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= 031472
         (159 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 = 31.2 bits (69), Expect = 0.23,   Method: Composition-based stats.
 Identities = 13/25 (52%), Positives = 15/25 (60%)

Query: 30 RVFACKTCNKEFPSFQALGGHRASH 54
          R + C  C +EF S QALGGH   H
Sbjct: 5  RSYTCSFCKREFRSAQALGGHMNVH 29


>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
          Protein Odd-Skipped-Related 2 Splicing Isoform 2
          Length = 106

 Score = 28.1 bits (61), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 17 MLLSKVGETDQGKRVFACKTCNKEFPSFQALGGHRASHKKPKLMTMASSGEDFDQTQ 73
          +L+ +   TD+  R + C  C+K F     L  HR  H K K       G+ F Q++
Sbjct: 33 LLIHERTHTDE--RPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKGFCQSR 87


>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 = 28.1 bits (61), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 3/80 (3%)

Query: 19  LSKVGETDQGKRVFACKTCNKEFPSFQALGGHRASHKKPKLMTMASSGEDFDQTQMPPAS 78
           L++   T  G++ + C  C K F     L  H+ +H   K       G+ F Q     A 
Sbjct: 65  LTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAH 124

Query: 79  PRK---PKTHECSICGLEFA 95
            R     K ++C  CG  F+
Sbjct: 125 QRTHTGEKPYKCPECGKSFS 144



 Score = 27.7 bits (60), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 7/76 (9%)

Query: 25  TDQGKRVFACKTCNKEFPSFQALGGHRASHKKPKLMTMASSGEDFD-----QTQMPPASP 79
           T  G++ +AC  C K F     L  H+ +H   K       G+ F       T     + 
Sbjct: 99  THTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTG 158

Query: 80  RKPKTHECSICGLEFA 95
            KP  ++C  CG  F+
Sbjct: 159 EKP--YKCPECGKSFS 172


>pdb|2ENA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
          311- 343) Of Human Zinc Finger Protein 224
          Length = 46

 Score = 26.6 bits (57), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 17/36 (47%)

Query: 23 GETDQGKRVFACKTCNKEFPSFQALGGHRASHKKPK 58
          G +   ++ F C TC+K F    AL  HR  H   K
Sbjct: 4  GSSGTAEKPFRCDTCDKSFRQRSALNSHRMIHTGEK 39


>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
          Of Human Transcriptional Repressor Ctcf
          Length = 86

 Score = 25.8 bits (55), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 13/41 (31%), Positives = 19/41 (46%)

Query: 23 GETDQGKRVFACKTCNKEFPSFQALGGHRASHKKPKLMTMA 63
          G T  G++ +AC  C+K F   Q L  H   +  P  +  A
Sbjct: 7  GRTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAA 47


  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    0.132    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,658,124
Number of Sequences: 62578
Number of extensions: 103933
Number of successful extensions: 370
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 322
Number of HSP's gapped (non-prelim): 48
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)