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= psy6159
         (101 letters)

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

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



>pdb|3F5F|A Chain A, Crystal Structure Of Heparan Sulfate 2-O-Sulfotransferase
           From Gallus Gallus As A Maltose Binding Protein Fusion
          Length = 658

 Score = 32.3 bits (72), Expect = 0.059,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 24/36 (66%)

Query: 7   YAVVGLLEDLNVTLTVMENYIPRFFAHASQIYNEGR 42
           Y +VG+ E+L   + ++E  +PRFF  A+++Y  G+
Sbjct: 550 YFLVGVTEELEDFIMLLEAALPRFFRGATELYRTGK 585


>pdb|3DGV|A Chain A, Crystal Structure Of Thrombin Activatable Fibrinolysis
          Inhibitor (Tafi)
 pdb|3DGV|B Chain B, Crystal Structure Of Thrombin Activatable Fibrinolysis
          Inhibitor (Tafi)
 pdb|3DGV|C Chain C, Crystal Structure Of Thrombin Activatable Fibrinolysis
          Inhibitor (Tafi)
 pdb|3OSL|A Chain A, Structure Of Bovine Thrombin-Activatable Fibrinolysis
          Inhibitor In Complex With Tick Carboxypeptidase
          Inhibitor
 pdb|3OSL|C Chain C, Structure Of Bovine Thrombin-Activatable Fibrinolysis
          Inhibitor In Complex With Tick Carboxypeptidase
          Inhibitor
          Length = 401

 Score = 29.3 bits (64), Expect = 0.60,   Method: Composition-based stats.
 Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 7/59 (11%)

Query: 22 VMENYIPRFFAHASQIYN-EGRLDRWIGERQPFREQTLSVEDKIRQERESN---PRPSA 76
          +++ Y   FF +AS + N +  L+     R PFR    +VED IRQ+  ++   PR S+
Sbjct: 40 IVKGYEVHFFVNASDVSNVKAHLN---ASRIPFRVLVENVEDLIRQQTSNDTISPRASS 95


>pdb|1G5H|A Chain A, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
 pdb|1G5H|B Chain B, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
 pdb|1G5H|C Chain C, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
 pdb|1G5H|D Chain D, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
          Length = 454

 Score = 26.9 bits (58), Expect = 2.5,   Method: Composition-based stats.
 Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 11/65 (16%)

Query: 45  RWIGERQPFREQTLSVEDKIRQERESNPRPSAYK-----------ADAQPTKLTIGCRLA 93
           +W      FREQ  +V+   ++   S PR SA++            D +P+K  +   L 
Sbjct: 71  QWWSSXVVFREQVFAVDSLHQEPGSSQPRDSAFRLVSPESIREILQDREPSKEQLVAFLE 130

Query: 94  NFILT 98
           N + T
Sbjct: 131 NLLKT 135


>pdb|1G5I|A Chain A, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
 pdb|1G5I|B Chain B, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
 pdb|1G5I|C Chain C, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
 pdb|1G5I|D Chain D, Crystal Structure Of The Accessory Subunit Of Murine
           Mitochondrial Polymerase Gamma
          Length = 454

 Score = 25.4 bits (54), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 11/66 (16%)

Query: 44  DRWIGERQPFREQTLSVEDKIRQERESNPRPSAYK-----------ADAQPTKLTIGCRL 92
            +W      FREQ  +V+   ++   S PR SA++            D +P+K  +   L
Sbjct: 70  SQWWSSMVVFREQVFAVDSLHQEPGSSQPRDSAFRLVSPESIREILQDREPSKEQLVAFL 129

Query: 93  ANFILT 98
            N + T
Sbjct: 130 ENLLKT 135


  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    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,861,075
Number of Sequences: 62578
Number of extensions: 98364
Number of successful extensions: 184
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 181
Number of HSP's gapped (non-prelim): 4
length of query: 101
length of database: 14,973,337
effective HSP length: 67
effective length of query: 34
effective length of database: 10,780,611
effective search space: 366540774
effective search space used: 366540774
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)