RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780243|ref|YP_003064656.1| 50S ribosomal protein L30
[Candidatus Liberibacter asiaticus str. psy62]
         (64 letters)



>1bxy_A Protein (ribosomal protein L30); X-RAY crystallography,
          conformational changes; 1.90A {Thermus thermophilus}
          (A:)
          Length = 60

 Score = 70.0 bits (172), Expect = 1e-13
 Identities = 24/58 (41%), Positives = 37/58 (63%)

Query: 7  MQKITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
          M ++ V+ + SPI  P  Q+  L  LGL ++ + RVL+DTP++RG +  V HLVR+  
Sbjct: 1  MPRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEV 58


>2zjr_W 50S ribosomal protein L30; ribosome, large ribosomal
          subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
          tRNA-binding, methylation; 2.91A {Deinococcus
          radiodurans} (W:)
          Length = 55

 Score = 67.2 bits (165), Expect = 8e-13
 Identities = 23/55 (41%), Positives = 34/55 (61%)

Query: 10 ITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
          + ++ + S I RP  Q K +  LGL K+   R + DTP+VRGM+ TV HL+ + E
Sbjct: 1  MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE 55


>3i1n_Z 50S ribosomal protein L30; ribosome structure, protein-RNA
          complex, acetylation, ribonucleoprotein, ribosomal
          protein, RNA-binding, rRNA- binding, methylation; 3.19A
          {Escherichia coli k-12} PDB: 1vs8_Y 3e1b_R 3e1d_R
          1vs6_Y 3i1p_Z 3i1r_Z 3i1t_Z 3i20_Z 3i22_Z 2qam_Y*
          1p85_X 1p86_X 2awb_Y 2aw4_Y 2i2v_Z 2j28_Y 2i2t_Z*
          2qao_Y* 2qba_Y* 2qbc_Y* ... (Z:)
          Length = 59

 Score = 66.1 bits (162), Expect = 1e-12
 Identities = 20/56 (35%), Positives = 32/56 (57%)

Query: 9  KITVQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
           I + Q  S I R    +  L+GLGL ++      +DTP++RGMI+ V  +V++ E
Sbjct: 4  TIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE 59


>1vq8_W 50S ribosomal protein L30P; ribosome 50S, protein-protein
          complex, RNA-RNA complex, protein-RNA complex, peptidyl
          transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
          2.20A {Haloarcula marismortui} (W:)
          Length = 154

 Score = 50.6 bits (121), Expect = 6e-08
 Identities = 11/52 (21%), Positives = 26/52 (50%)

Query: 12 VQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIV 63
          + Q+   +   +  +  L  L ++ +N C ++ +T + RGM++ V+  V   
Sbjct: 4  LVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFG 55


>3jyw_F 60S ribosomal protein L7(A); eukaryotic ribosome, RACK1
          protein, flexible fitting; 8.90A {Thermomyces
          lanuginosus} PDB: 1s1i_F (F:20-213)
          Length = 194

 Score = 30.3 bits (68), Expect = 0.094
 Identities = 12/53 (22%), Positives = 21/53 (39%)

Query: 12 VQQIGSPIRRPSVQRKVLIGLGLNKMNRCRVLDDTPSVRGMISTVHHLVRIVE 64
          V +I    + P   RKVL  L L ++N    +  T +   ++  +   V    
Sbjct: 36 VVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGY 88


>3ik4_A Mandelate racemase/muconate lactonizing protein;
          structural genomics, enolase, epimerase, PSI-2; 2.10A
          {Herpetosiphon aurantiacus atcc 23779}
          (A:1-135,A:300-365)
          Length = 201

 Score = 24.2 bits (52), Expect = 7.1
 Identities = 7/22 (31%), Positives = 11/22 (50%)

Query: 1  MSSSLKMQKITVQQIGSPIRRP 22
          MS    +Q I+ + I  P+  P
Sbjct: 1  MSLPTTIQAISAEAINLPLTEP 22


>3fcp_A L-Ala-D/L-Glu epimerase, A muconate lactonizing enzyme;
          structural genomics, nysgrc,target 9450E, PSI-2; 1.80A
          {Klebsiella pneumoniae subsp} (A:1-128,A:358-381)
          Length = 152

 Score = 24.0 bits (51), Expect = 7.4
 Identities = 6/22 (27%), Positives = 11/22 (50%)

Query: 1  MSSSLKMQKITVQQIGSPIRRP 22
          MS +  +++I    +  P  RP
Sbjct: 1  MSLTATVEQIESWIVDVPTIRP 22


  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
   0.323    0.136    0.377 

Gapped
Lambda     K      H
   0.267   0.0593    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 464,270
Number of extensions: 14738
Number of successful extensions: 51
Number of sequences better than 10.0: 1
Number of HSP's gapped: 51
Number of HSP's successfully gapped: 8
Length of query: 64
Length of database: 4,956,049
Length adjustment: 32
Effective length of query: 32
Effective length of database: 3,874,289
Effective search space: 123977248
Effective search space used: 123977248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.3 bits)