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= psy4084
         (86 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 = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 3/72 (4%)

Query: 3   ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIK 59
           EC   F++   +R H RT   ++ + C  C K F  +D L  H      ++ + C  C K
Sbjct: 110 ECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGK 169

Query: 60  VFPSQDKLRMHM 71
            F  +D L +H 
Sbjct: 170 SFSRRDALNVHQ 181



 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 3/72 (4%)

Query: 3   ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIK 59
           EC   F++   +R H RT   ++ +AC  C K F     LR H      ++ + C  C K
Sbjct: 82  ECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGK 141

Query: 60  VFPSQDKLRMHM 71
            F  +D L  H 
Sbjct: 142 SFSREDNLHTHQ 153



 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 3/72 (4%)

Query: 3   ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIK 59
           EC   F++ + + +H RT   ++ + C  C K F  +  LR H      ++ +AC  C K
Sbjct: 54  ECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGK 113

Query: 60  VFPSQDKLRMHM 71
            F     LR H 
Sbjct: 114 SFSQLAHLRAHQ 125



 Score = 35.0 bits (79), Expect = 0.010,   Method: Compositional matrix adjust.
 Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 3/72 (4%)

Query: 3  ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIK 59
          EC   F+    + +H RT   ++ + C  C K F  +  L  H      ++ + C  C K
Sbjct: 26 ECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGK 85

Query: 60 VFPSQDKLRMHM 71
           F  +  LR H 
Sbjct: 86 SFSQRANLRAHQ 97


>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 = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F++   + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68

Query: 58 IKVFPSQDKLRMHMLSGLQTFD 79
           + F   D+ + H    L+  D
Sbjct: 69 GRKFARSDERKRHTKIHLRQKD 90


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

 Score = 40.0 bits (92), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F++   + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68

Query: 58 IKVFPSQDKLRMHMLSGLQTFD 79
           + F   D+ + H    L+  D
Sbjct: 69 GRKFARSDERKRHTKIHLRQKD 90


>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 = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F+    + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68

Query: 58 IKVFPSQDKLRMHMLSGLQTFD 79
           + F   D+ + H    L+  D
Sbjct: 69 GRKFARSDERKRHTKIHLRQKD 90



 Score = 26.6 bits (57), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 24 DRQFACHM--CIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMHMLS 73
          +R +AC +  C + F   D+L  H+      + F C +C++ F   D L  H+ +
Sbjct: 2  ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56


>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 = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F+    + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68

Query: 58 IKVFPSQDKLRMHMLSGLQTFD 79
           + F   D+ + H    L+  D
Sbjct: 69 GRKFARSDERKRHTKIHLRQKD 90


>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 = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F+    + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 8  VESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 67

Query: 58 IKVFPSQDKLRMHM 71
           + F   D+ + H 
Sbjct: 68 GRKFARSDERKRHT 81



 Score = 26.9 bits (58), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 24 DRQFACHM--CIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMHMLS 73
          +R +AC +  C + F   D+L  H+      + F C +C++ F   D L  H+ +
Sbjct: 1  ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 55


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

 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F+    + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68

Query: 58 IKVFPSQDKLRMHM 71
           + F   D+ + H 
Sbjct: 69 GRKFARSDERKRHT 82



 Score = 26.9 bits (58), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 5/55 (9%)

Query: 24 DRQFACHM--CIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMHMLS 73
          +R +AC +  C + F   D+L  H+      + F C +C++ F   D L  H+ +
Sbjct: 2  ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56


>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 = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 3/82 (3%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F+    + +HIR     + F C +C++ F   D L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68

Query: 58 IKVFPSQDKLRMHMLSGLQTFD 79
           + F   D+ + H    L+  D
Sbjct: 69 GRKFARSDERKRHTKIHLRQKD 90


>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 = 37.7 bits (86), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 3/72 (4%)

