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= 023323
         (284 letters)

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

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



>pdb|3U10|A Chain A, Tetramerization Dynamics Of The C-Terminus Underlies
           Isoform-Specific Camp-Gating In Hcn Channels
          Length = 210

 Score = 29.6 bits (65), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 17  LNRGQYISMVCLLHRLVPENAKSMETFDSLTVFTAKDYNTTIEFYWAPFLLKSNADNAVI 76
           L+ G Y   +CLL R     +   +T+  L   +  ++N  +E Y    +++   +   I
Sbjct: 139 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYP---MMRRAFETVAI 195

Query: 77  HRITDRIVRKGSIDNH 92
            R+ DRI +K SI  H
Sbjct: 196 DRL-DRIGKKNSILLH 210


>pdb|1Q3E|A Chain A, Hcn2j 443-645 In The Presence Of Cgmp
 pdb|1Q3E|B Chain B, Hcn2j 443-645 In The Presence Of Cgmp
          Length = 207

 Score = 29.3 bits (64), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 4/76 (5%)

Query: 17  LNRGQYISMVCLLHRLVPENAKSMETFDSLTVFTAKDYNTTIEFYWAPFLLKSNADNAVI 76
           L+ G Y   +CLL R     +   +T+  L   +  ++N  +E Y    +++   +   I
Sbjct: 136 LSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYP---MMRRAFETVAI 192

Query: 77  HRITDRIVRKGSIDNH 92
            R+ DRI +K SI  H
Sbjct: 193 DRL-DRIGKKNSILLH 207


  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
   0.320    0.135    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,912,565
Number of Sequences: 62578
Number of extensions: 372216
Number of successful extensions: 860
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 860
Number of HSP's gapped (non-prelim): 6
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
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: 51 (24.3 bits)