RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781009|ref|YP_003065422.1| hypothetical protein CLIBASIA_04555 [Candidatus Liberibacter asiaticus str. psy62] (750 letters) >2o8s_A AGR_C_984P; all alpha-helical protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Agrobacterium tumefaciens str} SCOP: a.295.1.1 Length = 323 Score = 187 bits (475), Expect = 1e-47 Identities = 63/276 (22%), Positives = 110/276 (39%), Gaps = 22/276 (7%) Query: 416 LTSNPSDPDSYANKSKDDRLIKLNHAFNFNADGSIGPIPMMQSRLTIRDNVKHYANRKRS 475 L++ P P S S K +S Y + + Sbjct: 13 LSAMPPAPPSPQPVSH-----KQAATLCRQGRTCALKSGSNESG---GSVTSTYTSYRLI 64 Query: 476 IHDAENKSFNSMEQISTQKRINLEINSEVDYYTLNINTIHSFEELLANKRILNFLLESKG 535 D S+E++S Q ++ E +YY I ++ S ++ +A+ R+ N+ L++ G Sbjct: 65 SQDIGK----SLERVSKQP----DVARETEYYREKIGSVKSIDDFMADTRLYNYALKAHG 116 Query: 536 IDSQKVREDFLCEIFKSDLKDPKSFANTYKDNRYKEIISSFNFDIHGELSHKKIGKVQDN 595 ++ + F+ ++ D +FAN DNRY E+ S +F G Sbjct: 117 LEDMAYAKAFIRKVLTEGASDKNAFANKLSDNRYAELAKSLDFAGLGA------AATATE 170 Query: 596 FHIDDTCDLYKHQMIEKKEEEKDPNIALALYFKRTIPNIRNHYEILGDSKLFKVVSKKLK 655 Y Q +E++ + + + LALYF+R P I++ + L D L +V Sbjct: 171 AAKSGVIGNYARQTLEQEAGDDNNGVRLALYFERKAPTIKSGLDFLADDALAQVFRTTFN 230 Query: 656 LSPYFAVLPERKKIRILKKHIKINDFKDSKKVEDFL 691 L FA K+ +++K I I D +D +KV L Sbjct: 231 LPDAFAAADVDKQAALIEKSINIKDLQDPEKVGKLL 266 Score = 162 bits (411), Expect = 3e-40 Identities = 58/218 (26%), Positives = 95/218 (43%), Gaps = 18/218 (8%) Query: 17 KLFSTVSKDPIVSCEERYYRERIKHISTIDEFIKDKRLFSYALKAFGLSDMSHAEKFIKK 76 K VSK P V+ E YYRE+I + +ID+F+ D RL++YALKA GL DM++A+ FI+K Sbjct: 70 KSLERVSKQPDVARETEYYREKIGSVKSIDDFMADTRLYNYALKAHGLEDMAYAKAFIRK 129 Query: 77 ILESDLSDPKSLVNQLNSLKYQYFARSYDFSPPP-KVIQSDIQHKTIIQDYKQSH----Q 131 +L SD + N+L+ +Y A+S DF+ ++ +I +Y + Sbjct: 130 VLTEGASDKNAFANKLSDNRYAELAKSLDFAGLGAAATATEAAKSGVIGNYARQTLEQEA 189 Query: 132 HKEEVALEESKYFRKNIHKINSVDQLFKDRRLLDYVLQSFSITPKYISLPFLKD------ 185 + + + YF + I S D L +F++ + + K Sbjct: 190 GDDNNGVRLALYFERKAPTIKSGLDFLADDALAQVFRTTFNLPDAFAAADVDKQAALIEK 249 Query: 186 -VLTLGLANPKK--YFIESRDNRFRAMAENFRFQPDGS 220 + L +P+K + RF M E Sbjct: 250 SINIKDLQDPEKVGKLL----ERFTIMWEMQNPSTTYD 283 Score = 104 bits (260), Expect = 8e-23 Identities = 36/166 (21%), Positives = 71/166 (42%), Gaps = 3/166 (1%) Query: 122 IIQDYKQSHQH--KEEVALEESKYFRKNIHKINSVDQLFKDRRLLDYVLQSFSITPKYIS 179 I QD +S + K+ E++Y+R+ I + S+D D RL +Y L++ + + Sbjct: 64 ISQDIGKSLERVSKQPDVARETEYYREKIGSVKSIDDFMADTRLYNYALKAHGLEDMAYA 123 Query: 180 LPFLKDVLTLGLANPKKYFIESRDNRFRAMAENFRFQPDGSLSKRDKILTDMQIEKIVSN 239 F++ VLT G ++ + + DNR+ +A++ F G+ + + I Sbjct: 124 KAFIRKVLTEGASDKNAFANKLSDNRYAELAKSLDFAGLGAAATATEAAKSGVIGNYARQ 183 Query: 240 YFNNTIDCV-PIVSDQNYYKLAINSVSSFSDFLKDPKLFKMLQLSL 284 V Y++ ++ S DFL D L ++ + + Sbjct: 184 