BLASTP 2.2.26 [Sep-21-2011]


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= 004364
         (759 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|Q92HF4|NUSA_RICCN Transcription elongation protein NusA OS=Rickettsia conorii (strain
           ATCC VR-613 / Malish 7) GN=nusA PE=3 SV=1
          Length = 503

 Score = 37.4 bits (85), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 6/74 (8%)

Query: 427 DVEDLTGDI-----FDSIHMISSSHASTLDRLYAWERKLYDEVKASEMIRREYDSKCRIL 481
           DVE++ G +     F+S+  I+SS  STL R+  +E +L  E+K   +   +  ++ +I+
Sbjct: 370 DVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAINYVDLKNE-KII 428

Query: 482 RQLESKGVSSHKID 495
           ++LE  GV    ID
Sbjct: 429 KKLEDLGVEQELID 442


>sp|Q9ZCZ7|NUSA_RICPR Transcription elongation protein NusA OS=Rickettsia prowazekii
           (strain Madrid E) GN=nusA PE=3 SV=1
          Length = 503

 Score = 36.6 bits (83), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 6/74 (8%)

Query: 427 DVEDLTGDI-----FDSIHMISSSHASTLDRLYAWERKLYDEVKASEMIRREYDSKCRIL 481
           DVE++ G +     F+S+  I+SS  STL R+  +E +L  E+K   +   +  ++ +I+
Sbjct: 370 DVEEVIGQLLSVTGFNSVEQIASSEISTLTRIEGFEEELAVEIKNRAIHYVDLKNE-KII 428

Query: 482 RQLESKGVSSHKID 495
           ++LE  GV    ID
Sbjct: 429 KKLEELGVEQELID 442


>sp|A4FPL9|RS3_SACEN 30S ribosomal protein S3 OS=Saccharopolyspora erythraea (strain
           NRRL 23338) GN=rpsC PE=3 SV=1
          Length = 298

 Score = 34.7 bits (78), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 47/92 (51%), Gaps = 6/92 (6%)

Query: 446 HASTLDRLYAWERKLYDEVKASEMIRREYDSKCRILRQLESKGVSSHKIDKTRAVVK-DL 504
           H   L     W+ + Y + + SE +  +   + R+ R +E  G+S  +I++TR  V+ D+
Sbjct: 8   HGFRLGITTDWKSRWYADKQYSEYVAEDVKIRRRLSRGMERAGISKVEIERTRERVRVDI 67

Query: 505 HS-RIKVAIHR----IDSISKRIEELRDKELQ 531
           H+ R  + I R     D I   +E+L  K++Q
Sbjct: 68  HTARPGIVIGRRGAEADRIRGSLEKLTGKQVQ 99


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.312    0.127    0.365 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 282,187,201
Number of Sequences: 539616
Number of extensions: 12468837
Number of successful extensions: 48620
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 433
Number of HSP's that attempted gapping in prelim test: 46490
Number of HSP's gapped (non-prelim): 1787
length of query: 759
length of database: 191,569,459
effective HSP length: 125
effective length of query: 634
effective length of database: 124,117,459
effective search space: 78690469006
effective search space used: 78690469006
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 65 (29.6 bits)