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= 006488
         (643 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 = 30.8 bits (68), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 11/62 (17%)

Query: 138 DKLNASGSITNTVHKVWAKSVEDEAWDLLRESIVYYCGNPVGTIAANDPNDSTILNYDQV 197
           DK+   GS T  V+  W K +E E WD +R +I             N  N+++I N D+ 
Sbjct: 171 DKIGGVGSSTENVN-AWWKGIEREMWDAVRCAIT----------KINKKNNNSIFNGDEC 219

Query: 198 FI 199
            +
Sbjct: 220 GV 221


>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 = 30.4 bits (67), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 11/62 (17%)

Query: 138 DKLNASGSITNTVHKVWAKSVEDEAWDLLRESIVYYCGNPVGTIAANDPNDSTILNYDQV 197
           DK+   GS T  V+  W K +E E WD +R +I             N  N+++I N D+ 
Sbjct: 172 DKIGGVGSSTENVN-AWWKGIEREMWDAVRCAIT----------KINKKNNNSIFNGDEC 220

Query: 198 FI 199
            +
Sbjct: 221 GV 222


>pdb|2YBA|A Chain A, Crystal Structure Of Nurf55 In Complex With Histone H3
 pdb|2YBA|B Chain B, Crystal Structure Of Nurf55 In Complex With Histone H3
 pdb|2YB8|B Chain B, Crystal Structure Of Nurf55 In Complex With Su(Z)12
          Length = 422

 Score = 28.9 bits (63), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 47/112 (41%), Gaps = 27/112 (24%)

Query: 82  KSGCCKCRRIESIDGLTVDNGRQPSFPNKSESNEPNVQDFKLDRQLKNGKAGISSNDKLN 141
           ++ C    +  S D L  D  + PS P  S   +P   D +L    K G  G+S N  LN
Sbjct: 143 QNACVIATKTPSSDVLVFDYTKHPSKPEPSGECQP---DLRLRGHQKEG-YGLSWNPNLN 198

Query: 142 A---SGSITNTV-----------HKVW-AKS--------VEDEAWDLLRESI 170
               S S  +T+           H+V  AK+        VED AW LL ES+
Sbjct: 199 GYLLSASDDHTICLWDINATPKEHRVIDAKNIFTGHTAVVEDVAWHLLHESL 250


>pdb|3C99|A Chain A, Structural Basis Of Histone H4 Recognition By P55
 pdb|3C9C|A Chain A, Structural Basis Of Histone H4 Recognition By P55
          Length = 432

 Score = 28.9 bits (63), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 47/112 (41%), Gaps = 27/112 (24%)

Query: 82  KSGCCKCRRIESIDGLTVDNGRQPSFPNKSESNEPNVQDFKLDRQLKNGKAGISSNDKLN 141
           ++ C    +  S D L  D  + PS P  S   +P   D +L    K G  G+S N  LN
Sbjct: 141 QNACVIATKTPSSDVLVFDYTKHPSKPEPSGECQP---DLRLRGHQKEG-YGLSWNPNLN 196

Query: 142 A---SGSITNTV-----------HKVW-AKS--------VEDEAWDLLRESI 170
               S S  +T+           H+V  AK+        VED AW LL ES+
Sbjct: 197 GYLLSASDDHTICLWDINATPKEHRVIDAKNIFTGHTAVVEDVAWHLLHESL 248


>pdb|2XYI|A Chain A, Crystal Structure Of Nurf55 In Complex With A H4 Peptide
          Length = 430

 Score = 28.9 bits (63), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 47/112 (41%), Gaps = 27/112 (24%)

Query: 82  KSGCCKCRRIESIDGLTVDNGRQPSFPNKSESNEPNVQDFKLDRQLKNGKAGISSNDKLN 141
           ++ C    +  S D L  D  + PS P  S   +P   D +L    K G  G+S N  LN
Sbjct: 139 QNACVIATKTPSSDVLVFDYTKHPSKPEPSGECQP---DLRLRGHQKEG-YGLSWNPNLN 194

Query: 142 A---SGSITNTV-----------HKVW-AKS--------VEDEAWDLLRESI 170
               S S  +T+           H+V  AK+        VED AW LL ES+
Sbjct: 195 GYLLSASDDHTICLWDINATPKEHRVIDAKNIFTGHTAVVEDVAWHLLHESL 246


  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    0.136    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,496,936
Number of Sequences: 62578
Number of extensions: 898976
Number of successful extensions: 2057
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2052
Number of HSP's gapped (non-prelim): 14
length of query: 643
length of database: 14,973,337
effective HSP length: 105
effective length of query: 538
effective length of database: 8,402,647
effective search space: 4520624086
effective search space used: 4520624086
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: 55 (25.8 bits)