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= 024763
         (263 letters)

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

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



>pdb|2L1O|A Chain A, Zinc To Cadmium Replacement In The A. Thaliana Superman
           Cys2his2 Zinc Finger Induces Structural Rearrangements
           Of Typical Dna Base Determinant Positions
 pdb|1NJQ|A Chain A, Nmr Structure Of The Single Qalggh Zinc Finger Domain From
           Arabidopsis Thaliana Superman Protein
          Length = 39

 Score = 35.0 bits (79), Expect = 0.044,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 91  KKFECQYCFKEFANSQALGGHQNAH 115
           + + C +C +EF ++QALGGH N H
Sbjct: 5   RSYTCSFCKREFRSAQALGGHMNVH 29


>pdb|7ZNF|A Chain A, Alternating Zinc Fingers In The Human Male Associated
           Protein Zfy: 2d Nmr Structure Of An Even Finger And
           Implications For "jumping-Linker" Dna Recognition
          Length = 30

 Score = 28.5 bits (62), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)

Query: 91  KKFECQYCFKEFANSQALGGH-QNAHKKER 119
           K ++CQYC K FA+S  L  H +  H KE+
Sbjct: 1   KTYQCQYCEKRFADSSNLKTHIKTKHSKEK 30


>pdb|2EMJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
           612- 644) Of Human Zinc Finger Protein 28 Homolog
          Length = 46

 Score = 28.5 bits (62), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 15/29 (51%)

Query: 91  KKFECQYCFKEFANSQALGGHQNAHKKER 119
           K FEC  C K F+ S  L  HQ  H  E+
Sbjct: 11  KPFECAECGKSFSISSQLATHQRIHTGEK 39


>pdb|2EML|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
           752- 784) Of Human Zinc Finger Protein 28 Homolog
          Length = 46

 Score = 27.7 bits (60), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 15/25 (60%)

Query: 91  KKFECQYCFKEFANSQALGGHQNAH 115
           K +EC  C K F++ Q+L  HQ  H
Sbjct: 11  KPYECSVCGKAFSHRQSLSVHQRIH 35


>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
           Zinc Finger Protein 473
          Length = 42

 Score = 27.3 bits (59), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 85  TGESDYKKFECQYCFKEFANSQALGGHQNAHKKE 118
           +G S  K + CQ C K F  S  L  H+  H  E
Sbjct: 3   SGSSGEKPYVCQECGKAFTQSSCLSIHRRVHTGE 36


>pdb|1YU1|A Chain A, Major Tropism Determinant P3c Variant
          Length = 381

 Score = 27.3 bits (59), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 137 YLQPYQNMYNLSFNNTYHGSNTASTWFYDPS 167
           Y QP   ++  +++NT H  + A+ W+  PS
Sbjct: 333 YAQPAAALFGGNWSNTSHSGSRAALWYVGPS 363


  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
   0.313    0.127    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,841,733
Number of Sequences: 62578
Number of extensions: 246035
Number of successful extensions: 668
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 621
Number of HSP's gapped (non-prelim): 59
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
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: 50 (23.9 bits)