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= 029397
         (194 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|1Z4E|A Chain A, Crystal Structure Of Transcriptional Regulator From
           Bacillus Halodurans C-125
 pdb|1Z4E|B Chain B, Crystal Structure Of Transcriptional Regulator From
           Bacillus Halodurans C-125
          Length = 153

 Score = 31.6 bits (70), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 1/43 (2%)

Query: 67  VTLRCQLPNGDLETLISIKSDDDLANLIEEYDRAAPSSKIRAI 109
           VT+R +   GDLE ++ + +DD L    E Y++  P S +RA 
Sbjct: 5   VTIR-EATEGDLEQMVHMLADDVLGRKRERYEKPLPVSYVRAF 46


>pdb|1LFW|A Chain A, Crystal Structure Of Pepv
          Length = 470

 Score = 28.9 bits (63), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 13/21 (61%), Positives = 15/21 (71%)

Query: 77 DLETLISIKSDDDLANLIEEY 97
          DLE LI+I S +DL N  EEY
Sbjct: 19 DLEELIAIDSSEDLENATEEY 39


>pdb|2LNU|A Chain A, Solution Nmr Structure Of The Uncharacterized Protein From
           Gene Locus Rrnac0354 Of Haloarcula Marismortui,
           Northeast Structural Genomics Consortium Target Hmr11
          Length = 190

 Score = 27.3 bits (59), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 5/48 (10%)

Query: 32  GQLRYVGGLTRVLSVERSISFAE-----LMVKLGEFCGYSVTLRCQLP 74
           GQ  Y GG    L  +R +S  +       +    FC YS T  C LP
Sbjct: 118 GQQSYDGGRYMELEPDRDLSDGDEITLDFNLAYSPFCAYSDTFSCPLP 165


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.318    0.136    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,984,060
Number of Sequences: 62578
Number of extensions: 233360
Number of successful extensions: 620
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 613
Number of HSP's gapped (non-prelim): 11
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)