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= 017258
         (374 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 = 39.7 bits (91), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 24/37 (64%)

Query: 30 HQKAKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKV 66
          H   K ++C++CH + + +G M +H+LQ H ENV K 
Sbjct: 10 HSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKF 46


>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 = 31.6 bits (70), Expect = 0.85,   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|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human
          Zinc Finger Protein 512
          Length = 96

 Score = 29.3 bits (64), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 22/41 (53%)

Query: 19 REFDDEKILVQHQKAKHFKCHVCHKKLSTAGGMAIHVLQVH 59
          +  +  K  +++ K + F CH C K+L +  GM  HV+  H
Sbjct: 46 KTIEGLKKHMENCKQEMFTCHHCGKQLRSLAGMKYHVMANH 86


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

 Score = 28.5 bits (62), Expect = 5.8,   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 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 54


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

 Score = 28.5 bits (62), Expect = 5.9,   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|2JP9|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
          Finger Domain Bound To Dna
 pdb|2JPA|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
          Finger Domain Bound To Dna
 pdb|2PRT|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
          Finger Domain Bound To Dna
          Length = 119

 Score = 28.5 bits (62), Expect = 6.2,   Method: Composition-based stats.
 Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 4/42 (9%)

Query: 17 CDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIH 54
          C+R F     L +HQ+     K F+C  C +K S +  +  H
Sbjct: 44 CERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTH 85


  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
   0.311    0.125    0.363 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,024,732
Number of Sequences: 62578
Number of extensions: 312379
Number of successful extensions: 555
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 546
Number of HSP's gapped (non-prelim): 13
length of query: 374
length of database: 14,973,337
effective HSP length: 100
effective length of query: 274
effective length of database: 8,715,537
effective search space: 2388057138
effective search space used: 2388057138
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)