TLEQEAGDDNNGVRLALYFERKAPTIKSGLDFLADDALAQVFRTTF 229 Score = 89.9 bits (223), Expect = 2e-18 Identities = 40/210 (19%), Positives = 79/210 (37%), Gaps = 40/210 (19%) Query: 357 IKDYQLPLGKIKSIDNLLSGKCQLEGPNSAEEPIITLQFALDAYNLNMQDLDRDQLRNVL 416 + Y+ +G +KSID+ ++ +L +AL A+ L + +R VL Sbjct: 85 TEYYREKIGSVKSIDDFMADT-RL------------YNYALKAHGLEDMAYAKAFIRKVL 131 Query: 417 TSNPSDPDSYANKSKDDRLIKLNHAFNFNADGSIGPIPMMQSRLTIRDNVKHYANRKRSI 476 T SD +++ANK D+R +L + +F G+ + + +Y ++++ Sbjct: 132 TEGASDKNAFANKLSDNRYAELAKSLDFAGLGA----AATATEAAKSGVIGNY--ARQTL 185 Query: 477 HDAENKSFNSMEQISTQKRINLEINSEVDYYTLNINTIHSFEELLANKRILNFLLESKGI 536 N + R+ L Y+ TI S + LA+ + + + Sbjct: 186 EQEAGDDNNGV-------RLAL-------YFERKAPTIKSGLDFLADDALAQVFRTTFNL 231 Query: 537 DSQKVREDFL--CEIFK-----SDLKDPKS 559 D + + DL+DP+ Sbjct: 232 PDAFAAADVDKQAALIEKSINIKDLQDPEK 261 Score = 49.1 bits (117), Expect = 4e-06 Identities = 17/84 (20%), Positives = 28/84 (33%), Gaps = 7/84 (8%) Query: 34 YYRERIKHISTIDEFIKDKRLFSYALKAFGLSDMS-------HAEKFIKKILESDLSDPK 86 Y+ + I + +F+ D L F L D A K I DL DP+ Sbjct: 201 YFERKAPTIKSGLDFLADDALAQVFRTTFNLPDAFAAADVDKQAALIEKSINIKDLQDPE 260 Query: 87 SLVNQLNSLKYQYFARSYDFSPPP 110 + L + ++ + P Sbjct: 261 KVGKLLERFTIMWEMQNPSTTYDP 284 >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 = 58.8 bits (142), Expect = 5e-09 Identities = 101/676 (14%), Positives = 170/676 (25%), Gaps = 321/676 (47%) Query: 2 IPSHVAPFPS-------KDIQSKLFSTVSKDPIVSCEE---RY--Y---RERIKHISTID 46 +P+ S K + + D + E ++ Y + D Sbjct: 22 VPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFD 81 Query: 47 EFIKDKRLFSYALKAF-----GLSDMSHAEKFIKKILESDLSDPKSLVNQLNSLKYQYFA 101 + + L F +D+ HA K+L+ + +LV +K A Sbjct: 82 QVLN------LCLTEFENCYLEGNDI-HA--LAAKLLQEN---DTTLVKTKELIKNYITA 129 Query: 102 RSYDFSPPPKVIQSDIQHKTIIQDYKQSHQHKEEVALEESKYFR---KNIHKINSV---- 154 R P K S AL FR + ++ ++ Sbjct: 130 RIMAKRPFDKKSNS---------------------AL-----FRAVGEGNAQLVAIFGGQ 163 Query: 155 ---DQLFKDRRLLDYVLQSFSITPKYISLPFLKDVLTLGLANPKKYFIESRDNRFRAMAE 211 D F++ R L + + D I+ AE Sbjct: 164 GNTDDYFEELRDL------YQTYH-----VLVGD------------LIKF-------SAE 193 Query: 212 NFRFQPDGSLSKRDKILTDMQIEKIVSNYFN-----NTIDCVPIVSDQNYYKLAINSVS- 265 L + T + EK+ + N P D++Y L S+ Sbjct: 194 TLS-----ELIR-----TTLDAEKVFTQGLNILEWLENPSNTP---DKDY--LL--SIPI 236 Query: 266 SFSDFLKDPKLFKMLQLSLFP-------LNP-E---------------ITA--------- 293 S P L ++QL+ + P E +TA Sbjct: 237 SC------P-LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW 289 Query: 294 DKFLTLMQENDPIVSQVKYFFQINF--HR---DNSSSTKIQQDS---------------- 332 + F ++ + F I + + S I +DS Sbjct: 290 ESFFVSVR------KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN 343 Query: 333 ----QIQKMLDLYKKNCQILHDDKMQSLIKDYQLPLGKIKSIDNL-LSGKCQLEGPNSAE 387 Q+Q ++ K N L K Q+ + + NL +SG Sbjct: 344 