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= psy13211
         (89 letters)

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

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



>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
          (CLONE #2)
 pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
          (CLONE #2)
          Length = 90

 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 27/40 (67%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          +  H R HTG+KPF+C +C + F+ ++G  QH+R   G++
Sbjct: 22 LDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEK 61



 Score = 33.5 bits (75), Expect = 0.033,   Method: Compositional matrix adjust.
 Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 12 IQVRMFRIHI-IRNHYRKHTGRKPFKCVVCKQFFAT 46
          I +R F  H  +  H R HTG KPF C +C + FAT
Sbjct: 39 ICMRNFSQHTGLNQHIRTHTGEKPFACDICGRKFAT 74


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

 Score = 37.7 bits (86), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 24/45 (53%)

Query: 12 IQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRR 56
             R  R   +  HYRKHTG KPF+C VC + F+       H++R
Sbjct: 53 CDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHMKR 97



 Score = 27.7 bits (60), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 22 IRNHYRKHTGRKPFKCVV--CKQFFATYSGAYQHLRRTHG 59
          ++ H R HTG KP+KC    C   FA      +H R+  G
Sbjct: 33 LKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTG 72


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

 Score = 37.7 bits (86), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 17/38 (44%), Positives = 22/38 (57%)

Query: 18 RIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55
          R  I+  H R HTG KP+KC+ C + F+  SG   H R
Sbjct: 26 RSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQR 63


>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
          (Tatazf;clone #6)
 pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
          (Tatazf;clone #6)
          Length = 90

 Score = 34.3 bits (77), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 24/40 (60%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          +  H R HTG+KPF+C +C + F+  +    H+R   G++
Sbjct: 22 LDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEK 61



 Score = 32.3 bits (72), Expect = 0.072,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55
          +  H R HTG KPF C +C + FAT     +H +
Sbjct: 50 LNAHIRTHTGEKPFACDICGRKFATLHTRTRHTK 83


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

 Score = 34.3 bits (77), Expect = 0.020,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 2/46 (4%)

Query: 18  RIHIIRNHYRKHTGRKPFKC--VVCKQFFATYSGAYQHLRRTHGQE 61
           R+  ++ H R HTG KP+ C    C + F+  S   +H  RTH  E
Sbjct: 81  RLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNE 126



 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 3/51 (5%)

Query: 13 QVRMFRI-HIIRNHYRKHTGRKPFKCVV--CKQFFATYSGAYQHLRRTHGQ 60
          ++R F+  +++  H R+HTG KP KC    C++ ++       HLR   G+
Sbjct: 45 ELRPFKAQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGE 95


>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 = 33.5 bits (75), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 22  IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
           +R H R HTG KP+KC  C + F+     + H +RTH  E
Sbjct: 121 LRAHQRTHTGEKPYKCPECGKSFSREDNLHTH-QRTHTGE 159



 Score = 30.8 bits (68), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 7/43 (16%)

Query: 22  IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR---RTHGQE 61
           +R H R HTG KP+ C  C + F+  +    HLR   RTH  E
Sbjct: 93  LRAHQRTHTGEKPYACPECGKSFSQLA----HLRAHQRTHTGE 131



 Score = 30.4 bits (67), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          +  H R HTG KP+KC  C + F+      +H +RTH  E
Sbjct: 37 LAEHQRTHTGEKPYKCPECGKSFSDKKDLTRH-QRTHTGE 75



 Score = 30.4 bits (67), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)

Query: 22  IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
           +  H R HTG KP+KC  C + F+  +    H +RTH  E
Sbjct: 65  LTRHQRTHTGEKPYKCPECGKSFSQRANLRAH-QRTHTGE 103



 Score = 30.0 bits (66), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 16/28 (57%)

Query: 18  RIHIIRNHYRKHTGRKPFKCVVCKQFFA 45
           R   +  H R HTG KP+KC  C + F+
Sbjct: 145 REDNLHTHQRTHTGEKPYKCPECGKSFS 172


>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein
          Bound To Dna
 pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein
          Bound To Dna
 pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein
          Bound To Dna
          Length = 87

 Score = 33.5 bits (75), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 17/40 (42%), Positives = 24/40 (60%), Gaps = 1/40 (2%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          ++ H R HTG KP+KC  C + F+  S   +H +RTH  E
Sbjct: 20 LQKHQRTHTGEKPYKCPECGKSFSQSSDLQKH-QRTHTGE 58



 Score = 30.0 bits (66), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 1/37 (2%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH 58
          ++ H R HTG KP+KC  C + F+      +H +RTH
Sbjct: 48 LQKHQRTHTGEKPYKCPECGKSFSRSDHLSRH-QRTH 83


