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)