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= 025800
         (248 letters)

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

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



>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
           Cellular Modulator Of Immune Recognition Protein
          Length = 80

 Score = 33.5 bits (75), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 24/54 (44%), Gaps = 5/54 (9%)

Query: 122 ICRICHLCLESNSHESGVPIQLGCSCKDDLAAAHKQCAEAWFKIRGNKTCEICN 175
           ICRICH        ES  P+   C C   L   H+ C + W K    + CE+C 
Sbjct: 17  ICRICHC---EGDDES--PLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65


>pdb|1VYX|A Chain A, Solution Structure Of The Kshv K3 N-Terminal Domain
          Length = 60

 Score = 31.2 bits (69), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 24/61 (39%), Gaps = 7/61 (11%)

Query: 117 ERDCRICRICHLCLESNSHESGVPIQLGCSCKDDLAAAHKQCAEAWFKIRGNKTCEICNS 176
           + D  +C IC+        E G      C C  +L   H+ C   W  I  N  C+IC  
Sbjct: 3   DEDVPVCWICN-------EELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGV 55

Query: 177 I 177
           +
Sbjct: 56  V 56


>pdb|3G9A|B Chain B, Green Fluorescent Protein Bound To Minimizer Nanobody
          Length = 139

 Score = 27.7 bits (60), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 13/47 (27%), Positives = 26/47 (55%), Gaps = 3/47 (6%)

Query: 134 SHESGVPIQLGCSCKDDLAAAHKQCAEAWFKIRGNKTCEICNSIARN 180
           S ++G  ++L C+   D  +++     AWF+    K CE+ ++I R+
Sbjct: 13  SVQAGGSLRLSCAASGDTFSSYSM---AWFRQAPGKECELVSNILRD 56


  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
   0.321    0.134    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,426,834
Number of Sequences: 62578
Number of extensions: 206974
Number of successful extensions: 376
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 374
Number of HSP's gapped (non-prelim): 4
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)