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= 014215
         (428 letters)

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

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



>pdb|2D4A|A Chain A, Structure Of The Malate Dehydrogenase From Aeropyrum
           Pernix
 pdb|2D4A|B Chain B, Structure Of The Malate Dehydrogenase From Aeropyrum
           Pernix
 pdb|2D4A|C Chain C, Structure Of The Malate Dehydrogenase From Aeropyrum
           Pernix
 pdb|2D4A|D Chain D, Structure Of The Malate Dehydrogenase From Aeropyrum
           Pernix
          Length = 308

 Score = 35.0 bits (79), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 21/83 (25%), Positives = 37/83 (44%)

Query: 174 FYQRTEGCKHGEACRFSHSTEKSENPLPFSGANGMKESKGGSLVEMTGLIGCKYHLSAGG 233
              RT G   GEA   +H+  +    +  SG+N  ++ +G  +V +T  IG K  ++   
Sbjct: 28  LIARTPGKPQGEALDLAHAAAELGVDIRISGSNSYEDMRGSDIVLVTAGIGRKPGMTREQ 87

Query: 234 CKYGNSCKFSHSKEKPQTYIKKS 256
               N+   +   EK + Y K +
Sbjct: 88  LLEANANTMADLAEKIKAYAKDA 110


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

 Score = 34.3 bits (77), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 34/82 (41%), Gaps = 25/82 (30%)

Query: 54  SQGTKHEYPSRPFAEDCPFYLRTGYCKFGFCCKFNHPVRGDFQGLKENERGGFVGQHLGQ 113
           S G+  E P +   E C FY+ TG+C     C + H   GDF                  
Sbjct: 2   SSGSSGELPKK--RELCKFYI-TGFCARAENCPYMH---GDFP----------------- 38

Query: 114 IQCKFYQSTGGCKHGEACRFKH 135
             CK Y +TG C +G+ C F H
Sbjct: 39  --CKLYHTTGNCINGDDCMFSH 58


>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 = 28.9 bits (63), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 1/34 (2%)

Query: 277 CPFYMRNGSCAYGVDCRFNHPDPVADEGSDPFNE 310
           CPF++  G C +  +CRF+H   V+ +   PF +
Sbjct: 79  CPFFL-EGKCRFKENCRFSHGQVVSLDELRPFQD 111


  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
   0.316    0.134    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,667,227
Number of Sequences: 62578
Number of extensions: 638880
Number of successful extensions: 1082
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1041
Number of HSP's gapped (non-prelim): 36
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)