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= 002597
         (902 letters)

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

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



>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
           MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
           Homolog
          Length = 111

 Score = 33.9 bits (76), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 28/65 (43%), Gaps = 12/65 (18%)

Query: 740 FHQSCLDIQMLPP--GDWHCPNC-TCKFCGLXXXXXXXXXXXXXSALLPCAMCEKKYHKL 796
           +H  CLDI + P     W CP C  C+ C               S +L C  C+K YH  
Sbjct: 32  YHGMCLDIAVTPLKRAGWQCPECKVCQNC---------KQSGEDSKMLVCDTCDKGYHTF 82

Query: 797 CMQEM 801
           C+Q +
Sbjct: 83  CLQPV 87


>pdb|3C6W|A Chain A, Crystal Structure Of The Ing5 Phd Finger In Complex With
           H3k4me3 Peptide
 pdb|3C6W|C Chain C, Crystal Structure Of The Ing5 Phd Finger In Complex With
           H3k4me3 Peptide
          Length = 59

 Score = 32.7 bits (73), Expect = 0.82,   Method: Composition-based stats.
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 740 FHQSCLDIQMLPPGDWHCPNC 760
           FH +C+D+   P G W CP C
Sbjct: 35  FHFACVDLTTKPKGKWFCPRC 55


>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
           H3k4me3 Peptide
          Length = 62

 Score = 32.3 bits (72), Expect = 1.2,   Method: Composition-based stats.
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 740 FHQSCLDIQMLPPGDWHCPNC 760
           FH SC+ +   P G W+CP C
Sbjct: 37  FHFSCVSLTYKPKGKWYCPKC 57


>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
           Protein 3 (Ing3)
          Length = 70

 Score = 32.0 bits (71), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 740 FHQSCLDIQMLPPGDWHCPNCT 761
           FH  C+ +   P G W+CP CT
Sbjct: 32  FHYGCVGLTEAPKGKWYCPQCT 53


>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
          Length = 61

 Score = 31.6 bits (70), Expect = 2.3,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 2/26 (7%)

Query: 737 PSTFHQSCLDIQM--LPPGDWHCPNC 760
           P  +H  CLD  M   P G W CP+C
Sbjct: 30  PRAYHMVCLDPDMEKAPEGKWSCPHC 55


>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With C-
           Terminal Loop Replaced By Corresponding Loop From Wstf
          Length = 61

 Score = 30.8 bits (68), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)

Query: 737 PSTFHQSCLDIQM--LPPGDWHCPNCTC 762
           PS++H  CL   +  +P G+W CP CTC
Sbjct: 28  PSSYHIHCLRPALYEVPDGEWQCPRCTC 55


>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
 pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
          Length = 61

 Score = 30.4 bits (67), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)

Query: 737 PSTFHQSCLDIQM--LPPGDWHCPNCTCK 763
           PS++H  CL+  +  +P G+W CP CTC 
Sbjct: 28  PSSYHIHCLNPPLPEIPNGEWLCPRCTCP 56


>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
           Family, Member 1-Like
          Length = 71

 Score = 30.0 bits (66), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 740 FHQSCLDIQMLPPGDWHCPNC 760
           FH SC+ +   P G W+CP C
Sbjct: 42  FHFSCVSLTYKPKGKWYCPKC 62


>pdb|2VNF|A Chain A, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
 pdb|2VNF|C Chain C, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
          Length = 60

 Score = 30.0 bits (66), Expect = 6.5,   Method: Composition-based stats.
 Identities = 9/22 (40%), Positives = 13/22 (59%)

Query: 740 FHQSCLDIQMLPPGDWHCPNCT 761
           FH +C+ +   P G W CP C+
Sbjct: 36  FHFACVGLTTKPRGKWFCPRCS 57


  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
   0.315    0.133    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,511,381
Number of Sequences: 62578
Number of extensions: 815359
Number of successful extensions: 1515
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1499
Number of HSP's gapped (non-prelim): 20
length of query: 902
length of database: 14,973,337
effective HSP length: 108
effective length of query: 794
effective length of database: 8,214,913
effective search space: 6522640922
effective search space used: 6522640922
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)