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= 011334
         (488 letters)

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

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



>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 = 40.0 bits (92), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 36/139 (25%), Positives = 58/139 (41%), Gaps = 23/139 (16%)

Query: 64  FICEICNKGFQRDQNLQLHRRGH--NLPWKLRQ-----RTNKDVIK-------KKVYICP 109
           + C  C K F R  +L  H+R H    P+K  +        KD+ +       +K Y CP
Sbjct: 22  YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81

Query: 110 EKTCVHHEPSRALGDLTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKT-CGTREY 168
           E  C      ++      ++ H     G            ++  +  +AH +T  G + Y
Sbjct: 82  E--C-----GKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPY 134

Query: 169 KC-DCGTLFSRKDSFITHR 186
           KC +CG  FSR+D+  TH+
Sbjct: 135 KCPECGKSFSREDNLHTHQ 153



 Score = 38.9 bits (89), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 33/142 (23%), Positives = 55/142 (38%), Gaps = 23/142 (16%)

Query: 47  DAEVIALSPKTLMATNRFICEICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVY 106
           D + +    +T      + C  C K F +  NL+ H+R H                +K Y
Sbjct: 61  DKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTH--------------TGEKPY 106

Query: 107 ICPEKTCVHHEPSRALGDLTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKT-CGT 165
            CPE  C      ++   L  ++ H     G            ++ + +   H +T  G 
Sbjct: 107 ACPE--C-----GKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGE 159

Query: 166 REYKC-DCGTLFSRKDSFITHR 186
           + YKC +CG  FSR+D+   H+
Sbjct: 160 KPYKCPECGKSFSRRDALNVHQ 181


>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
          Nmr, 25 Structures
          Length = 60

 Score = 32.7 bits (73), Expect = 0.53,   Method: Composition-based stats.
 Identities = 10/23 (43%), Positives = 16/23 (69%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          F+CE+C + F R ++L+ H R H
Sbjct: 3  FVCEVCTRAFARQEHLKRHYRSH 25


>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
          Implications For Dna Binding
          Length = 29

 Score = 32.3 bits (72), Expect = 0.68,   Method: Composition-based stats.
 Identities = 10/23 (43%), Positives = 16/23 (69%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          F+CE+C + F R ++L+ H R H
Sbjct: 3  FVCEVCTRAFARQEHLKRHYRSH 25


>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
          Implications For Dna Binding
          Length = 29

 Score = 32.0 bits (71), Expect = 0.88,   Method: Composition-based stats.
 Identities = 10/23 (43%), Positives = 15/23 (65%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          F+CE+C + F R + L+ H R H
Sbjct: 3  FVCEVCTRAFARQEYLKRHYRSH 25


>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
          Implications For Dna Binding
          Length = 29

 Score = 31.6 bits (70), Expect = 1.1,   Method: Composition-based stats.
 Identities = 10/23 (43%), Positives = 15/23 (65%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          F+CE+C + F R + L+ H R H
Sbjct: 3  FVCEVCTRAFARQEALKRHYRSH 25


>pdb|2EOJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
           355- 385) Of Human Zinc Finger Protein 268
          Length = 44

 Score = 30.0 bits (66), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 9/17 (52%), Positives = 14/17 (82%)

Query: 170 CDCGTLFSRKDSFITHR 186
           C+CG +FSRKD  ++H+
Sbjct: 16  CECGKVFSRKDQLVSHQ 32


>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
          Zinc Finger Protein 224
          Length = 46

 Score = 29.6 bits (65), Expect = 4.1,   Method: Composition-based stats.
 Identities = 11/23 (47%), Positives = 15/23 (65%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          + CE C KG+ R  NL +H+R H
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVH 35


>pdb|2ELS|A Chain A, Solution Structure Of The 2nd C2h2 Zinc Finger Of Human
          Zinc Finger Protein 406
          Length = 36

 Score = 28.9 bits (63), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 12/23 (52%), Positives = 14/23 (60%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          F CE CNK F+   +LQ H R H
Sbjct: 10 FTCEYCNKVFKFKHSLQAHLRIH 32


>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 = 28.5 bits (62), Expect = 8.0,   Method: Composition-based stats.
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          FIC+ C + F +  NL +H R H
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTH 40


>pdb|2EL5|A Chain A, Solution Structure Of The 18th Zf-C2h2 Domain From Human
           Zinc Finger Protein 268
          Length = 42

 Score = 28.5 bits (62), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 1/28 (3%)

Query: 160 SKTCGTREYKC-DCGTLFSRKDSFITHR 186
           S + G   Y+C +CG  F+RKD  I+H+
Sbjct: 3   SGSSGENPYECSECGKAFNRKDQLISHQ 30


>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 = 9.3,   Method: Composition-based stats.
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 64 FICEICNKGFQRDQNLQLHRRGH 86
          F C +CN+ F R  +L LH + H
Sbjct: 76 FQCGVCNRSFSRSDHLALHMKRH 98


>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
          Length = 155

 Score = 28.5 bits (62), Expect = 9.6,   Method: Composition-based stats.
 Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 19/70 (27%)

Query: 67  EICNKGFQRDQNLQLHRRGHNLPWKLRQRTNKDVIKKKVYICPEKTCVHHEPSRALGDLT 126
           E C K + R +NL+ H R H                +K Y+C  + C     S+A  + +
Sbjct: 73  EGCRKSYSRLENLKTHLRSHT--------------GEKPYMCEHEGC-----SKAFSNAS 113

Query: 127 GIKKHFSRKH 136
              KH +R H
Sbjct: 114 DRAKHQNRTH 123


  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: 9,779,011
Number of Sequences: 62578
Number of extensions: 285802
Number of successful extensions: 606
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 582
Number of HSP's gapped (non-prelim): 26
length of query: 488
length of database: 14,973,337
effective HSP length: 103
effective length of query: 385
effective length of database: 8,527,803
effective search space: 3283204155
effective search space used: 3283204155
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: 53 (25.0 bits)