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= 006796
         (630 letters)

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

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



>pdb|2PLA|A Chain A, Crystal Structure Of Human Glycerol-3-Phosphate
           Dehydrogenase 1-Like Protein
 pdb|2PLA|B Chain B, Crystal Structure Of Human Glycerol-3-Phosphate
           Dehydrogenase 1-Like Protein
          Length = 349

 Score = 31.2 bits (69), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 29/120 (24%), Positives = 57/120 (47%), Gaps = 7/120 (5%)

Query: 191 SAEMWSFNDTSTSKYISALEDELEKTRSSVENLQS-KLRMGLEIENHLKKSVRELEKKI- 248
           + +MW F +T   +    L D +     +V+ L   KL   +   ++L ++V++ +  + 
Sbjct: 37  TVKMWVFEETVNGR---KLTDIINNDHENVKYLPGHKLPENVVAMSNLSEAVQDADLLVF 93

Query: 249 IHSDKFISNAIAEL--RLCHSQLRVHVVNSLEEGRSHIKSISDVIEEKTQHCDDVIRGQN 306
           +   +FI     E+  R+    L + ++  ++EG   +K ISD+I EK      V+ G N
Sbjct: 94  VIPHQFIHRICDEITGRVPKKALGITLIKGIDEGPEGLKLISDIIREKMGIDISVLMGAN 153


>pdb|3IBP|A Chain A, The Crystal Structure Of The Dimerization Domain Of
           Escherichia Coli Structural Maintenance Of Chromosomes
           Protein Mukb
          Length = 302

 Score = 29.6 bits (65), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 26/40 (65%)

Query: 124 QTRLEELSSENIELKKQNATLRFDLEKQEELNESFKEVIN 163
           ++R+E L +E   L ++ ATL FD++K + L+++F   I 
Sbjct: 223 ESRIESLHAEREVLSERFATLSFDVQKTQRLHQAFSRFIG 262


>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
           Nucleotide Free Form
 pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
           Analogue, Gmppnp
          Length = 592

 Score = 29.3 bits (64), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 54/199 (27%), Positives = 86/199 (43%), Gaps = 28/199 (14%)

Query: 8   SSCVCSKLDLVTLLSPLVCISKAGLE----------QEIEILKQKIAACARENSNLQEEL 57
           SS  CS L L  + SPL    KAG+           Q+++ LK+K     R+    +E L
Sbjct: 403 SSDRCSGL-LQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYEEPRKGIQAEEIL 461

Query: 58  SEAYRIKGQLAD--LHAAEVIKNMEAEKQVKFFQGCMAAAFAERDNSVMXXXXXXXXXXL 115
               + K  + D  L   + +   E E +V+  +   A A A+     M          +
Sbjct: 462 QTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAK-----MLHEMQRKNEQM 516

Query: 116 MSQKFNEFQTRLEELSSENIE------LKKQNATLRFDLEKQEELNESFKEVINKFYEIR 169
           M QK   +Q  L++L+ E +E      LK+Q  TL   L++QE+L    KE   K   I 
Sbjct: 517 MEQKERSYQEHLKQLT-EKMENDRVQLLKEQERTLALKLQEQEQL---LKEGFQKESRIM 572

Query: 170 QQSLEVLETSWEDKCACLL 188
           +  ++ L+T    + AC +
Sbjct: 573 KNEIQDLQTKMRRRKACTI 591


  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
   0.311    0.127    0.340 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,304,649
Number of Sequences: 62578
Number of extensions: 568488
Number of successful extensions: 1721
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1692
Number of HSP's gapped (non-prelim): 55
length of query: 630
length of database: 14,973,337
effective HSP length: 105
effective length of query: 525
effective length of database: 8,402,647
effective search space: 4411389675
effective search space used: 4411389675
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)