RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

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



>2zjr_3 50S ribosomal protein L35; ribosome, large ribosomal subunit,
          ribonucleoprotein, RNA-binding, rRNA-binding,
          tRNA-binding, methylation; 2.91A {Deinococcus
          radiodurans} SCOP: d.301.1.1 PDB: 2zjp_3* 1sm1_3 2zjq_3
          3cf5_3* 3dll_3* 1nwy_3* 1nwx_3* 1xbp_3* 1nkw_3 1yl3_8
          2b66_8 2b9n_8 2b9p_8 1pnu_3 1pny_3 1vor_5 1vou_5 1vow_5
          1voy_5 1vp0_5
          Length = 66

 Score = 67.3 bits (165), Expect = 7e-13
 Identities = 29/66 (43%), Positives = 37/66 (56%), Gaps = 1/66 (1%)

Query: 1  MPKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
          MPKMKT+  +K+R  IT TGKV A  +GKRH    +S   IR      VLA A+  ++  
Sbjct: 1  MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKL 60

Query: 61 NYLPNG 66
            LP G
Sbjct: 61 -MLPRG 65


>2j01_8 50S ribosomal protein L35; ribosome, tRNA, paromomycin, mRNA,
          translation; 2.8A {Thermus thermophilus} SCOP:
          d.301.1.1 PDB: 1vsp_a 2hgj_7 2hgq_7 2hgu_7 1vsa_a
          2j03_8 2jl6_8 2jl8_8 2v47_8 2v49_8 2wdi_8 2wdj_8 2wdl_8
          2wdn_8 2wh2_8 2wh4_8 3d5b_8 3d5d_8 3f1f_8 3f1h_8 ...
          Length = 65

 Score = 65.1 bits (159), Expect = 3e-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


>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* ...
          Length = 65

 Score = 62.4 bits (152), Expect = 2e-11
 Identities = 20/60 (33%), Positives = 31/60 (51%)

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


>3ofq_3 50S ribosomal protein L35; protein biosynthesis, ribosomes, RNA,
          tRNA, transfer, antibi EXIT, peptidyl, ribosomal
          subunit, large; 3.10A {Escherichia coli} PDB: 2awb_3
          2aw4_3 2i2v_3 2j28_3 2i2t_3* 2qao_3* 2qba_3* 2qbc_3*
          2qbe_3 2qbg_3 2qbi_3* 2qbk_3* 2qov_3 2qox_3 2qoz_3*
          2qp1_3* 2rdo_3 2vhm_3 2vhn_3 2wwq_7* ...
          Length = 64

 Score = 62.3 bits (152), Expect = 3e-11
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 2  PKMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
          PK+KT   + KRF  T  G  + + A  RH + K++ K  R+ R   +++  D   VI 
Sbjct: 1  PKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIA 59


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

 Score = 59.5 bits (144), Expect = 2e-10
 Identities = 20/58 (34%), Positives = 32/58 (55%)

Query: 3   KMKTNSSSKKRFSITATGKVRAQAAGKRHGMIKRSNKFIRNARGTMVLASADAKKVIR 60
           KMKT+ +S KRF +T  GK+  + AGK+H + K++ K        + +  +D   VI 
Sbjct: 91  KMKTHKASAKRFRVTGKGKIVRRRAGKQHLLAKKNTKRKNRLSKLIQVDRSDYDNVIG 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}
          Length = 321

 Score = 24.7 bits (53), Expect = 5.5
 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 RDNRYYRKALSTEILRNAHADGGLRAYIMHGV 276


  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
   0.317    0.127    0.342 

Gapped
Lambda     K      H
   0.267   0.0728    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 517,778
Number of extensions: 17955
Number of successful extensions: 68
Number of sequences better than 10.0: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 9
Length of query: 67
Length of database: 5,693,230
Length adjustment: 37
Effective length of query: 30
Effective length of database: 4,796,202
Effective search space: 143886060
Effective search space used: 143886060
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 (23.0 bits)