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= 044407
         (702 letters)

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

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



>pdb|1ZUW|A Chain A, Crystal Structure Of B.Subtilis Glutamate Racemase (Race)
           With D-Glu
 pdb|1ZUW|B Chain B, Crystal Structure Of B.Subtilis Glutamate Racemase (Race)
           With D-Glu
 pdb|1ZUW|C Chain C, Crystal Structure Of B.Subtilis Glutamate Racemase (Race)
           With D-Glu
          Length = 272

 Score = 32.7 bits (73), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 301 EDGYAILNQFKDEMERINSRNIVLL-ETKRHEYGEVERFKRMFVCWERTSYAFKNHCRRL 359
           + G   L   K+ M ++   NI+ + +TKR  YG     + +   WE T+Y  +NH  ++
Sbjct: 10  DSGVGGLTVAKEIMRQLPKENIIYVGDTKRCPYGPRPEEEVLQYTWELTNYLLENHHIKM 69

Query: 360 LAV 362
           L +
Sbjct: 70  LVI 72


>pdb|3N6X|A Chain A, Crystal Structure Of A Putative Glutathionylspermidine
           Synth (Mfla_0391) From Methylobacillus Flagellatus Kt At
           2.35 A R
          Length = 474

 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 12/39 (30%), Positives = 23/39 (58%), Gaps = 7/39 (17%)

Query: 430 NGIDYAVEEFLPKAVYRQCCLKIFTQMVKRFPTAPVEHF 468
           +G+ Y +E        R+   ++F ++ +R+P APVEH+
Sbjct: 168 SGVSYXLEN-------RKXXXRLFPELFRRYPVAPVEHY 199


>pdb|4DM4|A Chain A, The Conserved Domain Of Yeast Cdc73
 pdb|4DM4|B Chain B, The Conserved Domain Of Yeast Cdc73
          Length = 167

 Score = 29.6 bits (65), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 9/62 (14%)

Query: 132 KGYMYRLTDDETPCHVGEWFKFEDPPRHKMILYHGQRFRDVS---HFRKAIEVFAIRDGF 188
           KGY +    D  P HV +W         K+ L   +RF+DV    +F  ++E   I  G+
Sbjct: 105 KGYYFHFAGDSVPQHVQQW------NVEKVELDKNKRFKDVEVVRYFWHSLEKELISRGY 158

Query: 189 KL 190
           +L
Sbjct: 159 RL 160


>pdb|1HTY|A Chain A, Golgi Alpha-Mannosidase Ii
          Length = 1015

 Score = 28.9 bits (63), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 11/49 (22%), Positives = 27/49 (55%)

Query: 527 DKLRNYLHQYLEMSIASRYVAIARLTAELFERRRMEVWNWYREKVTPTV 575
           + L ++  Q ++  ++S +V++  L     E +   VW+W+ + +T T+
Sbjct: 529 NTLPHWREQLVDFYVSSPFVSVTDLANNPVEAQVSPVWSWHHDTLTKTI 577


  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    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,708,516
Number of Sequences: 62578
Number of extensions: 834374
Number of successful extensions: 1928
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1917
Number of HSP's gapped (non-prelim): 14
length of query: 702
length of database: 14,973,337
effective HSP length: 106
effective length of query: 596
effective length of database: 8,340,069
effective search space: 4970681124
effective search space used: 4970681124
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: 55 (25.8 bits)