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= 042047
         (83 letters)

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

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



>pdb|2P3Y|A Chain A, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus.
           Northeast Structural Genomics Target Vpr109
 pdb|2P3Y|B Chain B, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus.
           Northeast Structural Genomics Target Vpr109
          Length = 491

 Score = 28.9 bits (63), Expect = 0.74,   Method: Composition-based stats.
 Identities = 10/16 (62%), Positives = 13/16 (81%)

Query: 39  GVRYTLTYQDKEGDWL 54
           G RY +TYQD +G+WL
Sbjct: 360 GQRYLVTYQDSDGNWL 375


>pdb|3VB9|A Chain A, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
           In Monoclinic Form, Northeast Structural Genomics Target
           Vpr109
 pdb|3VB9|B Chain B, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
           In Monoclinic Form, Northeast Structural Genomics Target
           Vpr109
 pdb|3VB9|C Chain C, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
           In Monoclinic Form, Northeast Structural Genomics Target
           Vpr109
 pdb|3VB9|D Chain D, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
           In Monoclinic Form, Northeast Structural Genomics Target
           Vpr109
          Length = 483

 Score = 28.9 bits (63), Expect = 0.75,   Method: Composition-based stats.
 Identities = 10/16 (62%), Positives = 13/16 (81%)

Query: 39  GVRYTLTYQDKEGDWL 54
           G RY +TYQD +G+WL
Sbjct: 360 GQRYLVTYQDSDGNWL 375


>pdb|3H51|A Chain A, Crystal Structure Of Putative CalciumCALMODULIN DEPENDENT
           PROTEIN Kinase Ii Association Domain (Np_636218.1) From
           Xanthomonas Campestris At 1.70 A Resolution
 pdb|3H51|B Chain B, Crystal Structure Of Putative CalciumCALMODULIN DEPENDENT
           PROTEIN Kinase Ii Association Domain (Np_636218.1) From
           Xanthomonas Campestris At 1.70 A Resolution
          Length = 156

 Score = 26.6 bits (57), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 19  ETLANSLIHMFATYQKSEKRG---VRYTLTYQDKEGDWLI 55
           ++  ++ ++ F    K+ K+     RYT  Y+ ++G WLI
Sbjct: 93  DSAVDAGVYTFTLTDKNGKKSDVQARYTFVYEKRDGKWLI 132


>pdb|2QAG|C Chain C, Crystal Structure Of Human Septin Trimer 267
          Length = 418

 Score = 25.8 bits (55), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 6/39 (15%)

Query: 6  IARKINLSLYNSFETLANSLIHMFATYQKSEKRGVRYTL 44
          +A++ NL  Y  F  L N +      Y+KS KRG  +TL
Sbjct: 2  VAQQKNLEGYVGFANLPNQV------YRKSVKRGFEFTL 34


>pdb|3SE1|A Chain A, Frog M-Ferritin With Magnesium, R72d Mutant
          Length = 176

 Score = 25.0 bits (53), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 16/84 (19%), Positives = 34/84 (40%), Gaps = 18/84 (21%)

Query: 4  VGIARKINLSLYNSF------------ETLANSLIHMFATYQKSEKRGVRYTLTYQDKEG 51
            + R +NL LY S+            +   +++   F  +   E+      + YQ+K+G
Sbjct: 15 AAVNRMLNLELYASYTYSSMYAFFDRDDVALHNVAEFFKEHSHEEREHAEKFMKYQNKDG 74

Query: 52 DWLIAGDVP------WQTFIESVQ 69
            ++  D+       W   +E++Q
Sbjct: 75 GRVVLQDIKKPERDEWGNTLEAMQ 98


  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
   0.320    0.135    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,252,256
Number of Sequences: 62578
Number of extensions: 71359
Number of successful extensions: 236
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 234
Number of HSP's gapped (non-prelim): 5
length of query: 83
length of database: 14,973,337
effective HSP length: 51
effective length of query: 32
effective length of database: 11,781,859
effective search space: 377019488
effective search space used: 377019488
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)