RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780481|ref|YP_003064894.1| 50S ribosomal protein L34
[Candidatus Liberibacter asiaticus str. psy62]
         (44 letters)



>3ofq_2 50S ribosomal protein L34; protein biosynthesis, ribosomes, RNA,
          tRNA, transfer, antibi EXIT, peptidyl, ribosomal
          subunit, large; 3.10A {Escherichia coli} PDB: 1vs8_2
          1vs6_2 2aw4_2 2awb_2 1vt2_2 2i2v_2 2j28_2 2i2t_2*
          2qao_2* 2qba_2* 2qbc_2* 2qbe_2 2qbg_2 2qbi_2* 2qbk_2*
          2qov_2 2qox_2 2qoz_2* 2qp1_2* 2rdo_2 ...
          Length = 46

 Score = 42.7 bits (101), Expect = 2e-05
 Identities = 24/43 (55%), Positives = 33/43 (76%)

Query: 1  MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLS 43
          MKRT+ PS + R R  GF ARM+T++G ++L RRR+KGR RL+
Sbjct: 1  MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLT 43


>3i1n_2 50S ribosomal protein L34; ribosome structure, protein-RNA
          complex, acetylation, ribonucleoprotein, ribosomal
          protein, RNA-binding, rRNA- binding, methylation; 3.19A
          {Escherichia coli k-12} PDB: 1vs8_2 2aw4_2 2awb_2
          1vs6_2 2i2v_2 2j28_2 2i2t_2* 2qao_2* 2qba_2* 2qbc_2*
          2qbe_2 2qbg_2 2qbi_2* 2qbk_2* 2qov_2 2qox_2 2qoz_2*
          2qp1_2* 2rdo_2 2vhm_2 ...
          Length = 46

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 24/43 (55%), Positives = 33/43 (76%)

Query: 1  MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLS 43
          MKRT+ PS + R R  GF ARM+T++G ++L RRR+KGR RL+
Sbjct: 1  MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLT 43


>2j01_7 50S ribosomal protein L34; ribosome, tRNA, paromomycin, mRNA,
          translation; 2.8A {Thermus thermophilus} SCOP:
          j.118.1.1 PDB: 1vsp_Z 2hgj_6 2hgq_6 2hgu_6 1vsa_Z
          2j03_7 2jl6_7 2jl8_7 2v47_7 2v49_7 2wdi_7 2wdj_7 2wdl_7
          2wdn_7 2wh2_7 2wh4_7 3d5b_7 3d5d_7 3f1f_7 3f1h_7 ...
          Length = 49

 Score = 40.8 bits (96), Expect = 7e-05
 Identities = 22/44 (50%), Positives = 28/44 (63%)

Query: 1  MKRTYNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRLSA 44
          MKRT+ P+   R +  GF ARM T  G ++L RRR KGR RL+ 
Sbjct: 1  MKRTWQPNRRKRAKTHGFRARMRTPGGRKVLKRRRQKGRWRLTP 44


>2ftc_Q L34MT, MRP-L34, 39S ribosomal protein L34, mitochondrial;
          mitochondrial ribosome, large ribosomal subunit,
          ribosomal RNA; 12.10A {Bos taurus}
          Length = 38

 Score = 32.0 bits (73), Expect = 0.033
 Identities = 19/38 (50%), Positives = 28/38 (73%)

Query: 5  YNPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRL 42
          Y PSNI RK + G++ R+ST +G++++ RR  KGRK L
Sbjct: 1  YQPSNIKRKNKHGWVRRLSTPAGVQVILRRMLKGRKSL 38


>3bbo_4 Ribosomal protein L34; large ribosomal subunit, spinach chloroplast
           ribosome, ribonucleoprotein particle, macromolecular
           complex; 9.40A {Spinacea oleracea}
          Length = 152

 Score = 25.8 bits (56), Expect = 2.2
 Identities = 19/37 (51%), Positives = 22/37 (59%)

Query: 6   NPSNIVRKRRCGFLARMSTRSGIRILNRRRSKGRKRL 42
           + S     R  GF  RMST SG  +L RRR+KGRK L
Sbjct: 102 SRSRKSLARTHGFRLRMSTTSGRALLKRRRAKGRKIL 138


  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
   0.329    0.136    0.388 

Gapped
Lambda     K      H
   0.267   0.0738    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 382,735
Number of extensions: 11677
Number of successful extensions: 40
Number of sequences better than 10.0: 1
Number of HSP's gapped: 40
Number of HSP's successfully gapped: 5
Length of query: 44
Length of database: 5,693,230
Length adjustment: 17
Effective length of query: 27
Effective length of database: 5,281,082
Effective search space: 142589214
Effective search space used: 142589214
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 50 (23.0 bits)