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= 044422
         (519 letters)

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

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



>pdb|1YS4|A Chain A, Structure Of Aspartate-Semialdehyde Dehydrogenase From
           Methanococcus Jannaschii
 pdb|1YS4|B Chain B, Structure Of Aspartate-Semialdehyde Dehydrogenase From
           Methanococcus Jannaschii
          Length = 354

 Score = 33.1 bits (74), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 11/62 (17%)

Query: 400 IYPNAVIWEAAESRLLLEPECAATHVQLANLYAGVRCWDQAARVRKLMKDKGLKTNPGCS 459
           I+ NA  +   E   L+ PE  A H++L  +    R WD A           + TNP CS
Sbjct: 110 IFSNASAYRXEEDVPLVIPEVNADHLELIEIQREKRGWDGA-----------IITNPNCS 158

Query: 460 WI 461
            I
Sbjct: 159 TI 160


>pdb|3E9H|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysylsulfamoyl Adenosine
 pdb|3E9H|B Chain B, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysylsulfamoyl Adenosine
 pdb|3E9H|C Chain C, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysylsulfamoyl Adenosine
 pdb|3E9H|D Chain D, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysylsulfamoyl Adenosine
 pdb|3E9I|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysine Hydroxamate-Amp
 pdb|3E9I|B Chain B, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysine Hydroxamate-Amp
 pdb|3E9I|C Chain C, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysine Hydroxamate-Amp
 pdb|3E9I|D Chain D, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With L-Lysine Hydroxamate-Amp
 pdb|3A74|A Chain A, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With Diadenosine Tetraphosphate (Ap4a)
 pdb|3A74|B Chain B, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With Diadenosine Tetraphosphate (Ap4a)
 pdb|3A74|C Chain C, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With Diadenosine Tetraphosphate (Ap4a)
 pdb|3A74|D Chain D, Lysyl-Trna Synthetase From Bacillus Stearothermophilus
           Complexed With Diadenosine Tetraphosphate (Ap4a)
          Length = 493

 Score = 32.7 bits (73), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 416 LEPECAATH-VQLANLYAGVRCWDQAA--RVRKLMKDKGLKTNPGCSWIEIMNVVYRFRA 472
           L PE    H V     Y GV  W Q +    R+L K+ G++  P  ++  I+N  +  + 
Sbjct: 310 LTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFGHIVNEFFEQKV 369

Query: 473 EDK 475
           EDK
Sbjct: 370 EDK 372


>pdb|2B1Y|A Chain A, Crystal Structure Of Protein Of Unknown Function Atu1913
           From Agrobacterium Tumefaciens Str. C58
          Length = 104

 Score = 28.9 bits (63), Expect = 7.4,   Method: Composition-based stats.
 Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 3/41 (7%)

Query: 370 PELDHYSCVVDLLGRAGLLEEARDFIKQMPIYPNAVIWEAA 410
           PE  H+  ++D  G +GL E +   +K +P  P A +   A
Sbjct: 66  PETXHWHLIIDAEGHSGLAESS---VKXLPAQPQATLTRKA 103


>pdb|1NP3|A Chain A, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
 pdb|1NP3|B Chain B, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
 pdb|1NP3|C Chain C, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
 pdb|1NP3|D Chain D, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
          Length = 338

 Score = 28.5 bits (62), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 6/44 (13%)

Query: 350 GGLVEEGKVYFDSMAKHGLKPELDHYSC------VVDLLGRAGL 387
           GG VE  K  F+++ + G  PE+ ++ C      +VDL+   G+
Sbjct: 200 GGCVELVKAGFETLVEAGYAPEMAYFECLHELKLIVDLMYEGGI 243


  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
   0.323    0.136    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,604,599
Number of Sequences: 62578
Number of extensions: 571417
Number of successful extensions: 1777
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1777
Number of HSP's gapped (non-prelim): 4
length of query: 519
length of database: 14,973,337
effective HSP length: 103
effective length of query: 416
effective length of database: 8,527,803
effective search space: 3547566048
effective search space used: 3547566048
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 54 (25.4 bits)