Query: 3  ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIK 59
          EC   F++   ++KH RT   ++ + C  C K F     L+ H      ++ + C  C K
Sbjct: 9  ECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGK 68

Query: 60 VFPSQDKLRMHM 71
           F   D L  H 
Sbjct: 69 SFSRSDHLSRHQ 80


>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 = 36.6 bits (83), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 34/77 (44%), Gaps = 3/77 (3%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHML---SDRQFACHMCIKV 60
          C   FT+   +  H RT   +R + C +C K F  QD LR H      ++ F C  C K 
Sbjct: 23 CGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQECGKG 82

Query: 61 FPSQDKLRMHMLSGLQT 77
          F     L +H    +QT
Sbjct: 83 FCQSRTLAVHKTLHMQT 99


>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 = 34.7 bits (78), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 3/66 (4%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F++   +  HIR     + F C +C++ F  Q  L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDIC 68

Query: 58 IKVFPS 63
           + F +
Sbjct: 69 GRKFAT 74


>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 = 34.3 bits (77), Expect = 0.016,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 6/89 (6%)

Query: 4   CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHML------SDRQFACHMC 57
           C  KF     ++ H R    ++ F C  C K +  ++ L  H        S++ F C +C
Sbjct: 13  CHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVC 72

Query: 58  IKVFPSQDKLRMHMLSGLQTFDLKSKLCT 86
            + F  + +LR+HM+S       K   C+
Sbjct: 73  QETFRRRMELRLHMVSHTGEMPYKCSSCS 101


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

 Score = 33.5 bits (75), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 5/75 (6%)

Query: 2  SECMGKFTEYQVIRKHIRTFHSDRQFACHM--CIKVFPSQDKLRMHM---LSDRQFACHM 56
          + C   +T+   ++ H+RT   ++ + C    C   F   D+L  H       R F C  
Sbjct: 12 AGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK 71

Query: 57 CIKVFPSQDKLRMHM 71
          C + F   D L +HM
Sbjct: 72 CDRAFSRSDHLALHM 86


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

 Score = 33.5 bits (75), Expect = 0.032,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 5/75 (6%)

Query: 2  SECMGKFTEYQVIRKHIRTFHSDRQFACHM--CIKVFPSQDKLRMHM---LSDRQFACHM 56
          + C   +T+   ++ H+RT   ++ + C    C   F   D+L  H       R F C  
Sbjct: 11 AGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQK 70

Query: 57 CIKVFPSQDKLRMHM 71
          C + F   D L +HM
Sbjct: 71 CDRAFSRSDHLALHM 85


>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 = 32.7 bits (73), Expect = 0.053,   Method: Compositional matrix adjust.
 Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 3/66 (4%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMC 57
          +  C  +F++   +  HIR     + F C +C++ F     L  H+     ++ FAC +C
Sbjct: 9  VESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDIC 68

Query: 58 IKVFPS 63
           + F +
Sbjct: 69 GRKFAT 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 = 32.0 bits (71), Expect = 0.085,   Method: Compositional matrix adjust.
 Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 5/73 (6%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFAC--HMCIKVFPSQDKLRMHM---LSDRQFACHMCI 58
          C   +T+   ++ H+RT   ++ + C    C   F   D+L  H       + F C +C 
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCN 82

Query: 59 KVFPSQDKLRMHM 71
          + F   D L +HM
Sbjct: 83 RSFSRSDHLALHM 95


>pdb|1UBD|C Chain C, Co-Crystal Structure Of Human Yy1 Zinc Finger Domain
          Bound To The Adeno-Associated Virus P5 Initiator
          Element
          Length = 124

 Score = 32.0 bits (71), Expect = 0.094,   Method: Compositional matrix adjust.
 Identities = 24/73 (32%), Positives = 31/73 (42%), Gaps = 6/73 (8%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHML---SDRQFAC--HMCI 58
          C   F +   +RKH+ T H  R   C  C K F    KL+ H L    ++ F C    C 
Sbjct: 13 CTKMFRDNSAMRKHLHT-HGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCG 71