>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 = 33.5 bits (75), Expect = 0.032,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 27/51 (52%)

Query: 11 DIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          D + R  R   ++ H R+HTG KPF+C  C++ F+       H R   G++
Sbjct: 43 DCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEK 93



 Score = 30.4 bits (67), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)

Query: 15 RMFRIHIIRNHYRKHTGRKPFKCVV--CKQFFATYSGAYQHLRRTHG 59
          R F++  ++ H RKHTG KP++C    C++ F+      +H RR  G
Sbjct: 17 RYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTG 63



 Score = 25.8 bits (55), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 2/36 (5%)

Query: 12  IQVRMFRIHIIRNHYRKHTGRKPFKC--VVCKQFFA 45
            Q +  R   ++ H R HTG KPF C    C++ FA
Sbjct: 72  CQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFA 107


>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
          Zinc-Binding Domain Of The Zinc Finger Protein 64,
          Isoforms 1 And 2
          Length = 96

 Score = 33.1 bits (74), Expect = 0.040,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 19/34 (55%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55
          ++ H R HTG KP+KC  C    A  S   +HLR
Sbjct: 24 LKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLR 57



 Score = 26.2 bits (56), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 19/44 (43%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSS 65
          +  H R H+  +PFKC +C       S    HLR   G    SS
Sbjct: 52 LNKHLRIHSDERPFKCQICPYASRNSSQLTVHLRSHTGDSGPSS 95


>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
          Bound To Its Target Dna
          Length = 90

 Score = 32.7 bits (73), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 21/35 (60%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRR 56
          +  HYRKHTG +PF+C  C + F+       H++R
Sbjct: 54 LTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKR 88


>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
          Bound To Its Target Dna
          Length = 89

 Score = 32.7 bits (73), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 14/35 (40%), Positives = 21/35 (60%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRR 56
          +  HYRKHTG +PF+C  C + F+       H++R
Sbjct: 53 LTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMKR 87


>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 = 32.3 bits (72), Expect = 0.076,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 25 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60



 Score = 30.4 bits (67), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFA 73


>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 = 32.0 bits (71), Expect = 0.081,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 25 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60



 Score = 30.4 bits (67), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFA 73


>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 = 32.0 bits (71), Expect = 0.081,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 25 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60



 Score = 30.4 bits (67), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFA 73


>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 = 32.0 bits (71), Expect = 0.085,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 25 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60



 Score = 30.4 bits (67), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFA 73


>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 = 32.0 bits (71), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 24 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 59



 Score = 30.4 bits (67), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 49 LTTHIRTHTGEKPFACDICGRKFA 72


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

 Score = 32.0 bits (71), Expect = 0.094,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 25 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60



 Score = 30.4 bits (67), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFA 73


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

 Score = 32.0 bits (71), Expect = 0.095,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 21/36 (58%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
          H R HTG+KPF+C +C + F+       H+R   G+
Sbjct: 25 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60



 Score = 30.4 bits (67), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 12/24 (50%), Positives = 15/24 (62%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFA 45
          +  H R HTG KPF C +C + FA
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFA 73


>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
          To Dna
 pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
          To Dna
 pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
          To Dna
 pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
          To Dna
 pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
          To Dna
 pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
          To Dna
          Length = 73

 Score = 32.0 bits (71), Expect = 0.096,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 19/31 (61%)

Query: 25 HYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55
          H R HTG+KPF+C +C + F+       H+R
Sbjct: 40 HIRIHTGQKPFQCRICMRNFSRSDHLTTHIR 70


>pdb|3UK3|C Chain C, Crystal Structure Of Znf217 Bound To Dna
 pdb|3UK3|D Chain D, Crystal Structure Of Znf217 Bound To Dna
 pdb|4F2J|C Chain C, Crystal Structure Of Znf217 Bound To Dna, P6522 Crystal
          Form
 pdb|4IS1|C Chain C, Crystal Structure Of Znf217 Bound To Dna
 pdb|4IS1|D Chain D, Crystal Structure Of Znf217 Bound To Dna
          Length = 57

 Score = 31.6 bits (70), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)

Query: 15 RMFRIHIIRN-HYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH 58
          + FR +   N H R HTG KP+KC  C+   A  +    HL R H
Sbjct: 12 KFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 56


>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
 pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
          Length = 88

 Score = 30.8 bits (68), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 12/21 (57%), Positives = 14/21 (66%)

Query: 25 HYRKHTGRKPFKCVVCKQFFA 45
          H R HTG KPF C +C + FA
Sbjct: 22 HIRTHTGEKPFACDICGRKFA 42


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

 Score = 30.0 bits (66), Expect = 0.31,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH 58
          ++ HYR HT  KP+ C +C + F       +H ++ H
Sbjct: 18 LKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54


