RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781154|ref|YP_003065567.1| hypothetical protein
CLIBASIA_05305 [Candidatus Liberibacter asiaticus str. psy62]
         (65 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 = 30.3 bits (68), Expect = 0.10
 Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 16/47 (34%)

Query: 21  FNTYRSQLRILI---TDNLSALISSDKNITESGKEGIVKMDLSYVYT 64
           + TY   +  LI    + LS LI +              +D   V+T
Sbjct: 177 YQTYHVLVGDLIKFSAETLSELIRTT-------------LDAEKVFT 210



 Score = 24.5 bits (53), Expect = 6.1
 Identities = 7/33 (21%), Positives = 16/33 (48%), Gaps = 8/33 (24%)

Query: 20  AFNTY--RSQLRILITDNLSALISSDKNITESG 50
             N++    + ++ I     +L++  KN+  SG
Sbjct: 355 KTNSHLPAGK-QVEI-----SLVNGAKNLVVSG 381


>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
           aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
           acidocaldarius} PDB: 3crw_1*
          Length = 551

 Score = 28.2 bits (62), Expect = 0.48
 Identities = 7/31 (22%), Positives = 14/31 (45%), Gaps = 2/31 (6%)

Query: 8   QRDFGVVLIGDKAFNT--YRSQLRILITDNL 36
             D   V + DK F +  ++  L+ L  + +
Sbjct: 519 VNDKCNVWLLDKRFESLYWKKNLKCLNANKM 549


>2vsf_A XPD, DNA repair helicase RAD3 related protein; NER, TFIIH,
           hydrolase, ATP-binding, nucleotide-binding, iron sulfur
           cluster; HET: DNA; 2.9A {Thermoplasma acidophilum}
          Length = 602

 Score = 26.4 bits (57), Expect = 1.5
 Identities = 6/21 (28%), Positives = 9/21 (42%)

Query: 8   QRDFGVVLIGDKAFNTYRSQL 28
             D G  +I DK    +R  +
Sbjct: 554 AEDTGACVILDKRAGQFRKFI 574


>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 = 25.0 bits (53), Expect = 4.8
 Identities = 5/21 (23%), Positives = 11/21 (52%)

Query: 19 KAFNTYRSQLRILITDNLSAL 39
          +A    ++ L++   D+  AL
Sbjct: 20 QALKKLQASLKLYADDSAPAL 40


  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    0.136    0.379 

Gapped
Lambda     K      H
   0.267   0.0490    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 512,289
Number of extensions: 16321
Number of successful extensions: 30
Number of sequences better than 10.0: 1
Number of HSP's gapped: 30
Number of HSP's successfully gapped: 5
Length of query: 65
Length of database: 5,693,230
Length adjustment: 36
Effective length of query: 29
Effective length of database: 4,820,446
Effective search space: 139792934
Effective search space used: 139792934
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 (21.8 bits)
S2: 50 (23.6 bits)