Query: 59 KVFPSQDKLRMHM 71
          K F     LR H+
Sbjct: 72 KRFSLDFNLRTHV 84



 Score = 29.6 bits (65), Expect = 0.50,   Method: Compositional matrix adjust.
 Identities = 22/79 (27%), Positives = 33/79 (41%), Gaps = 7/79 (8%)

Query: 2   SECMGKFTEYQVIRKHIRTFHSDRQFAC--HMCIKVFPSQDKLRMHM---LSDRQFACHM 56
           +EC   F E   +++H      ++ F C    C K F     LR H+     DR + C  
Sbjct: 38  AECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPF 97

Query: 57  --CIKVFPSQDKLRMHMLS 73
             C K F     L+ H+L+
Sbjct: 98  DGCNKKFAQSTNLKSHILT 116


>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 = 31.6 bits (70), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 22/42 (52%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMH 45
          CM  F+    +  HIRT   ++ FAC +C + F   D+ + H
Sbjct: 9  CMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50



 Score = 30.4 bits (67), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 25 RQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMH 70
          + F C +C++ F   D L  H+     ++ FAC +C + F   D+ + H
Sbjct: 2  KPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50


>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 = 31.6 bits (70), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 3/63 (4%)

Query: 14  IRKHIRTFHSDRQFACHMCIKVFPSQD---KLRMHMLSDRQFACHMCIKVFPSQDKLRMH 70
           +R+H      ++++ C  C KVFP  +   K  +H   +R++ C  C K F +   +  H
Sbjct: 38  LRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQCLACGKSFINYQFMSSH 97

Query: 71  MLS 73
           + S
Sbjct: 98  IKS 100


>pdb|4AY0|A Chain A, High Resolution Crystal Structure Of The Monomeric
           Subunit-Free Caf1m Chaperone
 pdb|4AY0|B Chain B, High Resolution Crystal Structure Of The Monomeric
           Subunit-Free Caf1m Chaperone
          Length = 218

 Score = 30.0 bits (66), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 3/49 (6%)

Query: 20  TFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFACHMCIKVFPSQDKLR 68
            F  D++    +C+K  P +D+    +  D QFA + CIK+    ++L+
Sbjct: 86  VFPRDKESLKWLCVKGIPPKDE---DIWVDVQFAINNCIKLLVRPNELK 131


>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 = 29.6 bits (65), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 5/73 (6%)

Query: 3   ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHM--C 57
           +C  +F+    +++H R     + F C  C + F   D L+ H      ++ F+C    C
Sbjct: 43  DCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSC 102

Query: 58  IKVFPSQDKLRMH 70
            K F   D+L  H
Sbjct: 103 QKKFARSDELVRH 115


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

 Score = 29.3 bits (64), Expect = 0.54,   Method: Compositional matrix adjust.
 Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 3/80 (3%)

Query: 3  ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIK 59
          +C   FT      +H+      R + C +C K F  +  L  HM      + + C++C K
Sbjct: 14 QCGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAK 73

Query: 60 VFPSQDKLRMHMLSGLQTFD 79
           F  +D    H+ S  ++++
Sbjct: 74 RFMWRDSFHRHVTSCTKSYE 93


>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 = 28.1 bits (61), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 12/46 (26%), Positives = 22/46 (47%)

Query: 1  MSECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM 46
          +  C  +F+    + +HIR     + F C +C++ F   D L  H+
Sbjct: 24 VESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 69



 Score = 25.4 bits (54), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 5/52 (9%)

Query: 25 RQFACHM--CIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMHM 71
          R +AC +  C + F   D+L  H+      + F C +C++ F   D L  H+
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHI 69