LTQEQVQDYVN--KTN-SHLPAGK--------QVEISLVNGAKNLVVSG----------- 381 Query: 388 EPIITLQFALDAYNLNMQDLDRDQLRNVLTSNPSDPDSYANKSKDDRLIKLNHAFNFNAD 447 P +L Y LN+ LR PS D Sbjct: 382 -PPQSL------YGLNL------TLRKA--KAPSGLD----------------------- 403 Query: 448 GSIGPIPMMQSRLTIRDNVKHYANRKRSIHDAENKSFNSMEQISTQKRINLEINSEVDYY 507 QSR+ ++ RK N+ F Sbjct: 404 ---------QSRI-------PFSERKLKFS---NR-F----------------------- 420 Query: 508 TLNINT-IHSFEELLANKRILNFLLESKGIDSQKVREDFLCEIFK---SDLKDPKSFANT 563 L + + HS LL S + +D + D++ P + +T Sbjct: 421 -LPVASPFHS--HLLVPA-------------SDLINKDLVKNNVSFNAKDIQIP-VY-DT 462 Query: 564 Y--KDNR-YKE-IISS 575 + D R I Sbjct: 463 FDGSDLRVLSGSISER 478 Score = 46.5 bits (110), Expect = 2e-05 Identities = 60/384 (15%), Positives = 101/384 (26%), Gaps = 185/384 (48%) Query: 8 PFPSKDIQSKLFSTVSKD--PIVS------CEERYYRERIKHI-STIDEFIKD------K 52 PF K S LF V + +V+ + Y+ E ++ + T + D + Sbjct: 136 PFD-KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEE-LRDLYQTYHVLVGDLIKFSAE 193 Query: 53 RLFSYALKAFGLSDMSHAEKFIKKILE-------------SD--LSDPKSL----VNQL- 92 L AEK + L D LS P S V QL Sbjct: 194 TLSELI------RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLA 247 Query: 93 -----------------------------------------------NSLK--------- 96 + K Sbjct: 248 HYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG 307 Query: 97 ---YQYFARSYDFSPPPKVIQSDIQH---------------KTIIQDY-KQSHQHKEEVA 137 Y+ + + S PP +++ +++ + +QDY +++ H Sbjct: 308 VRCYEAYPNT---SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH----- 359 Query: 138 LEESKYFRKNIHKINSVDQL-----------FKDRRL--------LDYVLQS---FS--- 172 L K + I +N L + L LD QS FS Sbjct: 360 LPAGK--QVEISLVNGAKNLVVSGPPQSLYGL-NLTLRKAKAPSGLD---QSRIPFSERK 413 Query: 173 --ITPKY--ISLPF----LKDVLTLGLANPKKYFIESRDNRFRAM-----------AENF 213 + ++ ++ PF L L + + + F A + Sbjct: 414 LKFSNRFLPVASPFHSHLLVPASDLINKD-----LVKNNVSFNAKDIQIPVYDTFDGSDL 468 Query: 214 RFQPDGSLSKRDKILTDMQIEKIV 237 R GS+S+R + D I V Sbjct: 469 R-VLSGSISER---IVDCIIRLPV 488 Score = 39.9 bits (93), Expect = 0.002 Identities = 46/342 (13%), Positives = 84/342 (24%), Gaps = 137/342 (40%) Query: 344 NCQILHDDKMQSLIKDYQLPLG--KIKSIDNLLSG-------KCQLEGPNSAEEPIITLQ 394 L + + L + + + + L+ + ++ L Sbjct: 29 IASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQ---VLN 85 Query: 395 FALDAYNLNMQDLDRDQLRN-----VLTSNPSDPDSYANKSKDDRLIKLNHAFNFNADGS 449 L + L + + D+ K+K LIK A Sbjct: 86 LCLTEFE-------NCYLEGNDIHALAAKLLQENDTTLVKTK--ELIKNYITARIMAKRP 136 Query: 450 IGPIPMMQSRL---TIRDNVKHYANRKRSIHDAENKSFNSMEQISTQKRINLEINSEVDY 506 S L N + A I F Q N++ DY Sbjct: 137 FDKKS--NSALFRAVGEGNAQLVA-----I-------FGG------QG------NTD-DY 169 Query: 507 YTLNINTIHSFEELLANKRILNFLLESKGIDSQKVREDFLCEIFKSDLKDPKSFANTYKD 566 FEEL R+ ++ TY Sbjct: 170 ----------FEEL---------------------RD-----LY-----------QTYHV 