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= 044362
         (116 letters)

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

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



>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 = 30.4 bits (67), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 1   KKKKAKYDGRTHSLPHKKNGPYTCP--KCNQAFAKSQIYAAHVSS 43
           K+    ++ RTH   H  + PY CP   CN+ FA+S    +H+ +
Sbjct: 72  KRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILT 116


>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 = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 2/34 (5%)

Query: 21 PYTCPKCNQAFAKSQIYAAH--VSSGHYKFETPE 52
          PY CP+C ++F++S   A H    +G   ++ PE
Sbjct: 21 PYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPE 54



 Score = 26.9 bits (58), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 2/45 (4%)

Query: 10  RTHSLPHKKNGPYTCPKCNQAFAKSQIYAAH--VSSGHYKFETPE 52
           R H   H    PY CP+C ++F++     AH    +G   ++ PE
Sbjct: 94  RAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPE 138



 Score = 26.2 bits (56), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 15/30 (50%)

Query: 11  THSLPHKKNGPYTCPKCNQAFAKSQIYAAH 40
           TH   H    PY CP+C ++F++      H
Sbjct: 151 THQRTHTGEKPYKCPECGKSFSRRDALNVH 180



 Score = 26.2 bits (56), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 2/45 (4%)

Query: 10  RTHSLPHKKNGPYTCPKCNQAFAKSQIYAAH--VSSGHYKFETPE 52
           R H   H    PY CP+C ++F++      H    +G   ++ PE
Sbjct: 122 RAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPE 166


>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 = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 11/31 (35%), Positives = 16/31 (51%)

Query: 10 RTHSLPHKKNGPYTCPKCNQAFAKSQIYAAH 40
          R H   H K  P+ C +C + F +S+  A H
Sbjct: 62 RDHRYIHSKEKPFKCQECGKGFCQSRTLAVH 92



 Score = 25.4 bits (54), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 13/25 (52%)

Query: 7  YDGRTHSLPHKKNGPYTCPKCNQAF 31
          Y+   H   H    PYTC  C++AF
Sbjct: 31 YNLLIHERTHTDERPYTCDICHKAF 55


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

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 12 HSLPHKKNGPYTCPKCNQAFAKSQIYAAHV 41
          H   H  + P+ C KC++AF++S   A H+
Sbjct: 57 HYRKHTGHRPFQCQKCDRAFSRSDHLALHM 86


>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 = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/33 (33%), Positives = 18/33 (54%)

Query: 8  DGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAH 40
          D + H   H    PY CP+C ++F++S   + H
Sbjct: 47 DLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRH 79



 Score = 25.8 bits (55), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 2/43 (4%)

Query: 12 HSLPHKKNGPYTCPKCNQAFAKSQIYAAH--VSSGHYKFETPE 52
          H   H    PY CP+C ++F++S     H    +G   ++ PE
Sbjct: 23 HQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPE 65


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

 Score = 26.9 bits (58), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 12 HSLPHKKNGPYTCPKCNQAFAKSQIYAAHV 41
          H   H  + P+ C KC++AF++S   A H+
Sbjct: 56 HYRKHTGHRPFQCQKCDRAFSRSDHLALHM 85


>pdb|3FG2|P Chain P, Crystal Structure Of Ferredoxin Reductase For The
          Cyp199a2 System From Rhodopseudomonas Palustris
          Length = 404

 Score = 26.9 bits (58), Expect = 2.7,   Method: Composition-based stats.
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 3  KKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKS 34
          ++AKY GR   +  +K+ PY  P  ++A+ KS
Sbjct: 21 RQAKYPGRIALINDEKHLPYQRPPLSKAYLKS 52


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

 Score = 26.9 bits (58), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 9/20 (45%), Positives = 13/20 (65%)

Query: 21 PYTCPKCNQAFAKSQIYAAH 40
          PY C +C +AF++S I   H
Sbjct: 14 PYGCVECGKAFSRSSILVQH 33


>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 = 26.9 bits (58), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 12/40 (30%), Positives = 20/40 (50%)

Query: 1  KKKKAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAH 40
          KK  +KY  + H+  H    P+ CPKC + + + +    H
Sbjct: 15 KKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEH 54



 Score = 25.8 bits (55), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 11/36 (30%), Positives = 17/36 (47%)

Query: 10  RTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGH 45
           R H + H    PY C  C+Q F + +   +H+   H
Sbjct: 83  RLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLH 118


