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= psy7944
         (231 letters)

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

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



>pdb|3CML|A Chain A, Crystal Structure Of The Dbl3x Domain Of The Plasmodium
           Falcipurum Var2csa Protein
 pdb|3CPZ|A Chain A, Crystal Structure Of Var2csa Dbl3x Domain In The Presence
           Of Dodecasaccharide Of Csa
          Length = 362

 Score = 29.3 bits (64), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 3/76 (3%)

Query: 150 TGRNNKKAVEDSGHQGDKVEE--NPPCTSSMYAFPEENGLWFPEKLTYLDK-IGTVLKLR 206
            G+N KK +     QGDK++      C        E+   W  +K  Y +K +G      
Sbjct: 261 NGKNEKKCINSKSGQGDKIQGACKRKCEKYKKYISEKKQEWDKQKTKYENKYVGKSASDL 320

Query: 207 LQEYVSCCMPADLTFF 222
           L+E    C+ A+  F 
Sbjct: 321 LKENYPECISANFDFI 336


>pdb|3BQI|A Chain A, Structure Of A Chondroitin Sulphate Binding Dbl3x From A
           Var2csa Encoded Pfemp1 Protein
 pdb|3BQK|A Chain A, Structure Of A Chondroitin Sulphate Binding Dbl3x From A
           Var2csa Encoded Pfemp1 Protein In Complex With Sulphate
 pdb|3BQL|A Chain A, Structure Of A Chondroitin Sulphate Binding Dbl3x Domain
           From A Var2csa Encoded Pfemp1 Protein
          Length = 360

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 3/76 (3%)

Query: 150 TGRNNKKAVEDSGHQGDKVEE--NPPCTSSMYAFPEENGLWFPEKLTYLDK-IGTVLKLR 206
            G+N KK +     QGDK++      C        E+   W  +K  Y +K +G      
Sbjct: 262 NGKNEKKCINSKSGQGDKIQGACKRKCEKYKKYISEKKQEWDKQKTKYENKYVGKSASDL 321

Query: 207 LQEYVSCCMPADLTFF 222
           L+E    C+ A+  F 
Sbjct: 322 LKENYPECISANFDFI 337


>pdb|3D1N|I Chain I, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|J Chain J, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|K Chain K, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|L Chain L, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|M Chain M, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|N Chain N, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|O Chain O, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
 pdb|3D1N|P Chain P, Structure Of Human Brn-5 Transcription Factor In Complex
          With Corticotrophin-Releasing Hormone Gene Promoter
          Length = 151

 Score = 27.3 bits (59), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 23 FLQCLNPKFSFTNLLP-SRQRLEMMREMYHNEAEMSPTSPDYNIESLTGGDPFYDR 77
          + Q    +F   ++ P S Q+L+ + E + NEAE+       N+    GG+P   R
Sbjct: 39 YSQSAISRFEKLDITPKSAQKLKPVLEKWLNEAELRNQEGQQNLXEFVGGEPSKKR 94


>pdb|3BOM|B Chain B, Crystal Structure Of Trout Hemoglobin At 1.35 Angstrom
           Resolution
 pdb|3BOM|D Chain D, Crystal Structure Of Trout Hemoglobin At 1.35 Angstrom
           Resolution
 pdb|2R1H|B Chain B, Met-trout Iv Hemoglobin At Ph 6.3
 pdb|2R1H|D Chain D, Met-trout Iv Hemoglobin At Ph 6.3
          Length = 147

 Score = 26.9 bits (58), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 3/69 (4%)

Query: 79  PWFRLVGRAFVYLSNLMYPIPLIQKVAIVNEKGDVKGHLKIAVQIVTDEESTDLTGTVKQ 138
           PW +   R F    NL  P  ++   A+      V   L  AVQ + D ++T +T +V  
Sbjct: 36  PWTQ---RHFSTFGNLSTPAAIMGNPAVAKHGKTVMHGLDRAVQNLDDIKNTYVTLSVMH 92

Query: 139 SARIIFDDD 147
           S ++  D D
Sbjct: 93  SEKLFVDPD 101


  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    0.138    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,404,209
Number of Sequences: 62578
Number of extensions: 308261
Number of successful extensions: 669
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 668
Number of HSP's gapped (non-prelim): 18
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
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: 50 (23.9 bits)