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= 024979
         (259 letters)

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

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



>pdb|1VBV|A Chain A, Crystal Structure Of Hypothetical Protein From Esherichia
           Coli
          Length = 105

 Score = 34.3 bits (77), Expect = 0.076,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 4/52 (7%)

Query: 208 FRLGQKVNHKIFGYRAVICGMDPVCCES-SSWMEIAQVEKLQQGPSQPFYQV 258
           F +GQ+V H + GY  V+  +DPV   S  S  E+A  ++L+   + P+Y V
Sbjct: 6   FGIGQQVRHSLLGYLGVVVDIDPVYSLSEPSPDELAVNDELR---AAPWYHV 54


>pdb|1DP4|A Chain A, Dimerized Hormone Binding Domain Of The Atrial Natriuretic
           Peptide Receptor
 pdb|1DP4|C Chain C, Dimerized Hormone Binding Domain Of The Atrial Natriuretic
           Peptide Receptor
 pdb|1T34|A Chain A, Rotation Mechanism For Transmembrane Signaling By The
           Atrial Natriuretic Peptide Receptor
 pdb|1T34|B Chain B, Rotation Mechanism For Transmembrane Signaling By The
           Atrial Natriuretic Peptide Receptor
 pdb|3A3K|A Chain A, Reversibly Bound Chloride In The Atrial Natriuretic
           Peptide Receptor Hormone-Binding Domain
 pdb|3A3K|B Chain B, Reversibly Bound Chloride In The Atrial Natriuretic
           Peptide Receptor Hormone-Binding Domain
          Length = 435

 Score = 31.2 bits (69), Expect = 0.55,   Method: Compositional matrix adjust.
 Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 2/32 (6%)

Query: 25  WRRHFKLLEKSRIGIDRPCFCHQFVQGLHLRV 56
           W     +L   R+G DRPCF    V+GL++RV
Sbjct: 146 WEHQALVLYADRLGDDRPCFF--IVEGLYMRV 175


>pdb|4G0H|A Chain A, Crystal Structure Of The N-Terminal Domain Of Helicobacter
           Pylori Caga Protein
          Length = 916

 Score = 28.1 bits (61), Expect = 5.7,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 1/41 (2%)

Query: 117 EYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALS 157
           + D+ + LR K   +E+E+ ++LE+K G  +K EA+ +A S
Sbjct: 616 QKDLEKSLR-KREHLEKEVEKKLESKSGNKNKMEAKAQANS 655


>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
           Oncoprotein
          Length = 876

 Score = 27.7 bits (60), Expect = 5.9,   Method: Composition-based stats.
 Identities = 15/41 (36%), Positives = 27/41 (65%), Gaps = 1/41 (2%)

Query: 117 EYDIAQQLRNKLTEVEEEISRQLEAKRGLSSKSEAQDKALS 157
           + D+ + LR K   +E+E+ ++LE+K G  +K EA+ +A S
Sbjct: 616 QKDLEKSLR-KREHLEKEVEKKLESKSGNKNKMEAKAQANS 655


  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
   0.323    0.136    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,360,120
Number of Sequences: 62578
Number of extensions: 214487
Number of successful extensions: 461
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 459
Number of HSP's gapped (non-prelim): 11
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)