RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780896|ref|YP_003065309.1| ABC transporter membrane spanning protein (branched chain amino acid) [Candidatus Liberibacter asiaticus str. psy62] (351 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 = 37.6 bits (87), Expect = 0.004 Identities = 22/148 (14%), Positives = 42/148 (28%), Gaps = 74/148 (50%) Query: 31 GATKS--QKYIDSMGIQIL-----IYVMFAWGLSIVVGSLGLLSLNCVIAYAIGAYSYVI 83 T+ Q Y++ L + + SL +N GA + V+ Sbjct: 343 NLTQEQVQDYVNKTN-SHLPAGKQVEI-----------SL----VN-------GAKNLVV 379 Query: 84 LG---SRYGLSIWL--------------------------LIPVSAMISGACGMIMGLPS 114 G S YGL++ L +PV++ P Sbjct: 380 SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS------------P- 426 Query: 115 LKFRGDYLAIATLIMSEIFQNILIKWKP 142 F L A+ ++++ + + Sbjct: 427 --FHSHLLVPASDLINKDLVKNNVSFNA 452 Score = 35.3 bits (81), Expect = 0.019 Identities = 18/70 (25%), Positives = 35/70 (50%), Gaps = 17/70 (24%) Query: 40 DSMGIQILIYVMFAWGLSIVVG---------SLGLLSLN---CVIAYAIGAYSYVI--LG 85 D M I+ L+ V+F G+++ V + G++++N +++ A YV+ +G Sbjct: 1775 DVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834 Query: 86 SRYGLSIWLL 95 R G WL+ Sbjct: 1835 KRTG---WLV 1841 Score = 33.4 bits (76), Expect = 0.075 Identities = 52/324 (16%), Positives = 90/324 (27%), Gaps = 129/324 (39%) Query: 25 LLFLFLGATKSQKYIDSMG--IQILIYVM------FAWGLSI--VVGSL------GLLSL 68 L+ FLG S +G Q+L + + G I + L L+ Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119 Query: 69 NCVI-AYAIGAYSYVILGSRYGLSIWLLIPVSAMISGACG---MIMGLPSLKFRG----- 119 +I Y + ++ + SA+ ++ + F G Sbjct: 120 KELIKNYI---TARIMAKRPFDK-----KSNSALFRAVGEGNAQLVAI----FGGQGNTD 167 Query: 120 DY---LAIATLIMSEIFQNILIKWKPITNGKAGIY---VADRLYFLGTTVRSLIRFFRFP 173 DY L +++Q Y V D + F T+ LI R Sbjct: 168 DYFEELR-------DLYQ---------------TYHVLVGDLIKFSAETLSELI---RTT 202 Query: 174 SSFVIYEIFMYYVLLGMCFLSASIILWLRR------------TAISNAWRTIRDNQKAFF 221 ++ G+ L WL IS Sbjct: 203 LDA----EKVFT--QGLNILE-----WLENPSNTPDKDYLLSIPIS-------------C 238 Query: 222 SLNTTIIFAKLSAFAVSSAFIGMA-GAFFAASRDRISPDMFKF-----SENIIVISIVIL 275 L I +L+ + V++ +G G R + S+ ++ ++ I Sbjct: 239 PL---IGVIQLAHYVVTAKLLGFTPGEL----RSYLK------GATGHSQGLVT-AVAIA 284 Query: 276 GGMT--SLSKIA-KATAIL--IGV 294 + S KA +L IGV Sbjct: 285 ETDSWESFFVSVRKAITVLFFIGV 308 Score = 31.5 bits (71), Expect = 0.30 Identities = 62/332 (18%), Positives = 96/332 (28%), Gaps = 146/332 (43%) Query: 28 LFLGAT-KSQKYIDSMGIQILIYVMFA----WGLSIVVGSLGLLSLNCV-IAYAIGAYSY 81 GAT SQ G+ + V A W S + + + + IG Y Sbjct: 266 YLKGATGHSQ------GL--VTAVAIAETDSWE------SFFVSVRKAITVLFFIGVRCY 311 Query: 82 VILGSRYG-LSIWLLIPVSAMI--SGACGMIMGLPS--LKFRGDYLAIATLIMSEIFQNI 136 Y S+ +++ S G+PS L L + Q+ Sbjct: 312 ----EAYPNTSLP-----PSILEDSLENNE--GVPSPMLSISN--LTQEQV------QDY 352 Query: 137 LIKWKPITNGKAGIYVAD--RLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYV------LL 188 + K TN ++ ++ SL+ + V V L Sbjct: 353 VNK----TNS----HLPAGKQVEI------SLVNG---AKNLV--------VSGPPQSLY 387 Query: 189 GMCFLSASIILWLRRTAISNAWRTIRDNQKAFFSLNTT-IIFA--KLS---AF-AVSSAF 241 G+ L LR+ KA L+ + I F+ KL F V+S F Sbjct: 388 GLN-------LTLRK-------------AKAPSGLDQSRIPFSERKLKFSNRFLPVASPF 427 Query: 242 ---------------IGMAGAFFAASRDRISP--------DMFKFSENIIVISIVILGGM 278 + F A +I P D+ S +I IV + Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKDIQI-PVYDTFDGSDLRVLSGSISE-RIVDC--I 483 Query: 279 TSLS---KIA---KATAIL---------IGVV 295 L + KAT IL +GV+ Sbjct: 484 IRLPVKWETTTQFKATHILDFGPGGASGLGVL 515 >2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between N-terminal and C- terminal domain of kinase, cell cycle/transferase complex; HET: AP9; 2.80A {Herpesvirus saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A* 1xo2_A* 1bu2_A Length = 254 Score = 31.6 bits (71), Expect = 0.28 Identities = 16/95 (16%), Positives = 31/95 (32%), Gaps = 2/95 (2%) Query: 259 DMFKFSENIIVISIVILGGMTSLSKIAKATAILIGVVEL--CCGMNFYYFNSLLKFDCSF 316 + F+ +++ +S+ IL + K T IG + + ++ K Sbjct: 64 ESFELDKSVFPLSVSILDRYLCKKQGTKKTLQKIGAACVLIGSKIRTVKPMTVSKLTYLS 123 Query: 317 NMRHTTLMVIALFLVILMRSHSLLRLRTPSNFLER 351 T L +I IL ++FL Sbjct: 124 CDCFTNLELINQEKDILEALKWDTEAVLATDFLIP 158 >2c9k_A Pesticidal crystal protein CRY4AA; toxin, insect toxin, bioinsecticicide, pore formation, receptor recognition, sporulation; 2.8A {Bacillus thuringiensis} Length = 612 Score = 30.4 bits (68), Expect = 0.64 Identities = 14/102 (13%), Positives = 34/102 (33%), Gaps = 1/102 (0%) Query: 131 EIFQNILIKWKPITNGKAGIYVADRLYFLGTTVRSLIRFFRFPSSFVIYEIFMYYVLLGM 190 + N L W+ N + V ++ + +++I + Y +L+ Sbjct: 82 STYHNHLKTWENNPNPQNTQDVRTQIQLVHYHFQNVIPELVNSCPPNPSDCDYYNILVLS 141 Query: 191 CF-LSASIILWLRRTAISNAWRTIRDNQKAFFSLNTTIIFAK 231 + +A++ L + A+ + Q + T I Sbjct: 142 SYAQAANLHLTVLNQAVKFEAYLKNNRQFDYLEPLPTAIDYY 183 >3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation, ATP- binding, cell division, disease mutation, kinase, nucleotide-binding; 3.00A {Homo sapiens} Length = 306 Score = 30.1 bits (67), Expect = 0.74 Identities = 14/95 (14%), Positives = 32/95 (33%), Gaps = 2/95 (2%) Query: 259 DMFKFSENIIVISIVILGGMTSLSKIAKATAILIGVV--ELCCGMNFYYFNSLLKFDCSF 316 + + E + +++ L S KA L+G V L + ++ K Sbjct: 83 EEQRCEEEVFPLAMNYLDRYLSCVPTRKAQLQLLGAVCMLLASKLRETTPLTIEKLCIYT 142 Query: 317 NMRHTTLMVIALFLVILMRSHSLLRLRTPSNFLER 351 + + + +++L + L +FL Sbjct: 143 DHAVSPRQLRDWEVLVLGKLKWDLAAVIAHDFLAF 177 >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 = 30.0 bits (66), Expect = 0.83 Identities = 9/19 (47%), Positives = 10/19 (52%), Gaps = 5/19 (26%) Query: 114 SLKFRGD----YLAI-ATL 127 SLK D LAI AT+ Sbjct: 28 SLKLYADDSAPALAIKATM 46 >2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase, chromosomal rearrangement, ATP-binding, transferase, polymorphism, cell division; 2.30A {Homo sapiens} PDB: 2w99_A 2w9f_A 2w9z_A Length = 271 Score = 27.8 bits (61), Expect = 3.4 Identities = 16/95 (16%), Positives = 36/95 (37%), Gaps = 2/95 (2%) Query: 259 DMFKFSENIIVISIVILGGMTSLSKIAKATAILIGVVEL--CCGMNFYYFNSLLKFDCSF 316 + K E + +++ L SL + K+ L+G + M + K Sbjct: 69 EEQKCEEEVFPLAMNYLDRFLSLEPVKKSRLQLLGATCMFVASKMKETIPLTAEKLCIYT 128 Query: 317 NMRHTTLMVIALFLVILMRSHSLLRLRTPSNFLER 351 + ++ + L+++ + L TP +F+E Sbjct: 129 DNSIRPEELLQMELLLVNKLKWNLAAMTPHDFIEH 163 >2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division), ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B* 1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B* 2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B* 1vyw_B* 2bkz_B* ... Length = 260 Score = 27.4 bits (60), Expect = 5.2 Identities = 13/95 (13%), Positives = 34/95 (35%), Gaps = 2/95 (2%) Query: 259 DMFKFSENIIVISIVILGGMTSLSKIAKATAILIGVVEL--CCGMNFYYFNSLLKFDCSF 316 + +K + +++ + S + + L+G + Y + +F Sbjct: 51 EEYKLQNETLHLAVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYIT 110 Query: 317 NMRHTTLMVIALFLVILMRSHSLLRLRTPSNFLER 351 + +T V+ + ++L L T + FL + Sbjct: 111 DDTYTKKQVLRMEHLVLKVLTFDLAAPTVNQFLTQ 145 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 0.333 0.144 0.433 Gapped Lambda K H 0.267 0.0497 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,933,586 Number of extensions: 133894 Number of successful extensions: 476 Number of sequences better than 10.0: 1 Number of HSP's gapped: 468 Number of HSP's successfully gapped: 57 Length of query: 351 Length of database: 5,693,230 Length adjustment: 93 Effective length of query: 258 Effective length of database: 3,438,538 Effective search space: 887142804 Effective search space used: 887142804 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 39 (21.6 bits) S2: 57 (26.3 bits)