182 Query: 567 NRYKEIISS----FNFDIHGELSHKKIGKVQDNFHIDDTCDLYKHQM-IEK--KEEEKDP 619 ++I + EL + D ++ + I + + P Sbjct: 183 L-VGDLIKFSAETLS-----ELI-------RTT---LDAEKVFTQGLNILEWLENPSNTP 226 Query: 620 NIA-LALYFKRTIPNIRNHYEILGDSKL--FKVVSKKLKLSP 658 + L +IP I ++G +L + V +K L +P Sbjct: 227 DKDYLL-----SIP-IS--CPLIGVIQLAHYVVTAKLLGFTP 260 Score = 38.0 bits (88), Expect = 0.007 Identities = 21/154 (13%), Positives = 39/154 (25%), Gaps = 57/154 (37%) Query: 516 SFEELLANKRILNFLLESKGIDSQKVREDFLCEIFKSDLKDPKSFANTYKDNRYKEIISS 575 + EL+ + L ++ + L L + F N Y + Sbjct: 56 TPAELVG--KFLGYVSSLVEPSKVGQFDQVL----NLCLTE---FENCYLEGN------- 99 Query: 576 FNFDIHGELSHKKIGKVQDNFHIDDTCDLYKHQMIEKKEEEKDPNIALALYFK------R 629 DIH + ++ L K + + + Y R Sbjct: 100 ---DIHALAAK---------LLQENDTTLVKTKEL------------IKNYITARIMAKR 135 Query: 630 TIPNIRNHYEILGDSKLFK-VVSKKLKLSPYFAV 662 +S LF+ V +L A+ Sbjct: 136 PFDKKS-------NSALFRAVGEGNAQL---VAI 159 Score = 28.4 bits (63), Expect = 6.3 Identities = 24/115 (20%), Positives = 46/115 (40%), Gaps = 33/115 (28%) Query: 474 RSIHDAENKSFNSMEQISTQKRINLEINSEVDYYTLNINTIHSFEELLANKRILNFLLES 533 ++ D N++ N + +++ IN+ V+ TIH E Sbjct: 1640 KAAQDVWNRADNHFKDTYGFSILDIVINNPVNL------TIHFGGE-------------- 1679 Query: 534 KGIDSQKVREDFLCEIFKS----DLKDPKSF------ANTYKDNRYKEIISSFNF 578 KG +++RE++ IF++ LK K F + +Y K ++S+ F Sbjct: 1680 KG---KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF 1731 >1pov_0 Poliovirus native empty capsid (type 1); picornavirus, icosahedral virus; HET: MYR SPH; 2.80A {Human poliovirus 1 mahoney} SCOP: b.121.4.1 Length = 340 Score = 31.0 bits (70), Expect = 0.97 Identities = 18/84 (21%), Positives = 30/84 (35%), Gaps = 21/84 (25%) Query: 236 IVSNYFNNTIDCVPIVSDQNYYKLAINSVSSFSDFLKDP----KLFKMLQLSLFPLNPEI 291 NY NYY+ + ++ +S DF +DP + K + + P+ Sbjct: 22 STINYTT-----------INYYRDSASNAASKQDFSQDPSKFTEPIKDVLIKTAPMLNSP 70 Query: 292 TA------DKFLTLMQENDPIVSQ 309 D+ L L N I +Q Sbjct: 71 NIEACGYSDRVLQLTLGNSTITTQ 94 >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 = 29.6 bits (65), Expect = 2.5 Identities = 10/31 (32%), Positives = 13/31 (41%), Gaps = 8/31 (25%) Query: 329 QQDSQIQKMLDLYKKNCQILHDDKMQSL-IK 358 Q ++Q L LY DD +L IK Sbjct: 20 QALKKLQASLKLYA-------DDSAPALAIK 43 Score = 28.0 bits (61), Expect = 6.9 Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 6/34 (17%) Query: 86 KSLVNQLN-SLKYQYFARSYDFSPPPKVIQSDIQ 118 K + +L SLK +A D S P I++ ++ Sbjct: 19 KQALKKLQASLKL--YA---DDSAPALAIKATME 47 >3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Score = 29.1 bits (64), Expect = 3.6 Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 16/80 (20%) Query: 185 DVLTLGLANPKKYFIESR------DNRFRAMAENFRFQPDGSLSKRDKILTDMQIEKIVS 238 D LT + +K+ E R D + M + +R + L + ++ ++ Q+EK Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE-QVEK--- 133 Query: 239 NYFNNTIDCVPIVSDQNYYK 258 N NN I +D+ +Y+ Sbjct: 134 NKINNRI------ADKAFYQ 147 >1ucu_A Phase 1 flagellin; flagellar filament, cryo-electron microscopy, helical reconstruction, structural protein; 4.00A {Salmonella typhimurium} SCOP: e.32.1.1 Length = 494 Score = 28.9 bits (63), Expect = 3.7 Identities = 5/24 (20%), Positives = 16/24 (66%) Query: 474 RSIHDAENKSFNSMEQISTQKRIN 497 +++ +++ ++E++S+ RIN Sbjct: 15 NNLNKSQSALGTAIERLSSGLRIN 38 >3k8w_A Flagellin homolog; flagellum, structural protein, bacterial flagellu; 1.70A {Sphingomonas SP} PDB: 2zbi_A 3k8v_A Length = 326 Score = 28.9 bits (63), Expect = 4.4 Identities = 5/13 (38%), Positives = 10/13 (76%) Query: 485 NSMEQISTQKRIN 497 S++++S+ RIN Sbjct: 7 TSLQRLSSGLRIN 19 >3l0a_A Putative exonuclease; RER070207002219, structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: PE4; 2.19A {Eubacterium rectale} Length = 266 Score = 28.1 bits (62), Expect = 6.4 Identities = 16/104 (15%), Positives = 33/104 (31%), Gaps = 7/104 (6%) Query: 251 VSDQNYYKLAIN----SVSSFSDFLKDPKLFKMLQLSLFPLNPEITADKFLTLMQEN--- 303 ++ +NYY N SVS + DF + LN +K L+ + Sbjct: 4 LTSENYYSQEANKEYMSVSGYKDFAGTYGKMPCEFYGMEKLNGRWEDEKSTALLVGSYVD 63 Query: 304 DPIVSQVKYFFQINFHRDNSSSTKIQQDSQIQKMLDLYKKNCQI 347 + F + N Q ++++ +++ Sbjct: 64 SYFEGSLDQFKKDNPEIFTQKGELKANFKQAEEIIARIERDEYF 107 >1wy5_A TILS, hypothetical UPF0072 protein AQ_1887; N-type ATP-ppase, structural genomics, translation, NPPSFA; 2.42A {Aquifex aeolicus} SCOP: c.26.2.5 d.229.1.1 PDB: 2e21_A* 2e89_A* Length = 317 Score = 28.0 bits (61), Expect = 7.9 Identities = 22/124 (17%), Positives = 49/124 (39%), Gaps = 6/124 (4%) Query: 579 DIHGELSHKKIGKVQDNFHIDDTCDLYKHQM-IEKKEEEKDPNIALALYFKRTIPNIRNH 637 +I K + V+D + + + + + + + + + N+ F + + +R Sbjct: 176 EIEEYAKFKGLRWVEDETNYEVSIPRNRIRHRVIPELKRINENLEDT--FLKMVKVLRAE 233 Query: 638 YEILGD--SKLFKVVSKKLKLS-PYFAVLPERKKIRILKKHIKINDFKDSKKVEDFLYAA 694 E L + KL+K V K L P + R+++K I D++ + V L Sbjct: 234 REFLEEEAQKLYKEVKKGNCLDVKKLKEKPLALQRRVIRKFIGEKDYEKVELVRSLLEKG 293 Query: 695 KAMD 698 ++ Sbjct: 294 GEVN 297 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 0.318 0.135 0.381 Gapped Lambda K H 0.267 0.0469 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 6,335,005 Number of extensions: 307023 Number of successful extensions: 891 Number of sequences better than 10.0: 1 Number of HSP's gapped: 882 Number of HSP's successfully gapped: 48 Length of query: 750 Length of database: 5,693,230 Length adjustment: 100 Effective length of query: 650 Effective length of database: 3,268,830 Effective search space: 2124739500 Effective search space used: 2124739500 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: 60 (27.5 bits)