BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0490.0035.p
         (62 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B1DHK5.1 B1DHK5_9BACL Ribosomal protein L28                           112   1e-23
B3KJ39.1 B3KJ39_9BACI Ribosomal protein L28                           110   5e-23
B1YIP3.1 RL28_EXIS2 50S ribosomal protein L28                          94   3e-18
C4L5Y4.1 C4L5Y4_EXISA Ribosomal protein L28                            93   7e-18
P37807.1 RL28_BACSU 50S ribosomal protein L28                          93   8e-18

>B1DHK5.1 B1DHK5_9BACL Ribosomal protein L28
          Length = 62

 Score =  112 bits (280), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/62 (87%), Positives = 59/62 (95%)

Query: 1  MSRKCTVTGKKPGSGNHVSHANNRNRRSWGVNVQKVRILVNGKPKRVYVSTRALKAGKVE 60
          MSRKC +TGK PG+GNHVSHANN+NRRSWGVNVQKVRILV+GKPKRVYVSTRALK+GKV 
Sbjct: 1  MSRKCFITGKSPGTGNHVSHANNKNRRSWGVNVQKVRILVDGKPKRVYVSTRALKSGKVT 60

Query: 61 RV 62
          RV
Sbjct: 61 RV 62


>B3KJ39.1 B3KJ39_9BACI Ribosomal protein L28
          Length = 62

 Score =  110 bits (274), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 54/62 (87%), Positives = 58/62 (93%)

Query: 1  MSRKCTVTGKKPGSGNHVSHANNRNRRSWGVNVQKVRILVNGKPKRVYVSTRALKAGKVE 60
          M+RKC VTGKKP SGNHVSHANN N+RSWGVNVQKVRILV+GKPKRVYVSTRALK+GKV 
Sbjct: 1  MARKCYVTGKKPSSGNHVSHANNHNKRSWGVNVQKVRILVDGKPKRVYVSTRALKSGKVT 60

Query: 61 RV 62
          RV
Sbjct: 61 RV 62


>B1YIP3.1 RL28_EXIS2 50S ribosomal protein L28
          Length = 62

 Score = 94.4 bits (233), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 45/62 (72%), Positives = 55/62 (88%)

Query: 1  MSRKCTVTGKKPGSGNHVSHANNRNRRSWGVNVQKVRILVNGKPKRVYVSTRALKAGKVE 60
          M+RKC VTGK P SGN+ SHA N+ +R+WG+NVQKVRILV+GKPK+V+VS RALK+GKVE
Sbjct: 1  MARKCYVTGKSPKSGNNRSHALNKTKRTWGINVQKVRILVDGKPKKVWVSARALKSGKVE 60

Query: 61 RV 62
          RV
Sbjct: 61 RV 62


>C4L5Y4.1 C4L5Y4_EXISA Ribosomal protein L28
          Length = 62

 Score = 93.2 bits (230), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 46/62 (74%), Positives = 54/62 (87%)

Query: 1  MSRKCTVTGKKPGSGNHVSHANNRNRRSWGVNVQKVRILVNGKPKRVYVSTRALKAGKVE 60
          M+RKC VTGK P SGN+ SHA N+ +R+WGVNVQKVRILV+GKPKRV+VS RALK+G VE
Sbjct: 1  MARKCYVTGKSPKSGNNRSHALNKTKRTWGVNVQKVRILVDGKPKRVWVSARALKSGLVE 60

Query: 61 RV 62
          RV
Sbjct: 61 RV 62


>P37807.1 RL28_BACSU 50S ribosomal protein L28
          Length = 62

 Score = 92.8 bits (229), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 44/62 (70%), Positives = 54/62 (87%)

Query: 1  MSRKCTVTGKKPGSGNHVSHANNRNRRSWGVNVQKVRILVNGKPKRVYVSTRALKAGKVE 60
          M+RKC +TGKK  +GN+ SHA N ++R+WG N+QKVRILVNGKPK+VYVS RALK+GKVE
Sbjct: 1  MARKCVITGKKTTAGNNRSHAMNASKRTWGANLQKVRILVNGKPKKVYVSARALKSGKVE 60

Query: 61 RV 62
          RV
Sbjct: 61 RV 62


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.315    0.129    0.380 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 372,991,524
Number of extensions: 11101106
Number of successful extensions: 24621
Number of sequences better than 1.0e-05: 477
Number of HSP's gapped: 24599
Number of HSP's successfully gapped: 477
Length of query: 62
Length of database: 3,060,696,203
Length adjustment: 34
Effective length of query: 28
Effective length of database: 2,740,381,693
Effective search space: 76730687404
Effective search space used: 76730687404
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: 126 (53.1 bits)