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= 044660
         (159 letters)

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

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



>pdb|2VQX|A Chain A, Precursor Of Protealysin, Metalloproteinase From Serratia
           Proteamaculans
          Length = 341

 Score = 27.3 bits (59), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 20/55 (36%), Positives = 23/55 (41%), Gaps = 8/55 (14%)

Query: 98  VHYGIGIPRPDFLDEATYLGTRFTDGFLCNLWEKLDFIWYYEDVQTKKPIRWDFS 152
           VH   GIP   F   AT LG     G+    WEK  +IWY        P   DF+
Sbjct: 263 VHLNSGIPNRAFYLAATALG-----GYA---WEKAGYIWYDTLCDKALPQDADFA 309


>pdb|3AYX|B Chain B, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An H2-Reduced Condition
 pdb|3AYX|D Chain D, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An H2-Reduced Condition
 pdb|3AYY|B Chain B, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
           Condition
 pdb|3AYY|D Chain D, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
           Condition
 pdb|3AYZ|B Chain B, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An Air-Oxidized Condition
 pdb|3AYZ|D Chain D, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An Air-Oxidized Condition
          Length = 283

 Score = 26.9 bits (58), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 23/91 (25%), Positives = 33/91 (36%), Gaps = 15/91 (16%)

Query: 31  WPERFHALTYKNLSSDGLQIADQWYDWPRGRNVYIIQK------QLSDLLYNVEWNNGTS 84
           + +R H   Y+    D  Q  ++W D    R  Y + K         +    V WN GTS
Sbjct: 191 YSQRIHDKCYRRPHFDAGQFVEEWDD-EGARKGYCLYKVGCKGPTTYNACSTVRWNGGTS 249

Query: 85  FYYTLGENGTCDVVHYGIGIPRPDFLDEATY 115
           F    G        H  IG     F D+ ++
Sbjct: 250 FPIQSG--------HGCIGCSEDGFWDKGSF 272


>pdb|3KD3|A Chain A, Crystal Structure Of A Phosphoserine Phosphohydrolase-Like
           Protein From Francisella Tularensis Subsp. Tularensis
           Schu S4
 pdb|3KD3|B Chain B, Crystal Structure Of A Phosphoserine Phosphohydrolase-Like
           Protein From Francisella Tularensis Subsp. Tularensis
           Schu S4
          Length = 219

 Score = 26.9 bits (58), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 26/69 (37%)

Query: 79  WNNGTSFYYTLGENGTCDVVHYGIGIPRPDFLDEATYLGTRFTDGFLCNLWEKLDFIWYY 138
           WN+  SF      NG CD         +     E   +G  +TD  L        FI Y 
Sbjct: 133 WNSDGSFKELDNSNGACDSKLSAFDKAKGLIDGEVIAIGDGYTDYQLYEKGYATKFIAYX 192

Query: 139 EDVQTKKPI 147
           E ++ +K I
Sbjct: 193 EHIEREKVI 201


>pdb|4FCY|A Chain A, Crystal Structure Of The Bacteriophage Mu Transpososome
 pdb|4FCY|B Chain B, Crystal Structure Of The Bacteriophage Mu Transpososome
          Length = 529

 Score = 26.6 bits (57), Expect = 5.8,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 7/43 (16%)

Query: 122 DGFLCNL---WEKLDFI----WYYEDVQTKKPIRWDFSDDQNL 157
           DG+L N+   W   D I    W+++DV+T+K + W     +N+
Sbjct: 193 DGYLHNVFVRWFNGDVIRPKTWFWQDVKTRKILGWRCDVSENI 235


  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    0.143    0.495 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,492,454
Number of Sequences: 62578
Number of extensions: 251370
Number of successful extensions: 520
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 515
Number of HSP's gapped (non-prelim): 12
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)