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= psy8783
         (74 letters)

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

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



>pdb|2XKK|A Chain A, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii
           Topo Iv (Pare-Parc Fusion Truncate)
 pdb|2XKK|C Chain C, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii
           Topo Iv (Pare-Parc Fusion Truncate)
          Length = 767

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 23/52 (44%)

Query: 16  DVHFSHQDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHETATDGKELRL 67
           DVH++  D++L   +K +       +   K LG M  I   ET  D    RL
Sbjct: 166 DVHYALDDEELETILKNVKGNKNPQITRFKGLGEMNAIQLRETTMDPNTRRL 217


>pdb|2XKJ|E Chain E, Crystal Structure Of Catalytic Core Of A. Baumannii Topo
           Iv (Pare-Parc Fusion Truncate)
          Length = 767

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 23/52 (44%)

Query: 16  DVHFSHQDQDLFYFVKELPQKIRDDLDELKRLGSMFNITTHETATDGKELRL 67
           DVH++  D++L   +K +       +   K LG M  I   ET  D    RL
Sbjct: 166 DVHYALDDEELETILKNVKGNKNPQITRFKGLGEMNAIQLRETTMDPNTRRL 217


>pdb|3HVA|A Chain A, Crystal Structure Of Fimx Ggdef Domain From Pseudomonas
          Aeruginosa
 pdb|3HVA|B Chain B, Crystal Structure Of Fimx Ggdef Domain From Pseudomonas
          Aeruginosa
          Length = 177

 Score = 27.7 bits (60), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 10/16 (62%), Positives = 13/16 (81%)

Query: 2  QDVVTSVFNNSHFLDV 17
          QD VT ++N SHFLD+
Sbjct: 15 QDPVTGLYNRSHFLDL 30


>pdb|4J40|A Chain A, Crystal Structure Of The Dual-domain Ggdef-eal Module Of
          Fimx From Pseudomonas Aeruginosa
 pdb|4J40|B Chain B, Crystal Structure Of The Dual-domain Ggdef-eal Module Of
          Fimx From Pseudomonas Aeruginosa
          Length = 437

 Score = 25.8 bits (55), Expect = 5.7,   Method: Composition-based stats.
 Identities = 10/16 (62%), Positives = 13/16 (81%)

Query: 2  QDVVTSVFNNSHFLDV 17
          QD VT ++N SHFLD+
Sbjct: 15 QDPVTGLYNRSHFLDL 30


  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    0.134    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,122,670
Number of Sequences: 62578
Number of extensions: 70919
Number of successful extensions: 307
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 303
Number of HSP's gapped (non-prelim): 4
length of query: 74
length of database: 14,973,337
effective HSP length: 44
effective length of query: 30
effective length of database: 12,219,905
effective search space: 366597150
effective search space used: 366597150
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)