>pdb|3FVS|A Chain A, Human Kynurenine Aminotransferase I In Complex With
           Glycerol
 pdb|3FVS|B Chain B, Human Kynurenine Aminotransferase I In Complex With
           Glycerol
 pdb|3FVU|A Chain A, Crystal Structure Of Human Kynurenine Aminotransferase I
           In Complex With Indole-3-acetic Acid
 pdb|3FVU|B Chain B, Crystal Structure Of Human Kynurenine Aminotransferase I
           In Complex With Indole-3-acetic Acid
 pdb|3FVX|A Chain A, Human Kynurenine Aminotransferase I In Complex With Tris
 pdb|3FVX|B Chain B, Human Kynurenine Aminotransferase I In Complex With Tris
          Length = 422

 Score = 27.7 bits (60), Expect = 1.5,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 14  IRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFACHMCIKVFP-SQDKLRMHML 72
           I KH+RT H +  F C    +   ++   R  +L  RQ + +     FP +  + R HM+
Sbjct: 265 IMKHLRTVHQNSVFHCPTQSQAAVAESFEREQLLF-RQPSSYFV--QFPQAMQRCRDHMI 321

Query: 73  SGLQTFDLK 81
             LQ+  LK
Sbjct: 322 RSLQSVGLK 330


>pdb|1W7L|A Chain A, Crystal Structure Of Human Kynurenine Aminotransferase I
 pdb|1W7M|A Chain A, Crystal Structure Of Human Kynurenine Aminotransferase I
           In Complex With L-Phe
          Length = 422

 Score = 27.7 bits (60), Expect = 1.6,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 14  IRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFACHMCIKVFP-SQDKLRMHML 72
           I KH+RT H +  F C    +   ++   R  +L  RQ + +     FP +  + R HM+
Sbjct: 265 IMKHLRTVHQNSVFHCPTQSQAAVAESFEREQLLF-RQPSSYFV--QFPQAMQRCRDHMI 321

Query: 73  SGLQTFDLK 81
             LQ+  LK
Sbjct: 322 RSLQSVGLK 330


>pdb|1W7N|A Chain A, Crystal Structure Of Human Kynurenine Aminotransferase I
           In Pmp Form
          Length = 422

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 4/69 (5%)

Query: 14  IRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHMLSDRQFACHMCIKVFP-SQDKLRMHML 72
           I KH+RT H +  F C    +   ++   R  +L  RQ + +     FP +  + R HM+
Sbjct: 265 IMKHLRTVHQNSVFHCPTQSQAAVAESFEREQLLF-RQPSSYFV--QFPQAMQRCRDHMI 321

Query: 73  SGLQTFDLK 81
             LQ+  LK
Sbjct: 322 RSLQSVGLK 330


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

 Score = 27.7 bits (60), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 3/49 (6%)

Query: 28 ACHMCIKVFPSQDKLRMHMLS---DRQFACHMCIKVFPSQDKLRMHMLS 73
          AC +C K+F     L  H LS   ++ ++C +C   F  +D++  H+ S
Sbjct: 9  ACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRS 57


>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
          Length = 60

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 3/52 (5%)

Query: 23 SDRQFACHMCIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMHM 71
          S+R F C+ C K +     L  H    L  R  +C  C K F  Q ++  H+
Sbjct: 1  SERPFFCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHL 52


>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
           Bound To The 5s Ribosomal Rna Gene Internal Control
           Region
 pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
           Bound To The 5s Ribosomal Rna Gene Internal Control
           Region
          Length = 190

 Score = 26.9 bits (58), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 35/76 (46%), Gaps = 9/76 (11%)

Query: 4   CMGKFTEYQVIRKHIRTFHSDR--QFACHM--CIKVFPSQDKLRMHMLSDRQ---FAC-- 54
           C  +FT    ++KH   FH+ +   + CH   C K F   ++L++H  S  Q   + C  
Sbjct: 80  CDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPH 139

