RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780361|ref|YP_003064774.1| ribosomal protein L32
[Candidatus Liberibacter asiaticus str. psy62]
         (61 letters)



>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit,
          ribonucleoprotein, RNA-binding, rRNA-binding,
          tRNA-binding, methylation; 2.91A {Deinococcus
          radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M*
          1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5
          2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y*
          1nwy_Z* 1nwx_Z* 1xbp_Z* 1pnu_Z ...
          Length = 60

 Score = 78.9 bits (195), Expect = 3e-16
 Identities = 26/54 (48%), Positives = 30/54 (55%)

Query: 1  MAVPKRKTSPSKRGMRRSADALTPPAYVEDKKSGELRRPHHVDMKTGLYRGRQV 54
            VPK+KTS SKR MRRS  ALT P   E  +    +  HH+    G Y GRQV
Sbjct: 4  HPVPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLSHHICPNCGYYDGRQV 57


>2j01_5 50S ribosomal protein L32; ribosome, tRNA, paromomycin, mRNA,
          translation; 2.8A {Thermus thermophilus} SCOP: g.41.8.5
          PDB: 2hgq_4 2hgj_4 2hgu_4 2j03_5 2jl6_5 2jl8_5 2v47_5
          2v49_5 2wdi_5 2wdj_5 2wdl_5 2wdn_5 2wh2_5 2wh4_5 3hux_5
          3huz_5 3f1f_5 1vsp_Y 1vsa_Y 3d5d_5 ...
          Length = 60

 Score = 77.4 bits (191), Expect = 8e-16
 Identities = 24/54 (44%), Positives = 32/54 (59%)

Query: 1  MAVPKRKTSPSKRGMRRSADALTPPAYVEDKKSGELRRPHHVDMKTGLYRGRQV 54
            VPK+KTS ++R  RRS  ALTPP  V   +   ++ PH V  + G Y GR+V
Sbjct: 4  HPVPKKKTSKARRDARRSHHALTPPTLVPCPECKAMKPPHTVCPECGYYAGRKV 57


>3i1n_0 50S ribosomal protein L32; ribosome structure, protein-RNA
          complex, acetylation, ribonucleoprotein, ribosomal
          protein, RNA-binding, rRNA- binding, methylation; 3.19A
          {Escherichia coli k-12} PDB: 1vs8_0 3e1b_T 3e1d_T
          1vs6_0 3i1p_0 3i1r_0 3i1t_0 3i20_0 3i22_0 2qam_0*
          1p85_Z 1p86_Z 2awb_0 2aw4_0 2i2v_0 2j28_0 2i2t_0*
          2qao_0* 2qba_0* 2qbc_0* ...
          Length = 57

 Score = 68.9 bits (169), Expect = 2e-13
 Identities = 29/56 (51%), Positives = 34/56 (60%), Gaps = 2/56 (3%)

Query: 1  MAVPKRKTSPSKRGMRRSADALT-PPAYVEDKKSGELRRPHHVDMKTGLYRGRQVF 55
          MAV + K + SKRGMRRS DALT   +   DK SGE    HH+    G YRGR+V 
Sbjct: 1  MAVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHIT-ADGYYRGRKVI 55


>3ofq_0 50S ribosomal protein L32; protein biosynthesis, ribosomes, RNA,
          tRNA, transfer, antibi EXIT, peptidyl, ribosomal
          subunit, large; 3.10A {Escherichia coli} PDB: 1p85_Z
          1p86_Z 2awb_0 2aw4_0 2i2v_0 2j28_0 2i2t_0* 2qao_0*
          2qba_0* 2qbc_0* 2qbe_0 2qbg_0 2qbi_0* 2qbk_0* 2qov_0
          2qox_0 2qoz_0* 2qp1_0* 2rdo_0 2vhm_0 ...
          Length = 56

 Score = 67.7 bits (166), Expect = 6e-13
 Identities = 28/55 (50%), Positives = 33/55 (60%), Gaps = 2/55 (3%)

Query: 2  AVPKRKTSPSKRGMRRSADALT-PPAYVEDKKSGELRRPHHVDMKTGLYRGRQVF 55
          AV + K + SKRGMRRS DALT   +   DK SGE    HH+    G YRGR+V 
Sbjct: 1  AVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHIT-ADGYYRGRKVI 54


>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 = 31.0 bits (70), Expect = 0.061
 Identities = 11/42 (26%), Positives = 15/42 (35%), Gaps = 12/42 (28%)

Query: 7  KTSPS--KRGMRRSAD----------ALTPPAYVEDKKSGEL 36
           T  S  KR  RR  +           + PP  VE    G++
Sbjct: 2  MTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDV 43


>3bbo_2 Ribosomal protein L32; large ribosomal subunit, spinach
          chloroplast ribosome, ribonucleoprotein particle,
          macromolecular complex; 9.40A {Spinacea oleracea}
          Length = 57

 Score = 28.6 bits (64), Expect = 0.40
 Identities = 9/18 (50%), Positives = 15/18 (83%)

Query: 1  MAVPKRKTSPSKRGMRRS 18
          MAVPK++TS  K+ +R++
Sbjct: 1  MAVPKKRTSIYKKRIRKN 18


  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
   0.316    0.131    0.376 

Gapped
Lambda     K      H
   0.267   0.0729    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 499,410
Number of extensions: 16646
Number of successful extensions: 32
Number of sequences better than 10.0: 1
Number of HSP's gapped: 28
Number of HSP's successfully gapped: 6
Length of query: 61
Length of database: 5,693,230
Length adjustment: 32
Effective length of query: 29
Effective length of database: 4,917,422
Effective search space: 142605238
Effective search space used: 142605238
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 (21.6 bits)
S2: 50 (23.0 bits)