +S + + Sbjct: 31 KNTLISPVSISMALAMVSLGSAQTQSLQSLGFNLTETSEAEIHQSFQYLNYLLKQSDTGL 90 Query: 131 EKKLAKRTIAQISAVLNQCISTTQESSPNLEDFYDIDYLKKNTNRLSNEFV 181 E + L + E ++ N+ V Sbjct: 91 EMNMGNAMFLLQKLKLKDSFLADVKQYYESEALAIDFEDWTKASQQINQHV 141 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 0.132 0.365 Gapped Lambda K H 0.267 0.0538 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,501,897 Number of extensions: 109600 Number of successful extensions: 339 Number of sequences better than 10.0: 1 Number of HSP's gapped: 338 Number of HSP's successfully gapped: 40 Length of query: 318 Length of database: 5,693,230 Length adjustment: 92 Effective length of query: 226 Effective length of database: 3,462,782 Effective search space: 782588732 Effective search space used: 782588732 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 (21.7 bits) S2: 57 (26.2 bits)