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= 005373
         (699 letters)

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

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



>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
 pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
 pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
          Length = 854

 Score = 31.6 bits (70), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 8/72 (11%)

Query: 346 KAEVEALKRESMKLREEVDDERKML--------QMAEVWREERVQMKLVDAKVAVEQKYS 397
           +AE+  L  E  KLR E + ER++L        ++ EV RE  +  +  D   A E +Y 
Sbjct: 436 EAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYG 495

Query: 398 QMNKLVAELEAF 409
           ++ KL AE+EA 
Sbjct: 496 ELPKLEAEVEAL 507


>pdb|3SYJ|A Chain A, Crystal Structure Of The Haemophilus Influenzae Hap
           Adhesin
          Length = 1011

 Score = 31.2 bits (69), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 4/97 (4%)

Query: 567 PITEISEVCSVPTKSLKKVSSIARLWRSGPNNGDNYKIITVDGTKGRLSVSNGRLSNGSL 626
           P T+I+   ++   +   V  +A+L  +G     N+   T+  +     + N RLS+ S 
Sbjct: 699 PKTQINGSINLTDNATANVKGLAKL--NGNVTLTNHSQFTL--SNNATQIGNIRLSDNST 754

Query: 627 ASLDRGSGNGGLSPSDLGQWSSPDSGNPHVTRGMKGC 663
           A++D  + NG +  +D  Q+S  +S   H  +G KG 
Sbjct: 755 ATVDNANLNGNVHLTDSAQFSLKNSHFSHQIQGDKGT 791


>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
           Chloride And Adp
          Length = 397

 Score = 30.8 bits (68), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 8/72 (11%)

Query: 346 KAEVEALKRESMKLREEVDDERKML--------QMAEVWREERVQMKLVDAKVAVEQKYS 397
           +AE+  L  E  KLR E + ER++L        ++ EV RE  +  +  D   A E +Y 
Sbjct: 299 EAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYG 358

Query: 398 QMNKLVAELEAF 409
           ++ KL AE+EA 
Sbjct: 359 ELPKLEAEVEAL 370


>pdb|3KBO|A Chain A, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
           (ycdw) From Salmonella Typhimurium In Complex With Nadp
 pdb|3KBO|B Chain B, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
           (ycdw) From Salmonella Typhimurium In Complex With Nadp
 pdb|3KBO|C Chain C, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
           (ycdw) From Salmonella Typhimurium In Complex With Nadp
 pdb|3KBO|D Chain D, 2.14 Angstrom Crystal Structure Of Putative Oxidoreductase
           (ycdw) From Salmonella Typhimurium In Complex With Nadp
 pdb|3PP8|A Chain A, 2.1 Angstrom Crystal Structure Of Putative Oxidoreductase
           (Ycdw) From Salmonella Typhimurium
          Length = 315

 Score = 30.4 bits (67), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 17/57 (29%), Positives = 31/57 (54%), Gaps = 4/57 (7%)

Query: 257 LRKVSEEKAAWRSRE----HEKIRAFIDDLKAEISRERKNRQRIEIVNSKLVNELAD 309
           LR  S  + +W   E     E++RAF++  +  I+      Q + I+NS+L+++L D
Sbjct: 165 LRCWSRSRKSWPGVESYVGREELRAFLNQTRVLINLLPNTAQTVGIINSELLDQLPD 221


  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
   0.311    0.127    0.363 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,774,701
Number of Sequences: 62578
Number of extensions: 817970
Number of successful extensions: 1633
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1616
Number of HSP's gapped (non-prelim): 33
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.8 bits)