RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781041|ref|YP_003065454.1| succinate dehydrogenase protein, cytochrome b subunit [Candidatus Liberibacter asiaticus str. psy62] (129 letters) >2h88_C Succinate dehydrogenase cytochrome B, large subunit; complex II, membrane protein, heme protein, iron sulfur protein, oxidoreductase, redox enzyme; HET: FAD BHG HEM UNL; 1.74A {Gallus gallus} PDB: 2h89_C* 1yq3_C* 1yq4_C* 2fbw_C* Length = 140 Score = 96.9 bits (241), Expect = 1e-21 Identities = 29/121 (23%), Positives = 53/121 (43%), Gaps = 2/121 (1%) Query: 5 KNNRPLSPHLQIYRLIPTMFVSIVHRITGSVVYLGTPVVVFWFFCIANGEHTLSS--LRC 62 K++RPLSPH+ IY+ M +SI HR TG + LG + + + Sbjct: 18 KSSRPLSPHISIYKWSLPMAMSITHRGTGVALSLGVSLFSLAALLLPEQFPHYVAVVKSL 77 Query: 63 YMDGSVFEVCLFLYTWAVIHHMLGGIRYLIWDVSLCLDKKIATQMAKINIIASILTVLIV 122 + ++ F + + +H GIR+L+WD+ Q + +I ++L+ + Sbjct: 78 SLSPALIYSAKFALVFPLSYHTWNGIRHLVWDMGKGFKLSQVEQSGVVVLILTLLSSAAI 137 Query: 123 W 123 Sbjct: 138 A 138 >1zoy_C Large cytochrome binding protein, FAD-binding protein; succinate, ubiquinone oxidoreductase, mitochondrial respiratory complex II; HET: FAD HEM EPH UQ1; 2.40A {Sus scrofa} PDB: 1zp0_C* Length = 140 Score = 96.2 bits (239), Expect = 2e-21 Identities = 33/124 (26%), Positives = 57/124 (45%), Gaps = 2/124 (1%) Query: 4 IKNNRPLSPHLQIYRLIPTMFVSIVHRITGSVVYLGTPVVVFWFFCIANGEHTLSSLRCY 63 + +NRPLSPH+ IYR M +SI HR TG + G + + + L Sbjct: 17 LGSNRPLSPHITIYRWSLPMAMSICHRGTGIALSAGVSLFGLSALLLPGNFESHLELVKS 76 Query: 64 MDGSVFEV--CLFLYTWAVIHHMLGGIRYLIWDVSLCLDKKIATQMAKINIIASILTVLI 121 + + F + +++H GIR+LIWD+ L TQ + +I ++L+ + Sbjct: 77 LCLGPTLIYTAKFGIVFPLMYHTWNGIRHLIWDLGKGLTIPQLTQSGVVVLILTVLSSVG 136 Query: 122 VWII 125 + + Sbjct: 137 LAAM 140 >2wdq_C Succinate dehydrogenase cytochrome B556 subunit; succinate dehydrogenase activity, cell inner membrane, tricarboxylic acid cycle; HET: FAD HEM CBE; 2.40A {Escherichia coli} PDB: 1nen_C* 2acz_C* 1nek_C* 2wdr_C* 2wdv_C* Length = 129 Score = 85.0 bits (210), Expect = 4e-18 Identities = 23/126 (18%), Positives = 60/126 (47%), Gaps = 1/126 (0%) Query: 1 MSSIKNNRPLSPHLQIYRLIPTMFVSIVHRITGSVVYLGTPVVVFWFFCIANGEHTLSSL 60 + ++K RP++ LQ R T SI+HR++G + ++ ++++ + Sbjct: 2 IRNVKKQRPVNLDLQTIRFPITAIASILHRVSGVITFVAVGILLWLLGTSLSSPEGFEQA 61 Query: 61 RCYMDGSVFEVCLFLYTWAVIHHMLGGIRYLIWDVSLCLD-KKIATQMAKINIIASILTV 119 M + ++ A+ +H++ GIR+++ D + + + AKI+ + +++ Sbjct: 62 SAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFGYLEETFEAGKRSAKISFVITVVLS 121 Query: 120 LIVWII 125 L+ ++ Sbjct: 122 LLAGVL 127 >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 = 27.7 bits (60), Expect = 0.75 Identities = 5/10 (50%), Positives = 7/10 (70%) Query: 58 SSLRCYMDGS 67 +SL+ Y D S Sbjct: 27 ASLKLYADDS 36 >2wdq_D Succinate dehydrogenase hydrophobic membrane anchor subunit; succinate dehydrogenase activity, cell inner membrane, tricarboxylic acid cycle; HET: FAD HEM CBE; 2.40A {Escherichia coli} PDB: 1nen_D* 2acz_D* 1nek_D* 2wdr_D* 2wdv_D* Length = 115 Score = 25.1 bits (55), Expect = 4.9 Identities = 18/101 (17%), Positives = 41/101 (40%), Gaps = 4/101 (3%) Query: 27 IVHRITGSVVYLGTPVVVFWFFCIANGEHTLSSLRCYMDGSVFEVCLFLYTWAVIHHMLG 86 I+ R T + L ++ F +GE T + + +V L ++++ H Sbjct: 17 ILVRATA--IVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWI 74 Query: 87 GIRYLIWDVSLCLDKKIATQMAK--INIIASILTVLIVWII 125 G+ ++ D L ++ Q+ ++ I ++VW + Sbjct: 75 GMWQVLTDYVKPLALRLMLQLVIVVALVVYVIYGFVVVWGV 115 >1x1i_A Xanthan lyase; alpha/alpha barrel, beta sandwich; HET: 46M; 1.80A {Bacillus SP} SCOP: a.102.3.2 b.24.1.1 b.30.5.2 PDB: 1x1h_A* 1x1j_A* 2e22_A* 1j0m_A 1j0n_A* 2e24_A Length = 752 Score = 24.6 bits (53), Expect = 6.7 Identities = 9/32 (28%), Positives = 13/32 (40%) Query: 62 CYMDGSVFEVCLFLYTWAVIHHMLGGIRYLIW 93 Y DGS + F YT +L L++ Sbjct: 212 FYADGSFVQHTTFAYTGGYGSSVLETTANLMY 243 >2ww2_A Mannosidase, alpha-1,2-mannosidase; hydrolase, glycoside hydrolase family 92, GH92, BT2199; HET: SWA; 1.90A {Bacteroides thetaiotaomicron} PDB: 2wvy_A* Length = 737 Score = 24.2 bits (52), Expect = 9.6 Identities = 7/30 (23%), Positives = 11/30 (36%) Query: 62 CYMDGSVFEVCLFLYTWAVIHHMLGGIRYL 91 G E + +TW+V H G + Sbjct: 508 TEWGGPFTEGSSWHWTWSVFHDPEGLSELM 537 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 0.468 Gapped Lambda K H 0.267 0.0530 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 1,163,219 Number of extensions: 48499 Number of successful extensions: 155 Number of sequences better than 10.0: 1 Number of HSP's gapped: 152 Number of HSP's successfully gapped: 9 Length of query: 129 Length of database: 5,693,230 Length adjustment: 82 Effective length of query: 47 Effective length of database: 3,705,222 Effective search space: 174145434 Effective search space used: 174145434 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: 40 (22.0 bits) S2: 51 (23.9 bits)