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= 032804
         (133 letters)

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

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



>pdb|3LQ6|A Chain A, Crystal Structure Of Murine Norovirus Protruding (P)
           Domain
 pdb|3LQ6|B Chain B, Crystal Structure Of Murine Norovirus Protruding (P)
           Domain
 pdb|3LQE|A Chain A, X-Ray Structure Of The Murine Norovirus (Mnv)-1 Capsid
           Prote Protruding (P) Domain
          Length = 320

 Score = 29.6 bits (65), Expect = 0.47,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 47  WWAPLFGWSSDPGYLNNNNRKKNQLEMAGTDNNSGRPGSRFSPGCFTEEKAKQLRKKTAE 106
           W AP++G   DP   +N   +  ++ + GT   +  P S     CF  E A + +  T E
Sbjct: 24  WPAPVYGLLVDPSLPSNPQWQNGRVHVDGTLLGT-TPISGSWVSCFAAEAAYEFQSGTGE 82

Query: 107 SSSF 110
            ++F
Sbjct: 83  VATF 86


>pdb|2JMU|A Chain A, Nmr Structure Of The Mouse Thiamine Triphosphatase
          Length = 224

 Score = 27.7 bits (60), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 22/41 (53%)

Query: 86  RFSPGCFTEEKAKQLRKKTAESSSFHDVMYHSALASRLASD 126
           +F+PG  TEE+ ++L        +F D  Y ++  S + SD
Sbjct: 11  KFAPGPDTEERLQELGATLEHRVTFRDTYYDTSELSLMLSD 51


>pdb|3IR4|A Chain A, 1.2 Angstrom Crystal Structure Of The Glutaredoxin 2
           (Grxb) From Salmonella Typhimurium In Complex With
           Glutathione
          Length = 218

 Score = 27.3 bits (59), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 6/51 (11%)

Query: 86  RFSPGCFTE---EKAKQ--LRKKTAESSSFHDVMYHSA-LASRLASDMSVL 130
           RF+   F E     A+Q  +RKK A S SF + + HSA L  ++  D+ +L
Sbjct: 107 RFAKSAFDEFSTPAARQYFIRKKEASSGSFDNHLAHSAGLIKKIGDDLRLL 157


>pdb|2DKJ|A Chain A, Crystal Structure Of T.Th.Hb8 Serine
           Hydroxymethyltransferase
 pdb|2DKJ|B Chain B, Crystal Structure Of T.Th.Hb8 Serine
           Hydroxymethyltransferase
          Length = 407

 Score = 25.8 bits (55), Expect = 6.9,   Method: Composition-based stats.
 Identities = 14/53 (26%), Positives = 28/53 (52%), Gaps = 3/53 (5%)

Query: 81  GRPGSRFSPGCFTEEKAKQL---RKKTAESSSFHDVMYHSALASRLASDMSVL 130
           G PG+R+  GC   ++ + L   R K    +++ +V  HS   + +A  M+++
Sbjct: 54  GYPGARYYGGCEVIDRVESLAIERAKALFGAAWANVQPHSGSQANMAVYMALM 106


  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    0.126    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,776,430
Number of Sequences: 62578
Number of extensions: 133868
Number of successful extensions: 146
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 145
Number of HSP's gapped (non-prelim): 6
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
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: 46 (22.3 bits)