>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
          Length = 82

 Score = 30.0 bits (66), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 3/62 (4%)

Query: 1  MFFHGKTKSTDIQVRMFRIH---IIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRT 57
          +  H  T+    Q    R H    ++ H   HTG KP KC VC + F+  S    H R+ 
Sbjct: 21 LLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSRKH 80

Query: 58 HG 59
           G
Sbjct: 81 TG 82


>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
          Repeats Of Murine Gli-Kruppel Family Member Hkr3
          Length = 124

 Score = 29.3 bits (64), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 20/38 (52%)

Query: 20 HIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRT 57
          + ++ H RKHTG KPF+C  C + +       +H  R 
Sbjct: 21 YYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARN 58



 Score = 28.9 bits (63), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 17/37 (45%)

Query: 22  IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH 58
           +R H   HTG  P+KC  C Q F        H+ + H
Sbjct: 82  LRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLH 118


>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
           Domain In Complex With Kaiso Binding Site Dna
 pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Domain
           In Complex With Kaiso Binding Site Dna
 pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Protein
           In Complex With Methylated Cpg Site Dna
          Length = 133

 Score = 29.3 bits (64), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 20/42 (47%)

Query: 29  HTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQESCSSLKALR 70
           HTG + ++C+ C + F  Y     H++  H Q+     K  R
Sbjct: 73  HTGERRYQCLACGKSFINYQFMSSHIKSVHSQDPSGDSKLYR 114


>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
           Human Zinc Finger Protein Zic 3
          Length = 155

 Score = 28.9 bits (63), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 2/39 (5%)

Query: 18  RIHIIRNHYRKHTGRKPFKCVV--CKQFFATYSGAYQHL 54
           R   ++ H R HTG KPFKC    C + FA  S   +H+
Sbjct: 104 RSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHM 142



 Score = 28.9 bits (63), Expect = 0.73,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 21/42 (50%), Gaps = 3/42 (7%)

Query: 22  IRNHYRKHTGRKPFKCVV--CKQFFATYSGAYQHLRRTHGQE 61
           + NH R HTG KPF C    C + FA       H +RTH  E
Sbjct: 78  LVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIH-KRTHTGE 118


>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
          Domains From Human Krueppel-Like Factor 10
          Length = 72

 Score = 28.9 bits (63), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 3/44 (6%)

Query: 17 FRIHIIRNHYRKHTGRKPFKCVV--CKQFFATYSGAYQHLRRTH 58
          F+   ++ H R HTG KPF C    C++ FA      +H RRTH
Sbjct: 30 FKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRH-RRTH 72


>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
          Domain Of Zinc Finger Protein 435
          Length = 77

 Score = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55
          +  H R HTG KP+KC  C + F   S    H R
Sbjct: 34 LSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHR 67


>pdb|2EPZ|A Chain A, Solution Structure Of The 4th C2h2 Type Zinc Finger
          Domain Of Zinc Finger Protein 28 Homolog
          Length = 46

 Score = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 1/30 (3%)

Query: 32 RKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
           KPF C+ C + F+ + G  QH RR H  E
Sbjct: 10 EKPFDCIDCGKAFSDHIGLNQH-RRIHTGE 38


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

 Score = 27.3 bits (59), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 15/29 (51%)

Query: 32 RKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
           KPFKC  C + F T S  Y H R   G+
Sbjct: 10 EKPFKCEECGKGFYTNSQCYSHQRSHSGE 38


>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
          Domains Of Human Zinc Finger Protein 297b
          Length = 110

 Score = 27.3 bits (59), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 11/35 (31%), Positives = 20/35 (57%)

Query: 20 HIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHL 54
          H +  H + HTG KP++C +C + F      ++H+
Sbjct: 51 HHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRHV 85


>pdb|2EOZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
          809- 841) Of Human Zinc Finger Protein 473
          Length = 46

 Score = 26.9 bits (58), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 1/33 (3%)

Query: 32 RKPFKCVVCKQFFATYSGAYQHLRRTHGQESCS 64
           KP+ C VC + F   +   QHL R H QE+ S
Sbjct: 10 EKPYSCNVCGKAFVLSAHLNQHL-RVHTQETLS 41


>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double
          Cys2His2 Zinc Finger From The Human Enhancer Binding
          Protein Mbp-1
          Length = 57

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 11/45 (24%), Positives = 22/45 (48%)

Query: 11 DIQVRMFRIHIIRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLR 55
          +  +R  +  +++ H R HT  +P+ C  C   F T     +H++
Sbjct: 6  ECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMK 50


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

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 15/29 (51%)

