RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781121|ref|YP_003065534.1| hypothetical protein
CLIBASIA_05115 [Candidatus Liberibacter asiaticus str. psy62]
         (185 letters)



>3dtd_A Invasion-associated protein B; structural genomics, PSI-2, protein
           structure initiative, NEW YORK structural genomix
           research consortium; 2.35A {Bartonella henselae}
          Length = 175

 Score = 80.9 bits (199), Expect = 2e-16
 Identities = 28/171 (16%), Positives = 54/171 (31%), Gaps = 16/171 (9%)

Query: 21  MVSSVSAGYANASQP--EPTLRNQFSRWSVYVYPDLNKKLCFSLSVPVTVEPLEGVRHGV 78
              S +     A+ P    +L   +  WS+       KK+CF     V  +     R  V
Sbjct: 5   NSKSTTTKDTVATLPNGASSLTETYGLWSINCGIQEGKKVCFMHRQEVNDQN----RVVV 60

Query: 79  NFFIISLKKEENSAYVSELVMDYPLDEEEMVSLEVKGKNASGTIFKMKSYNNRAAFEKRS 138
              ++       S  ++ +     + +   V L+V    A      +++           
Sbjct: 61  AMSVVLNADGVVSGNLT-VPFGILVSKP--VRLQVDEGKAVIE-TGIRTCVPAGCIVPIV 116

Query: 139 QDTVLIEEMKRGKELVVS---AKSKRGTNTRYIYSLIGLS---DSLADIRK 183
            D   +  ++ GK L ++   A             L G S   + L  ++K
Sbjct: 117 FDKNYVAALRAGKHLKLAMTIAAPGEPPLNDLFVQLNGFSNALNRLIALQK 167


>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
           transcription factor, DNA-binding, DNA-directed RNA
           polymerase; 4.30A {Saccharomyces cerevisiae}
          Length = 197

 Score = 28.0 bits (62), Expect = 1.5
 Identities = 4/20 (20%), Positives = 9/20 (45%), Gaps = 1/20 (5%)

Query: 135 EKRSQDTVLIEEMKRGKELV 154
           E +     ++E    G ++V
Sbjct: 26  ECKVYPPKIVERFSEG-DVV 44


  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
   0.319    0.134    0.374 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,502,915
Number of extensions: 65258
Number of successful extensions: 121
Number of sequences better than 10.0: 1
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 3
Length of query: 185
Length of database: 5,693,230
Length adjustment: 87
Effective length of query: 98
Effective length of database: 3,584,002
Effective search space: 351232196
Effective search space used: 351232196
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 (21.7 bits)
S2: 54 (24.9 bits)