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= 020994
         (319 letters)

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

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



>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii Au-
           Rich Element By The Tandem Zinc Finger Domain Of Tis11d
          Length = 70

 Score = 41.2 bits (95), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 8/66 (12%)

Query: 157 CRYYMNTGTCKYGADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGP 216
           CR +  +GTCKYG  C+F H            +  L    +    +C  +   G C +GP
Sbjct: 9   CRPFEESGTCKYGEKCQFAH--------GFHELRSLTRHPKYKTELCRTFHTIGFCPYGP 60

Query: 217 TCRFDH 222
            C F H
Sbjct: 61  RCHFIH 66


>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
           Nup475TTPTIS11
          Length = 77

 Score = 38.5 bits (88), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 8/66 (12%)

Query: 157 CRYYMNTGTCKYGADCKFHHPKERIAQSAASNIGPLGLPSRPGQAICSNYSMYGICKFGP 216
           CR Y  +G C+YGA C+F H    + +   +N  P     +    +C  + + G C +G 
Sbjct: 15  CRTYSESGRCRYGAKCQFAHG---LGELRQANRHP-----KYKTELCHKFKLQGRCPYGS 66

Query: 217 TCRFDH 222
            C F H
Sbjct: 67  RCHFIH 72



 Score = 28.1 bits (61), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 196 SRPGQAICSNYSMYGICKFGPTCRFDH 222
           SR    +C  YS  G C++G  C+F H
Sbjct: 8   SRYKTELCRTYSESGRCRYGAKCQFAH 34


>pdb|4II1|A Chain A, Crystal Structure Of The Zinc Finger Of Zgpat
 pdb|4II1|B Chain B, Crystal Structure Of The Zinc Finger Of Zgpat
 pdb|4II1|C Chain C, Crystal Structure Of The Zinc Finger Of Zgpat
 pdb|4II1|D Chain D, Crystal Structure Of The Zinc Finger Of Zgpat
          Length = 167

 Score = 31.6 bits (70), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

Query: 6   KSCPYYMRTGSCKFGVACKFHHPQPSSLGTALPL 39
           K CP+++  G C+F   C+F H Q  SL    P 
Sbjct: 77  KPCPFFLE-GKCRFKENCRFSHGQVVSLDELRPF 109


>pdb|2FC6|A Chain A, Solution Structure Of The Zf-Ccch Domain Of Target Of
           Egr1, Member 1 (Nuclear)
          Length = 50

 Score = 29.3 bits (64), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 12/26 (46%), Positives = 15/26 (57%)

Query: 201 AICSNYSMYGICKFGPTCRFDHPYAG 226
           +IC N+S YG C  GP C   H  +G
Sbjct: 21  SICDNFSAYGWCPLGPQCPQSHDISG 46


>pdb|2CQE|A Chain A, Solution Structure Of The Zinc-Finger Domain In Kiaa1064
           Protein
          Length = 98

 Score = 29.3 bits (64), Expect = 3.0,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 143 ASSQNLPERPDQPDCRYYMNTGTCKYGADCKFHH 176
           A ++N P       C+ Y  TG C  G DC F H
Sbjct: 25  ARAENCPYMHGDFPCKLYHTTGNCINGDDCMFSH 58


>pdb|4F11|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
          Gaba(B) Receptor Gbr2
 pdb|4F12|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
          Gaba(B) Receptor Gbr2
          Length = 433

 Score = 28.1 bits (61), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)

Query: 37 LPLTGNASLGSMGSSVLPSSGLQYAGSLPTWSLQRAPYLSSRLQGTQ 83
          +PLT   + GS+G  VLP+  L     +   SL R  +L  RL  T+
Sbjct: 21 MPLTKEVAKGSIGRGVLPAVELAIE-QIRNESLLRPYFLDLRLYDTE 66


  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
   0.313    0.129    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,215,694
Number of Sequences: 62578
Number of extensions: 400278
Number of successful extensions: 500
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 480
Number of HSP's gapped (non-prelim): 19
length of query: 319
length of database: 14,973,337
effective HSP length: 99
effective length of query: 220
effective length of database: 8,778,115
effective search space: 1931185300
effective search space used: 1931185300
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)