Query: 32 RKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
           KP+KC+ C + F   S   QH R   GQ
Sbjct: 10 EKPYKCMECGKAFGDNSSCTQHQRLHTGQ 38


>pdb|3IYL|X Chain X, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
           How Penetration Protein Is Primed For Cell Entry
 pdb|3IYL|Y Chain Y, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
           How Penetration Protein Is Primed For Cell Entry
          Length = 1214

 Score = 26.9 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 35  FKCVVCKQFFATYSGAYQHLRRTHGQESCSSL 66
           + C VC   F+T S   +HLR  H  ++ + L
Sbjct: 117 YVCNVCNARFSTMSALSEHLRSDHRDDASTLL 148


>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
           Microscopy And Bioinformatics
          Length = 1196

 Score = 26.9 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 35  FKCVVCKQFFATYSGAYQHLRRTHGQESCSSL 66
           + C VC   F+T S   +HLR  H  ++ + L
Sbjct: 99  YVCNVCNARFSTMSALSEHLRSDHRDDASTLL 130


>pdb|1X5W|A Chain A, Solution Structure Of The C2h2 Type Zinc-Binding Domain
          Of Human Zinc Finger Protein 64, Isoforms 1 And 2
          Length = 70

 Score = 26.9 bits (58), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 20/41 (48%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQES 62
          +R H R H   +PFKC  C       S   +H+++ HG  S
Sbjct: 25 LRIHERIHCTDRPFKCNYCSFDTKQPSNLSKHMKKFHGDMS 65


>pdb|2KVH|A Chain A, Structure Of The Three-Cys2his2 Domain Of Mouse Testis
          Zinc Finger Protein
          Length = 27

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 1/28 (3%)

Query: 32 RKPFKCVVCKQFFATYSGAYQHLRRTHG 59
           KPF C +C Q    +S   +HL RTHG
Sbjct: 1  EKPFSCSLCPQRSRDFSAMTKHL-RTHG 27


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

 Score = 26.6 bits (57), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 10/32 (31%), Positives = 16/32 (50%)

Query: 27 RKHTGRKPFKCVVCKQFFATYSGAYQHLRRTH 58
          R H+G KP++C +C   F        H+ + H
Sbjct: 8  RTHSGEKPYECYICHARFTQSGTMKMHILQKH 39


>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
          In Zinc Finger Protein 278
          Length = 95

 Score = 26.6 bits (57), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 1/37 (2%)

Query: 9  STDIQVRMFR-IHIIRNHYRKHTGRKPFKCVVCKQFF 44
          + +I  ++FR ++ +  H   H+G KP+ C VC   F
Sbjct: 9  ACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRF 45


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

 Score = 26.2 bits (56), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 10/29 (34%), Positives = 18/29 (62%)

Query: 32 RKPFKCVVCKQFFATYSGAYQHLRRTHGQ 60
           KP++C VC++ F+ ++   QH R   G+
Sbjct: 10 EKPYECDVCRKAFSHHASLTQHQRVHSGE 38


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

 Score = 26.2 bits (56), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 30 TGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          +G KPF C  C++ F++ S    H ++TH +E
Sbjct: 6  SGEKPFGCSCCEKAFSSKSYLLVH-QQTHAEE 36


>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
          Northeast Structural Genomics Consortium
          Length = 74

 Score = 25.8 bits (55), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 20/40 (50%)

Query: 22 IRNHYRKHTGRKPFKCVVCKQFFATYSGAYQHLRRTHGQE 61
          + +H   HTG KP++C +C   F   +    H R   G++
Sbjct: 33 LASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGEK 72


>pdb|1SRK|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of
          Fog-1
          Length = 35

 Score = 25.8 bits (55), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 9/26 (34%), Positives = 16/26 (61%)

Query: 30 TGRKPFKCVVCKQFFATYSGAYQHLR 55
          +G++PF C +C   F T +   +HL+
Sbjct: 3  SGKRPFVCRICLSAFTTKANCARHLK 28


>pdb|2YTE|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
          484- 512) Of Human Zinc Finger Protein 473
          Length = 42

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 9/26 (34%), Positives = 15/26 (57%)

Query: 30 TGRKPFKCVVCKQFFATYSGAYQHLR 55
          +G KP+ C  CK+ F+  +   QH +
Sbjct: 6  SGEKPYSCAECKETFSDNNRLVQHQK 31


  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
   0.327    0.137    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,655,236
Number of Sequences: 62578
Number of extensions: 87718
Number of successful extensions: 474
Number of sequences better than 100.0: 93
Number of HSP's better than 100.0 without gapping: 86
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 333
Number of HSP's gapped (non-prelim): 148
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)