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= 036914
         (68 letters)

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

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



>pdb|2WYA|A Chain A, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
           Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
 pdb|2WYA|B Chain B, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
           Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
 pdb|2WYA|C Chain C, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
           Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
 pdb|2WYA|D Chain D, Crystal Structure Of Human Mitochondrial 3-Hydroxy-3-
           Methylglutaryl-Coenzyme A Synthase 2 (Hmgcs2)
          Length = 460

 Score = 28.9 bits (63), Expect = 0.77,   Method: Composition-based stats.
 Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)

Query: 33  KAGSPEELAEVEEARQKFYKNRHNVKPAGD 62
           K  SPEE  E+   R++FY ++ N  P GD
Sbjct: 405 KCVSPEEFTEIMNQREQFY-HKVNFSPPGD 433


>pdb|3Q3Q|A Chain A, Crystal Structure Of Spap: An Novel Alkaline Phosphatase
           From Bacterium Sphingomonas Sp. Strain Bsar-1
          Length = 565

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 5/47 (10%)

Query: 22  FVGRQIWEFDPKAGSPEELAEVEEARQKFYKNRHNVKPAGDLLWRLQ 68
           F   +I      +G PE  + ++EAR  FY +R     +GDLL  L+
Sbjct: 432 FTKAEIAATPSPSGPPESWSLIQEARASFYPSR-----SGDLLLLLK 473


>pdb|3NGF|A Chain A, Crystal Structure Of Ap Endonuclease, Family 2 From
           Brucella Melitensis
 pdb|3NGF|B Chain B, Crystal Structure Of Ap Endonuclease, Family 2 From
           Brucella Melitensis
          Length = 269

 Score = 26.2 bits (56), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 3/37 (8%)

Query: 8   EGDKNSPYMFTTNNFVGRQIW---EFDPKAGSPEELA 41
           EG+ N PY+F+    VG + W   E++P+  +   LA
Sbjct: 223 EGELNYPYLFSVLESVGYRGWVGCEYNPRGKTESGLA 259


>pdb|3DPT|A Chain A, Cor Domain Of Rab Family Protein (Roco)
 pdb|3DPT|B Chain B, Cor Domain Of Rab Family Protein (Roco)
          Length = 332

 Score = 25.4 bits (54), Expect = 8.1,   Method: Composition-based stats.
 Identities = 11/25 (44%), Positives = 14/25 (56%)

Query: 21  NFVGRQIWEFDPKAGSPEELAEVEE 45
           NF    + EF P  G P+EL E +E
Sbjct: 268 NFTNLDVKEFIPLPGHPDELVEYKE 292


>pdb|3DPU|A Chain A, Roccor Domain Tandem Of Rab Family Protein (Roco)
 pdb|3DPU|B Chain B, Roccor Domain Tandem Of Rab Family Protein (Roco)
          Length = 535

 Score = 25.4 bits (54), Expect = 9.0,   Method: Composition-based stats.
 Identities = 11/25 (44%), Positives = 14/25 (56%)

Query: 21  NFVGRQIWEFDPKAGSPEELAEVEE 45
           NF    + EF P  G P+EL E +E
Sbjct: 471 NFTNLDVKEFIPLPGHPDELVEYKE 495


  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
   0.317    0.134    0.426 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,370,948
Number of Sequences: 62578
Number of extensions: 81599
Number of successful extensions: 172
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: 170
Number of HSP's gapped (non-prelim): 5
length of query: 68
length of database: 14,973,337
effective HSP length: 38
effective length of query: 30
effective length of database: 12,595,373
effective search space: 377861190
effective search space used: 377861190
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)