>pdb|2FUG|9 Chain 9, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus
 pdb|2FUG|G Chain G, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus
 pdb|2FUG|P Chain P, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus
 pdb|2FUG|Y Chain Y, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus
 pdb|3I9V|9 Chain 9, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Oxidized, 2 MolASU
 pdb|3I9V|G Chain G, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Oxidized, 2 MolASU
 pdb|3IAM|9 Chain 9, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Reduced, 2 MolASU, WITH BOUND NADH
 pdb|3IAM|G Chain G, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Reduced, 2 MolASU, WITH BOUND NADH
 pdb|3IAS|9 Chain 9, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Oxidized, 4 MolASU, RE-Refined To 3.15 Angstrom
          Resolution
 pdb|3IAS|G Chain G, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Oxidized, 4 MolASU, RE-Refined To 3.15 Angstrom
          Resolution
 pdb|3IAS|P Chain P, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Oxidized, 4 MolASU, RE-Refined To 3.15 Angstrom
          Resolution
 pdb|3IAS|Y Chain Y, Crystal Structure Of The Hydrophilic Domain Of
          Respiratory Complex I From Thermus Thermophilus,
          Oxidized, 4 MolASU, RE-Refined To 3.15 Angstrom
          Resolution
 pdb|3M9S|9 Chain 9, Crystal Structure Of Respiratory Complex I From Thermus
          Thermophilus
 pdb|3M9S|G Chain G, Crystal Structure Of Respiratory Complex I From Thermus
          Thermophilus
 pdb|2YBB|8 Chain 8, Fitted Model For Bovine  Mitochondrial Supercomplex
          I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
 pdb|4HEA|9 Chain 9, Crystal Structure Of The Entire Respiratory Complex I
          From Thermus Thermophilus
 pdb|4HEA|O Chain O, Crystal Structure Of The Entire Respiratory Complex I
          From Thermus Thermophilus
          Length = 182

 Score = 26.6 bits (57), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 23/59 (38%), Gaps = 1/59 (1%)

Query: 4  KAKYDGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARY 62
          K ++ GR H L    NG   C  C+   A    YA +V       E P    ER A  Y
Sbjct: 34 KPRFHGR-HVLTRHPNGLEKCIGCSLCAAACPAYAIYVEPAENDPENPVSAGERYAKVY 91


>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 = 4.2,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 15/32 (46%)

Query: 12 HSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSS 43
          H L H    PY+CP C   F +    + HV S
Sbjct: 26 HKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRS 57


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

 Score = 26.2 bits (56), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 4/79 (5%)

Query: 1   KKKKAKYDGRTHSLPHKKNGPYTC--PKCNQAFAKSQIYAAH--VSSGHYKFETPEQRAE 56
           K  KAKY    H   H    P+ C  P C + FA+S+    H    +G   F+   +  +
Sbjct: 70  KSFKAKYKLVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEGCD 129

Query: 57  RLAARYPKRNTLQPVDTSE 75
           R  A    R     V TS+
Sbjct: 130 RRFANSSDRKKHMHVHTSD 148


>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 = 26.2 bits (56), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 10/34 (29%), Positives = 16/34 (47%)

Query: 12  HSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGH 45
           H + H     Y C  C ++F   Q  ++H+ S H
Sbjct: 69  HEIHHTGERRYQCLACGKSFINYQFMSSHIKSVH 102


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

 Score = 25.8 bits (55), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 11/34 (32%), Positives = 14/34 (41%)

Query: 12 HSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGH 45
          H   H    PY C  CN+AF +  +   H    H
Sbjct: 21 HYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54


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

 Score = 25.8 bits (55), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 8/20 (40%), Positives = 12/20 (60%)

Query: 21 PYTCPKCNQAFAKSQIYAAH 40
          PY C +C +AF +S   + H
Sbjct: 10 PYVCQECGKAFTQSSCLSIH 29


>pdb|3UJ2|A Chain A, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|B Chain B, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|C Chain C, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|D Chain D, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|E Chain E, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|F Chain F, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|G Chain G, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
 pdb|3UJ2|H Chain H, Crystal Structure Of An Enolase From Anaerostipes Caccae
           (Efi Target Efi-502054) With Bound Mg And Sulfate
          Length = 449

 Score = 25.4 bits (54), Expect = 7.4,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 15/56 (26%)

Query: 8   DGRTHSLPHKKNGPYTCPKCNQAFAKSQIYAAHVSSGHYKFETPEQRAERLAARYP 63
           D  +     +K G Y  PKC + FA  ++ A      H+K          L  RYP
Sbjct: 266 DAASSEWKGEKKGEYILPKCKRKFASEELVA------HWK---------SLCERYP 306


>pdb|2EN6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
          887- 919) Of Human Zinc Finger Protein 268
          Length = 46

 Score = 25.4 bits (54), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 8/20 (40%), Positives = 13/20 (65%)

Query: 21 PYTCPKCNQAFAKSQIYAAH 40
          PY C +C + F++  I +AH
Sbjct: 12 PYGCNECGKTFSQKSILSAH 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
   0.307    0.122    0.345 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,493,090
Number of Sequences: 62578
Number of extensions: 121995
Number of successful extensions: 336
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 300
Number of HSP's gapped (non-prelim): 39
length of query: 116
length of database: 14,973,337
effective HSP length: 79
effective length of query: 37
effective length of database: 10,029,675
effective search space: 371097975
effective search space used: 371097975
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 45 (21.9 bits)