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= 038544
         (69 letters)

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

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



>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp
          Family Of Plant Myb-Related Dna Binding Motifs Of The
          Arabidopsis Response Regulators
          Length = 64

 Score = 48.9 bits (115), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 25/50 (50%), Positives = 33/50 (66%), Gaps = 1/50 (2%)

Query: 18 PRLRWTPELHKHFSQAVERLGGKYKASPKRILHMMNVKGLKLSHIKSHLQ 67
          PR+ WT ELH  F  AV+ LG + +A PK+IL +MNV  L   ++ SHLQ
Sbjct: 6  PRVLWTHELHNKFLAAVDHLGVE-RAVPKKILDLMNVDKLTRENVASHLQ 54


>pdb|3J2K|7 Chain 7, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
           Termination Complex
          Length = 439

 Score = 26.6 bits (57), Expect = 3.6,   Method: Composition-based stats.
 Identities = 13/53 (24%), Positives = 26/53 (49%)

Query: 13  NKSELPRLRWTPELHKHFSQAVERLGGKYKASPKRILHMMNVKGLKLSHIKSH 65
           NK + P + W+ E ++   + +     K   +PK+ +H M   GL  +++K  
Sbjct: 163 NKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQ 215


>pdb|2H5G|A Chain A, Crystal Structure Of Human Pyrroline-5-carboxylate
           Synthetase
 pdb|2H5G|B Chain B, Crystal Structure Of Human Pyrroline-5-carboxylate
           Synthetase
          Length = 463

 Score = 25.8 bits (55), Expect = 6.0,   Method: Composition-based stats.
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 38  GGKYKASPKRILHMMNVKGLKLSHIKSHLQV 68
           GGK  A   RILH++  + L +  +K  +Q+
Sbjct: 173 GGKEAAHSNRILHLLTQEALSIHGVKEAVQL 203


  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
   0.319    0.131    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,013,314
Number of Sequences: 62578
Number of extensions: 59573
Number of successful extensions: 150
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 146
Number of HSP's gapped (non-prelim): 3
length of query: 69
length of database: 14,973,337
effective HSP length: 39
effective length of query: 30
effective length of database: 12,532,795
effective search space: 375983850
effective search space used: 375983850
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)