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= 019224
         (344 letters)

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

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



>pdb|3LB5|A Chain A, Crystal Structure Of Hit-Like Protein Involved In
           Cell-Cycle Regulation From Bartonella Henselae With
           Unknown Ligand
 pdb|3LB5|B Chain B, Crystal Structure Of Hit-Like Protein Involved In
           Cell-Cycle Regulation From Bartonella Henselae With
           Unknown Ligand
 pdb|3LB5|C Chain C, Crystal Structure Of Hit-Like Protein Involved In
           Cell-Cycle Regulation From Bartonella Henselae With
           Unknown Ligand
 pdb|3LB5|D Chain D, Crystal Structure Of Hit-Like Protein Involved In
           Cell-Cycle Regulation From Bartonella Henselae With
           Unknown Ligand
          Length = 161

 Score = 32.3 bits (72), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 6/72 (8%)

Query: 238 QKGSFKLLKADVSA-----QTFLKIGFGVEKKLKEGDGFDLEGFPEWRTKPETVKLHFEV 292
           +KGS  LL AD        +   KI   V+K   + DG  +  F E  ++     LHF +
Sbjct: 70  KKGSRNLLDADTETLFPVIKAVQKIAKAVKKAF-QADGITVMQFNEAASQQTVYHLHFHI 128

Query: 293 LAKVDGEKVIPE 304
           + +++G ++ P 
Sbjct: 129 IPRMEGIELTPH 140


>pdb|3A06|A Chain A, Crystal Structure Of Dxr From Thermooga Maritia, In
           Complex Fosmidomycin And Nadph
 pdb|3A06|B Chain B, Crystal Structure Of Dxr From Thermooga Maritia, In
           Complex Fosmidomycin And Nadph
 pdb|3A14|A Chain A, Crystal Structure Of Dxr From Thermotoga Maritima, In
           Comple Nadph
 pdb|3A14|B Chain B, Crystal Structure Of Dxr From Thermotoga Maritima, In
           Comple Nadph
          Length = 376

 Score = 30.4 bits (67), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 2/52 (3%)

Query: 248 DVSAQTFLK--IGFGVEKKLKEGDGFDLEGFPEWRTKPETVKLHFEVLAKVD 297
           +V+ + FLK  I FG   ++ E    + +G+P+ RT  +  ++HFE + K +
Sbjct: 314 EVAVEAFLKGRIRFGGIHRVIEKTLEEFQGYPQPRTLDDVERIHFEAIKKAE 365


>pdb|2XXA|A Chain A, The Crystal Structure Of The Signal Recognition Particle
           (Srp) In Complex With Its Receptor(Sr)
 pdb|2XXA|C Chain C, The Crystal Structure Of The Signal Recognition Particle
           (Srp) In Complex With Its Receptor(Sr)
          Length = 433

 Score = 28.9 bits (63), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 24/43 (55%)

Query: 264 KLKEGDGFDLEGFPEWRTKPETVKLHFEVLAKVDGEKVIPERV 306
           KLK+GDGFDL  F E   + + +     ++ K+ G   IP+ V
Sbjct: 322 KLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNV 364


>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs
          Length = 430

 Score = 28.5 bits (62), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 24/43 (55%)

Query: 264 KLKEGDGFDLEGFPEWRTKPETVKLHFEVLAKVDGEKVIPERV 306
           KLK+GDGFDL  F E   + + +     ++ K+ G   IP+ V
Sbjct: 321 KLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNV 363


  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
   0.317    0.136    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,875,352
Number of Sequences: 62578
Number of extensions: 398870
Number of successful extensions: 866
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 863
Number of HSP's gapped (non-prelim): 8
length of query: 344
length of database: 14,973,337
effective HSP length: 100
effective length of query: 244
effective length of database: 8,715,537
effective search space: 2126591028
effective search space used: 2126591028
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)