RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

Searching..................................................done

Query= gi|254780467|ref|YP_003064880.1| exodeoxyribonuclease VII small
subunit [Candidatus Liberibacter asiaticus str. psy62]
         (86 letters)



>1vp7_A Exodeoxyribonuclease VII small subunit; NP_881400.1, structural
           genomics, joint center for structural genomics, JCSG,
           PSI; 2.40A {Bordetella pertussis tohama I} SCOP:
           a.7.13.1
          Length = 100

 Score = 66.4 bits (162), Expect = 1e-12
 Identities = 21/69 (30%), Positives = 41/69 (59%)

Query: 16  FEEAVSELENIIAKLERGDVTLDESISIYERGEALKSHCEFLLCSAEKRIEQIKLNRDNK 75
           FE A++ELE++++ +E G + L++S+S Y RG  L   C+  L  AE++++ ++ +    
Sbjct: 32  FETALAELESLVSAMENGTLPLEQSLSAYRRGVELARVCQDRLAQAEQQVKVLEGDLLRP 91

Query: 76  IQSVKPFDE 84
           +      DE
Sbjct: 92  LDPAALDDE 100


>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 = 28.0 bits (62), Expect = 0.53
 Identities = 11/78 (14%), Positives = 20/78 (25%), Gaps = 19/78 (24%)

Query: 3   DDSINLDDLSHLPFEEAVSELENIIAKLERGDVTLDESISIYERGEALKS-HCEFLLCSA 61
            +    DD    P E     L  + + +E   V   + +        L      +L    
Sbjct: 45  TEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVL----NLCLTEFENCYL---- 96

Query: 62  EKRIEQIKLNRDNKIQSV 79
                       N I ++
Sbjct: 97  ----------EGNDIHAL 104


>2f9y_A Acetyl-COA carboxylase, carboxyltransferase alpha chain; zinc
          ribbon, crotonase superfamily, spiral domain, ligase;
          3.20A {Escherichia coli} SCOP: c.14.1.4
          Length = 339

 Score = 25.0 bits (54), Expect = 3.8
 Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 7/39 (17%)

Query: 14 LPFEEAVSELENIIAKL-------ERGDVTLDESISIYE 45
          L FE+ ++ELE  I  L       E+ D+ +DE +    
Sbjct: 26 LDFEQPIAELEAKIDSLTAGSRQDEKLDINIDEEVHRLR 64


>3ney_A 55 kDa erythrocyte membrane protein; structural genomics
           consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A
           {Homo sapiens}
          Length = 197

 Score = 24.9 bits (54), Expect = 4.2
 Identities = 2/17 (11%), Positives = 7/17 (41%)

Query: 16  FEEAVSELENIIAKLER 32
            +E + +L+    +   
Sbjct: 176 VDETLKKLQEAFDQACS 192


>2f9i_A Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha;
          zinc ribbon, crotonase superfamily, spiral domain;
          1.98A {Staphylococcus aureus}
          Length = 327

 Score = 24.7 bits (53), Expect = 5.4
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 4/37 (10%)

Query: 14 LPFEEAVSELENIIAKL----ERGDVTLDESISIYER 46
          L FE+ + E+ N I  L    ++ DV L E I + E 
Sbjct: 15 LDFEKPLFEIRNKIESLKESQDKNDVDLQEEIDMLEA 51


>2e3z_A Beta-glucosidase; TIM barrel, glycoside hydrolase family 1, CLAN
           GH-A, structural genomics, NPPSFA; 1.50A {Phanerochaete
           chrysosporium} PDB: 2e40_A*
          Length = 465

 Score = 24.4 bits (52), Expect = 7.1
 Identities = 7/35 (20%), Positives = 16/35 (45%)

Query: 24  ENIIAKLERGDVTLDESISIYERGEALKSHCEFLL 58
           EN        D+ +++++   +R    + + E LL
Sbjct: 368 ENGFPVKGENDLPVEQAVDDTDRQAYYRDYTEALL 402


>3opy_B 6-phosphofructo-1-kinase beta-subunit; ATP binding,
           fructose-6-phosphate bindi magnesium binding, citrate
           binding, ADP binding; HET: ATP; 3.05A {Pichia pastoris}
          Length = 941

 Score = 23.7 bits (51), Expect = 8.8
 Identities = 6/30 (20%), Positives = 15/30 (50%)

Query: 5   SINLDDLSHLPFEEAVSELENIIAKLERGD 34
           +I  D ++ +P  +AV   + +   +E  +
Sbjct: 505 AIKEDQITRVPLVDAVELTQQVAKSIESRN 534


>3n9r_A Fructose-bisphosphate aldolase; FBP aldolase, class II, inhibitor,
           lyase; HET: TD3; 1.80A {Helicobacter pylori} PDB:
           3c52_A* 3c56_A* 3c4u_A* 3n9s_A*
          Length = 307

 Score = 23.8 bits (51), Expect = 9.1
 Identities = 8/39 (20%), Positives = 15/39 (38%)

Query: 10  DLSHLPFEEAVSELENIIAKLERGDVTLDESISIYERGE 48
           D SH  FEE +     ++       V+++  +      E
Sbjct: 104 DASHHAFEENLELTSKVVKMAHNAGVSVEAELGRLMGIE 142


  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
   0.313    0.133    0.360 

Gapped
Lambda     K      H
   0.267   0.0584    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 698,112
Number of extensions: 26981
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 23
Length of query: 86
Length of database: 5,693,230
Length adjustment: 54
Effective length of query: 32
Effective length of database: 4,384,054
Effective search space: 140289728
Effective search space used: 140289728
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.4 bits)