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= 0188.0039.p
         (122 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

B1DJU7.1 B1DJU7_9BACL 30S ribosomal protein                           221   2e-56
C0ZIK5.1 RS13_BREBN 30S ribosomal protein S13                         219   9e-56
B0PCT7.1 B0PCT7_9FIRM 30S ribosomal protein                           203   5e-51
C1PYG1.1 C1PYG1_ALIAC SSU ribosomal protein S13P                      201   2e-50
B0TC82.1 RS13_HELMI 30S ribosomal protein S13                         200   3e-50

>B1DJU7.1 B1DJU7_9BACL 30S ribosomal protein
          Length = 122

 Score =  221 bits (563), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 111/122 (90%), Positives = 117/122 (95%)

Query: 1   MARIAGVDLPRDKRVEIALTYIFGIGKTTSQKILNETGIDVNTRVRDLTEDEVSKLREMI 60
           MARIAGVD+PRDKRVEIALTYIFGIGKTTSQKIL  TG++ +TRVRDLTEDE++KLRE I
Sbjct: 1   MARIAGVDIPRDKRVEIALTYIFGIGKTTSQKILASTGVNPDTRVRDLTEDELAKLREAI 60

Query: 61  DKSVKVEGDLRREISLNIKRLTEIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK 120
           DKSVKVEGDLRREISLNIKRL EIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK
Sbjct: 61  DKSVKVEGDLRREISLNIKRLIEIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK 120

Query: 121 KK 122
           KK
Sbjct: 121 KK 122


>C0ZIK5.1 RS13_BREBN 30S ribosomal protein S13
          Length = 122

 Score =  219 bits (557), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 107/122 (87%), Positives = 118/122 (96%)

Query: 1   MARIAGVDLPRDKRVEIALTYIFGIGKTTSQKILNETGIDVNTRVRDLTEDEVSKLREMI 60
           MARIAGVDLPR+KRVE+ALTYIFGIG+ TSQKIL+ TG+D+NTRVRDLTEDEV+KLRE I
Sbjct: 1   MARIAGVDLPREKRVEVALTYIFGIGRPTSQKILSATGVDMNTRVRDLTEDEVNKLREYI 60

Query: 61  DKSVKVEGDLRREISLNIKRLTEIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK 120
           DK+VKVEGDLRREISLNIKRL EIGC+RG+RHRRGLPVRGQR+KTNARTRKGPRRTVANK
Sbjct: 61  DKTVKVEGDLRREISLNIKRLMEIGCFRGIRHRRGLPVRGQRSKTNARTRKGPRRTVANK 120

Query: 121 KK 122
           KK
Sbjct: 121 KK 122


>B0PCT7.1 B0PCT7_9FIRM 30S ribosomal protein
          Length = 122

 Score =  203 bits (516), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 97/122 (79%), Positives = 113/122 (92%)

Query: 1   MARIAGVDLPRDKRVEIALTYIFGIGKTTSQKILNETGIDVNTRVRDLTEDEVSKLREMI 60
           MARIAGVDLP+DKRVEI LTYIFGIG+ T+Q+IL  TG++ +TRV+DLTED+VSKLRE I
Sbjct: 1   MARIAGVDLPKDKRVEIGLTYIFGIGRKTAQQILEATGVNPDTRVKDLTEDDVSKLREYI 60

Query: 61  DKSVKVEGDLRREISLNIKRLTEIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK 120
           D +V VEGDLRRE++LNIKRL EIGCYRGVRHR+GLPVRGQRTKTNARTRKGP++T+ANK
Sbjct: 61  DHNVHVEGDLRREVALNIKRLVEIGCYRGVRHRKGLPVRGQRTKTNARTRKGPKKTIANK 120

Query: 121 KK 122
           KK
Sbjct: 121 KK 122


>C1PYG1.1 C1PYG1_ALIAC SSU ribosomal protein S13P
          Length = 122

 Score =  201 bits (511), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 100/122 (81%), Positives = 111/122 (90%)

Query: 1   MARIAGVDLPRDKRVEIALTYIFGIGKTTSQKILNETGIDVNTRVRDLTEDEVSKLREMI 60
           MARIAGVDLPRDKRVEI LTYI+GIG+TTS KIL  TGID N RVRDLTEDEV +LRE I
Sbjct: 1   MARIAGVDLPRDKRVEIGLTYIYGIGRTTSNKILAATGIDPNKRVRDLTEDEVVRLREEI 60

Query: 61  DKSVKVEGDLRREISLNIKRLTEIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK 120
           +++ KVEGDLRRE+++NIKRL +IGCYRG+RHRRGLPVRGQRTKTNARTRKGPRRTVA K
Sbjct: 61  ERNYKVEGDLRREVAMNIKRLIDIGCYRGIRHRRGLPVRGQRTKTNARTRKGPRRTVAGK 120

Query: 121 KK 122
           KK
Sbjct: 121 KK 122


>B0TC82.1 RS13_HELMI 30S ribosomal protein S13
          Length = 123

 Score =  200 bits (509), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 99/122 (81%), Positives = 112/122 (91%)

Query: 1   MARIAGVDLPRDKRVEIALTYIFGIGKTTSQKILNETGIDVNTRVRDLTEDEVSKLREMI 60
           MARIAG+DLPRDKR+ IALTYIFGIG+ T+ KIL ETGI+ +TR RDLT++EV++LRE I
Sbjct: 1   MARIAGIDLPRDKRIAIALTYIFGIGRPTADKILAETGINPDTRTRDLTDEEVARLREYI 60

Query: 61  DKSVKVEGDLRREISLNIKRLTEIGCYRGVRHRRGLPVRGQRTKTNARTRKGPRRTVANK 120
           DK+V+VEGDLRREISLNIKRL EIGCYRG+RHRRGLPVRGQRTKTNARTRKGP RTVA K
Sbjct: 61  DKNVEVEGDLRREISLNIKRLMEIGCYRGLRHRRGLPVRGQRTKTNARTRKGPARTVAGK 120

Query: 121 KK 122
           KK
Sbjct: 121 KK 122


  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
   0.319    0.137    0.376 

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: 609,049,095
Number of extensions: 21150437
Number of successful extensions: 87811
Number of sequences better than 1.0e-05: 1977
Number of HSP's gapped: 86729
Number of HSP's successfully gapped: 1978
Length of query: 122
Length of database: 3,060,696,203
Length adjustment: 88
Effective length of query: 34
Effective length of database: 2,231,646,883
Effective search space: 75875994022
Effective search space used: 75875994022
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 125 (52.8 bits)