RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254780196|ref|YP_003064609.1| hypothetical protein CLIBASIA_00405 [Candidatus Liberibacter asiaticus str. psy62] (125 letters) >3dl8_E Protein-export membrane protein SECG; RECA-type ATPase membrane protein translocation protein- protein complex, ATP-binding, cell membrane; 7.50A {Aquifex aeolicus} Length = 107 Score = 65.5 bits (160), Expect = 3e-12 Identities = 17/78 (21%), Positives = 31/78 (39%), Gaps = 5/78 (6%) Query: 1 MQIFLMVVHLIVVVGLVCVILIQSSDS---SAF--GSSSNFTSVRSTAHSLGRFTAILAF 55 M L+ + +I+ V L+ L+Q +AF G + V L + T L Sbjct: 1 MYYALLTLFVIIAVVLIISTLLQKGRGDVGAAFGGGMGQSIFGVGGVETILTKATYWLGA 60 Query: 56 FFFATSIALGMISRYTST 73 F ++ L +I + + Sbjct: 61 LFLVLALLLSVIPKEKGS 78 >2akh_X Protein-export membrane protein SECG; protein transport, translocation, transmembrane, transport; 14.90A {Escherichia coli} PDB: 2aki_X Length = 77 Score = 60.8 bits (148), Expect = 9e-11 Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 6/75 (8%) Query: 1 MQIFLMVVHLIVVVGLVCVILIQSSDSSA------FGSSSNFTSVRSTAHSLGRFTAILA 54 M L+VV LIV +GLV +I++Q + G+S+ + + + R TA+LA Sbjct: 1 MYEALLVVFLIVAIGLVGLIMLQQGKGADMGASFGAGASATLFGSSGSGNFMTRMTALLA 60 Query: 55 FFFFATSIALGMISR 69 FF S+ LG I+ Sbjct: 61 TLFFIISLVLGNINS 75 >3din_E Preprotein translocase subunit SECG; protein translocation, membrane protein, ATPase, ATP- binding, cytoplasm, inner membrane, nucleotide-binding; HET: ADP; 4.50A {Thermotoga SP} Length = 76 Score = 60.0 bits (146), Expect = 2e-10 Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 6/74 (8%) Query: 1 MQIFLMVVHLIVVVGLVCVILIQSSDSSA------FGSSSNFTSVRSTAHSLGRFTAILA 54 M+ F ++VH I+ V L+ ++ +Q S S G R + G+ T +L+ Sbjct: 1 MKTFFLIVHTIISVALIYMVQVQMSKFSELGGAFGSGGLHTVFGRRKGLDTGGKITLVLS 60 Query: 55 FFFFATSIALGMIS 68 FF + + + Sbjct: 61 VLFFVSCVVTAFVL 74 >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 = 32.2 bits (73), Expect = 0.033 Identities = 24/111 (21%), Positives = 36/111 (32%), Gaps = 48/111 (43%) Query: 15 GLVCVILIQSSDS-SAFGSSSNFTSVRSTAHSLGRFTAILAFFF--------FA-TSIAL 64 GLV + I +DS +F S AI FF + TS+ Sbjct: 276 GLVTAVAIAETDSWESFFVSVR--------------KAITVLFFIGVRCYEAYPNTSLPP 321 Query: 65 GMISRYTSTRYKDNMHRSLVDSIKDQGNDNFGDGS-SPKLDSVSAKSSSSV 114 ++ DS+ +N +G SP L S+S + V Sbjct: 322 SILE----------------DSL-----EN-NEGVPSPML-SISNLTQEQV 349 >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 = 31.9 bits (71), Expect = 0.040 Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 6/28 (21%) Query: 81 RSLVDSIKDQGNDNFGDGSSPKLDSVSA 108 + L S+K + D S+P L ++ A Sbjct: 23 KKLQASLK-----LYADDSAPAL-AIKA 44 >1muw_A Xylose isomerase; atomic resolution, disorder; 0.86A {Streptomyces olivochromogenes} SCOP: c.1.15.3 PDB: 1s5m_A* 1s5n_A* 2gyi_A* 1xyb_A* 1xyc_A* 1xya_A* 1xyl_A 1xym_A* 1dxi_A 1gw9_A* 1xib_A 1xic_A* 1xid_A* 1xie_A* 1xif_A* 1xig_A* 1xih_A* 1xii_A* 1xij_A 8xia_A* ... Length = 386 