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= 021252
         (315 letters)

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

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



>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
          Transcriptional Repressor Ctcf Protein
          Length = 77

 Score = 39.3 bits (90), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 24/36 (66%)

Query: 30 HQKAKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTK 65
          H   K ++C++CH + + +G M +H+LQ H ENV K
Sbjct: 10 HSGEKPYECYICHARFTQSGTMKMHILQKHTENVAK 45


>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc
          Site)
 pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt
          Site)
          Length = 90

 Score = 32.0 bits (71), Expect = 0.47,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F D   L +H +     K F+C +C +  S +  +  H+
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
          Of Human Zinc Finger Protein 24
          Length = 72

 Score = 30.8 bits (68), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 14 CYYCDREFDDEKILVQHQKA----KHFKCHVCHKKLSTAGGMAIH 54
          C  C + F    ILVQHQ+     K +KC  C K  S   G+  H
Sbjct: 17 CVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINH 61


>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
          Domains From Human Kruppel-Like Factor 5
          Length = 100

 Score = 29.3 bits (64), Expect = 2.6,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CD  F     L +H +    AK F+C VC++  S +  +A+H+
Sbjct: 53 CDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHM 95


>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
          Site)
          Length = 90

 Score = 29.3 bits (64), Expect = 3.1,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F     L +H +     K F+C +C +  S +  +  H+
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
 pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
          Length = 90

 Score = 28.9 bits (63), Expect = 3.6,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F     L +H +     K F+C +C +  S +  +  H+
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
          Site)
 pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt
          Site)
 pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc
          Site)
          Length = 90

 Score = 28.9 bits (63), Expect = 3.8,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F     L +H +     K F+C +C +  S +  +  H+
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed
          To Dna
 pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed
          To Dna
          Length = 87

 Score = 28.9 bits (63), Expect = 3.8,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F     L +H +     K F+C +C +  S +  +  H+
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 53


>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
          Zif268- Dna Complex At 2.1 Angstroms
          Length = 87

 Score = 28.9 bits (63), Expect = 4.0,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F     L +H +     K F+C +C +  S +  +  H+
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
 pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
          Length = 90

 Score = 28.9 bits (63), Expect = 4.0,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHV 55
          CDR F     L +H +     K F+C +C +  S +  +  H+
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


>pdb|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human
          Zinc Finger Protein 512
          Length = 96

 Score = 28.5 bits (62), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 28 VQHQKAKHFKCHVCHKKLSTAGGMAIHVLQVH 59
          +++ K + F CH C K+L +  GM  HV+  H
Sbjct: 55 MENCKQEMFTCHHCGKQLRSLAGMKYHVMANH 86


>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
          Triplets
 pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
          Triplets
          Length = 190

 Score = 27.3 bits (59), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 14 CYYCDREFDDEKILVQHQKA----KHFKCHVCHKKLSTAGGMAIH 54
          C  C + F D+K L +HQ+     K +KC  C K  S    +  H
Sbjct: 52 CPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAH 96


  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
   0.317    0.130    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,973,490
Number of Sequences: 62578
Number of extensions: 216631
Number of successful extensions: 511
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 500
Number of HSP's gapped (non-prelim): 26
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)