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= 016841
         (381 letters)

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

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



>pdb|2XUT|A Chain A, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|B Chain B, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter.
 pdb|2XUT|C Chain C, Crystal Structure Of A Proton Dependent Oligopeptide (Pot)
           Family Transporter
          Length = 524

 Score = 37.7 bits (86), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 26/105 (24%), Positives = 49/105 (46%), Gaps = 10/105 (9%)

Query: 261 PLLFMAILIPIYEFLFVPFARKITGHPAGITQLQRVGVGLVLSVISMTIAGFVEVKRRNA 320
           PLL M +LIP   F+  P   ++      +T L+++G G+ ++ +S  + G +++     
Sbjct: 345 PLLVM-LLIPFNNFVLYPAIERMG---VKLTALRKMGAGIAITGLSWIVVGTIQLMMDGG 400

Query: 321 FNQSPPKQISLFWLSFQYCIFGIADMFTFVGLLEFFYKEAPAGMR 365
                   +S+FW    Y +    ++      LEF Y +AP  M+
Sbjct: 401 ------SALSIFWQILPYALLTFGEVLVSATGLEFAYSQAPKAMK 439


>pdb|3PNV|A Chain A, V369m Mutant Of Glutamyl-Trna Synthetase From
           Mycobacterium Tuberculosis
 pdb|3PNV|B Chain B, V369m Mutant Of Glutamyl-Trna Synthetase From
           Mycobacterium Tuberculosis
          Length = 505

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 117 AIGKPFYRIQQPGESPLVRVAQVIVVAIKNRKLSLPDNPEELYEINKIERVGTEERIP 174
           A G P Y +  P +  L+++  V+    +   L LP  P +L     + R+G  ERIP
Sbjct: 205 ASGDPLYTLVNPCDDALMKITHVL----RGEDL-LPSTPRQLALHQALIRIGVAERIP 257


>pdb|3PNY|A Chain A, Structure Of Glutamyl-Trna Synthetase From Mycobacterium
           Tuberculosis In Space Group P21
 pdb|3PNY|B Chain B, Structure Of Glutamyl-Trna Synthetase From Mycobacterium
           Tuberculosis In Space Group P21
          Length = 505

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 117 AIGKPFYRIQQPGESPLVRVAQVIVVAIKNRKLSLPDNPEELYEINKIERVGTEERIP 174
           A G P Y +  P +  L+++  V+    +   L LP  P +L     + R+G  ERIP
Sbjct: 205 ASGDPLYTLVNPCDDALMKITHVL----RGEDL-LPSTPRQLALHQALIRIGVAERIP 257


>pdb|2JA2|A Chain A, Mycobacterium Tuberculosis Glutamyl-Trna Synthetase
          Length = 498

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 5/58 (8%)

Query: 117 AIGKPFYRIQQPGESPLVRVAQVIVVAIKNRKLSLPDNPEELYEINKIERVGTEERIP 174
           A G P Y +  P +  L+++  V+    +   L LP  P +L     + R+G  ERIP
Sbjct: 190 ASGDPLYTLVNPCDDALMKITHVL----RGEDL-LPSTPRQLALHQALIRIGVAERIP 242


  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
   0.325    0.139    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,598,344
Number of Sequences: 62578
Number of extensions: 356492
Number of successful extensions: 835
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 834
Number of HSP's gapped (non-prelim): 4
length of query: 381
length of database: 14,973,337
effective HSP length: 101
effective length of query: 280
effective length of database: 8,652,959
effective search space: 2422828520
effective search space used: 2422828520
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)