Score = 26.0 bits (57), Expect = 2.3 Identities = 10/19 (52%), Positives = 11/19 (57%) Query: 90 QGNDNFGDGSSPKLDSVSA 108 QG D FGD + P LD V Sbjct: 20 QGRDPFGDATRPALDPVET 38 >1xla_A D-xylose isomerase; isomerase(intramolecular oxidoreductse); 2.30A {Arthrobacter SP} SCOP: c.1.15.3 PDB: 1die_A* 1did_A 1xlb_A 1xlc_A* 1xld_A* 1xle_A 1xlf_A* 1xlg_A* 1xlh_A 1xli_A* 1xlj_A* 1xlk_A 1xll_A 1xlm_A* 4xia_A* 5xia_A* Length = 394 Score = 26.1 bits (57), Expect = 2.4 Identities = 8/19 (42%), Positives = 9/19 (47%) Query: 90 QGNDNFGDGSSPKLDSVSA 108 G D FG + LD V A Sbjct: 20 TGADPFGVATRKNLDPVEA 38 >1eys_L Photosynthetic reaction center; membrane protein complex, electron transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A {Thermochromatium tepidum} SCOP: f.26.1.1 Length = 280 Score = 25.4 bits (56), Expect = 3.3 Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 6/73 (8%) Query: 4 FLMVVHLIVVVGLVCVILIQS-SDSSAFGSSSNFTSVRSTAHSLGRFT-----AILAFFF 57 F + +V+ V +L+ + +G S+ V + + F + FF Sbjct: 129 FSFAIGAYLVLVFVRPLLMGAWGHGFPYGILSHLDWVSNVGYQFLHFHYNPAHMLAISFF 188 Query: 58 FATSIALGMISRY 70 F +AL M Sbjct: 189 FTNCLALSMHGSL 201 >1xim_A D-xylose isomerase; isomerase(intramolecular oxidoreductse); HET: XYL; 2.20A {Actinoplanes missouriensis} SCOP: c.1.15.3 PDB: 4xim_A 5xim_A* 6xim_A* 7xim_A 8xim_A* 9xim_A* 3xin_A 2xim_A* 5xin_A* 1xin_A* 1bhw_A* 2xin_A* 3xim_A* Length = 393 Score = 25.7 bits (56), Expect = 3.3 Identities = 9/19 (47%), Positives = 10/19 (52%) Query: 90 QGNDNFGDGSSPKLDSVSA 108 Q D FGD + LD V A Sbjct: 20 QARDAFGDATRTALDPVEA 38 >1bxb_A Xylose isomerase; xylose metabolism; 2.20A {Thermus thermophilus} SCOP: c.1.15.3 PDB: 1bxc_A Length = 387 Score = 25.3 bits (55), Expect = 3.6 Identities = 8/20 (40%), Positives = 10/20 (50%) Query: 89 DQGNDNFGDGSSPKLDSVSA 108 + G D FGD +LD V Sbjct: 19 NVGRDPFGDAVRERLDPVYV 38 >3bz1_B Photosystem II core light harvesting protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 1s5l_B* 1w5c_B* 2axt_B* 3bz2_B* 3a0b_B* 3a0h_B* 1izl_B* Length = 510 Score = 25.2 bits (55), Expect = 4.9 Identities = 12/41 (29%), Positives = 14/41 (34%), Gaps = 10/41 (24%) Query: 22 IQSSDSSAFGSSS-NFTSVRS---TAHSLGRFTAILAFFFF 58 I D+ S TS R AH A+ A FF Sbjct: 429 IFEFDTETLNSDGIFRTSPRGWFTFAH------AVFALLFF 463 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 0.320 0.129 0.347 Gapped Lambda K H 0.267 0.0513 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 864,790 Number of extensions: 30558 Number of successful extensions: 90 Number of sequences better than 10.0: 1 Number of HSP's gapped: 83 Number of HSP's successfully gapped: 18 Length of query: 125 Length of database: 5,693,230 Length adjustment: 81 Effective length of query: 44 Effective length of database: 3,729,466 Effective search space: 164096504 Effective search space used: 164096504 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 51 (23.9 bits)