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= psy12853
         (137 letters)

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

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



>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A
          Ring-Ibr- Ring (Triad) Motif
          Length = 60

 Score = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 48 IKCCPMCSVPIEKDEGCAQMLCK--RCKHVFCWYCLASRDYGGATF 91
           K CP C V IEKD GC  M+C+   CK  FCW CL   +  G+ +
Sbjct: 6  TKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGSAW 51



 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 96  IKCCPMCSVPIEKDEGCAQMLCK--RCKHVFCWYCLASLDVSRS 137
            K CP C V IEKD GC  M+C+   CK  FCW CL   +   S
Sbjct: 6   TKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS 49


>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain
          Length = 101

 Score = 30.0 bits (66), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 7/43 (16%)

Query: 72  CKHVFCWYCLASRDYGGATFDSELIKCCPMCSVPIEKDEGCAQ 114
           CKHVFC+ C    +  G        K CP CS P+++ E C +
Sbjct: 20  CKHVFCYDCAILHEKKGD-------KMCPGCSDPVQRIEQCTR 55


>pdb|3TQJ|A Chain A, Structure Of The Superoxide Dismutase (Fe) (Sodb) From
           Coxiella Burnetii
 pdb|3TQJ|B Chain B, Structure Of The Superoxide Dismutase (Fe) (Sodb) From
           Coxiella Burnetii
          Length = 210

 Score = 30.0 bits (66), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 20/80 (25%), Positives = 31/80 (38%), Gaps = 10/80 (12%)

Query: 34  HRTQVSGATFDSELIKCCPMCSVPIEK-----DEGCAQMLCKRCKHVFCWYCLASRDYGG 88
           HR  V+     ++LI+  P    P+E+     D G      +   H F W+C++    GG
Sbjct: 32  HRAYVNKL---NKLIEGTPFEKEPLEEIIRKSDGGIFNNAAQHWNHTFYWHCMSPD--GG 86

Query: 89  ATFDSELIKCCPMCSVPIEK 108
                EL          +EK
Sbjct: 87  GDPSGELASAIDKTFGSLEK 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
   0.328    0.138    0.495 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,020,523
Number of Sequences: 62578
Number of extensions: 143807
Number of successful extensions: 457
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 428
Number of HSP's gapped (non-prelim): 49
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)