RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254780319|ref|YP_003064732.1| 50S ribosomal protein L35
[Candidatus Liberibacter asiaticus str. psy62]
         (67 letters)



>3i1n_3 50S ribosomal protein L35; ribosome structure, protein-RNA
          complex, acetylation, ribonucleoprotein, ribosomal
          protein, RNA-binding, rRNA- binding, methylation; 3.19A
          {Escherichia coli k-12} PDB: 1vs8_3 1vs6_3 3i1p_3
          3i1r_3 3i1t_3 3i20_3 3i22_3 2qam_3* 2awb_3 2aw4_3
          2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3* 2qbe_3
          2qbg_3 2qbi_3* 2qbk_3* ... (3:)
          Length = 65

 Score = 64.7 bits (158), Expect = 4e-12
 Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 1/66 (1%)

Query: 1  MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
          MPK+KT   + KRF  T  G  + + A  RH + K++ K  R+ R   +++  D   VI 
Sbjct: 1  MPKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIA 60

Query: 61 NYLPNG 66
            LP  
Sbjct: 61 -CLPYA 65


>2j01_8 50S ribosomal protein L35; ribosome, tRNA, paromomycin,
          mRNA, translation; 2.8A {Thermus thermophilus} (8:)
          Length = 65

 Score = 64.3 bits (157), Expect = 6e-12
 Identities = 28/60 (46%), Positives = 37/60 (61%)

Query: 1  MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
          MPKMKT+  +KKR  ITA+GKV A   GKRH   ++S K IR      VLA  +A+++  
Sbjct: 1  MPKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKL 60


>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal
          subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
          tRNA-binding, methylation; 2.91A {Deinococcus
          radiodurans} (3:)
          Length = 66

 Score = 63.9 bits (156), Expect = 8e-12
 Identities = 29/66 (43%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 1  MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
          MPKMKT+  +K+R  IT TGKV A  +GKRH    +S   IR      VLA A+  + ++
Sbjct: 1  MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWAR-MK 59

Query: 61 NYLPNG 66
            LP G
Sbjct: 60 LMLPRG 65


>3bbo_5 Ribosomal protein L35; large ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Spinacea oleracea} (5:)
          Length = 159

 Score = 58.4 bits (141), Expect = 3e-10
 Identities = 20/60 (33%), Positives = 32/60 (53%)

Query: 1   MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
             KMKT+ +S KRF +T  GK+  + AGK+H + K++ K        + +  +D   VI 
Sbjct: 89  GYKMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIG 148


>3gn6_A CT0912, orfan protein with A ferrodoxin-like domain repeat;
           orfan protein from chlorobium tepidum with A
           ferrodoxin-like domain repeat; HET: 2PE; 1.80A
           {Chlorobium tepidum tls} (A:)
          Length = 321

 Score = 25.8 bits (56), Expect = 2.0
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 36  RSNKFIRNARGTMVLASADAKKVIRNYLPNGI 67
           R N++ R A  T +L +A A   +R Y+ +G+
Sbjct: 245 RDNRYYRKALSTEILRNAHADGGLRAYIXHGV 276


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.317    0.127    0.342 

Gapped
Lambda     K      H
   0.267   0.0721    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 444,233
Number of extensions: 14019
Number of successful extensions: 44
Number of sequences better than 10.0: 1
Number of HSP's gapped: 44
Number of HSP's successfully gapped: 5
Length of query: 67
Length of database: 4,956,049
Length adjustment: 34
Effective length of query: 33
Effective length of database: 3,806,679
Effective search space: 125620407
Effective search space used: 125620407
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.1 bits)