Query: 55  HMCIKVFPSQDKLRMH 70
             C K F    +L+ H
Sbjct: 140 EGCDKRFSLPSRLKRH 155


>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
          From Human Insulinoma-Associated Protein 1 (Fragment
          424-497), Northeast Structural Genomics Consortium
          Target Hr7614b
          Length = 85

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 17/43 (39%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM 46
          C   F       +H+R  H+ + F C  C   F S   L  H+
Sbjct: 34 CGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHI 76


>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 = 2.7,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 23/46 (50%)

Query: 3  ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHMLS 48
          EC  +  +  +++KHIRT    R + C  C   F ++  L  HM S
Sbjct: 6  ECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKS 51


>pdb|2WBT|A Chain A, The Structure Of A Double C2h2 Zinc Finger Protein From A
           Hyperthermophilic Archaeal Virus In The Absence Of Dna
 pdb|2WBT|B Chain B, The Structure Of A Double C2h2 Zinc Finger Protein From A
           Hyperthermophilic Archaeal Virus In The Absence Of Dna
          Length = 129

 Score = 26.9 bits (58), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)

Query: 26  QFACHMCIKVFPSQDKLRMHM-LSDRQFACHMCIKVFPSQDKLRMHM 71
           QF C +C+  F S   L+ H+  ++    C +C K F S D    H+
Sbjct: 74  QFVCPLCLMPFSSSVSLKQHIRYTEHTKVCPVCKKEFTSTDSALDHV 120


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

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 14/58 (24%), Positives = 26/58 (44%), Gaps = 5/58 (8%)

Query: 19 RTFHSDRQFACHMCIKVFPSQDKLRMHMLSDR-----QFACHMCIKVFPSQDKLRMHM 71
          RT   ++ + C++C   F     ++MH+L        +F C  C  V   +  L +H+
Sbjct: 8  RTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHL 65


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

 Score = 26.6 bits (57), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 10/43 (23%), Positives = 22/43 (51%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHM 46
          C   F   + +++H R+  +++ + C +C + F  +D L  H 
Sbjct: 8  CTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHA 50


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

 Score = 26.2 bits (56), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 15/70 (21%), Positives = 24/70 (34%), Gaps = 3/70 (4%)

Query: 4  CMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVFPSQDKLRMHML---SDRQFACHMCIKV 60
          C   F     +  H+      R + C  C K F  +  ++ H      ++   C +C K 
Sbjct: 7  CGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKA 66

Query: 61 FPSQDKLRMH 70
          F     L  H
Sbjct: 67 FSQSSNLITH 76



 Score = 26.2 bits (56), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 3/49 (6%)

Query: 27 FACHMCIKVFPSQDKLRMHML--SD-RQFACHMCIKVFPSQDKLRMHML 72
          F C +C K F     L  H+L  SD R + C  C K F  +  ++ H  
Sbjct: 2  FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTF 50


>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 = 25.4 bits (54), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 29 CHMCIKVFPSQDKLRMHM---LSDRQFACHMCIKVFPSQDKLRMHM 71
          C +C K F  +DKL+ HM      + + C  C         L  H+
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHL 56


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

 Score = 25.4 bits (54), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 16/60 (26%), Positives = 23/60 (38%), Gaps = 7/60 (11%)

Query: 19 RTFHSDRQFACHMCIKVFPSQDKLRMHM-------LSDRQFACHMCIKVFPSQDKLRMHM 71
          RT   ++ +AC  C K F  +  L MH             F C  C K F  ++ +  H 
Sbjct: 8  RTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHA 67


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

 Score = 25.4 bits (54), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 3  ECMGKFTEYQVIRKHIRTFHSDRQFACHMCIKVF 36
          EC   F+    + KH RT   ++ + C  C K F
Sbjct: 23 ECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAF 56


  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
   0.334    0.138    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,237,341
Number of Sequences: 62578
Number of extensions: 67954
Number of successful extensions: 393
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 311
Number of HSP's gapped (non-prelim): 83
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 45 (21.9 bits)