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= 020610
         (323 letters)

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

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



>pdb|4ANI|A Chain A, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
 pdb|4ANI|B Chain B, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
 pdb|4ANI|E Chain E, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
 pdb|4ANI|F Chain F, Structural Basis For The Intermolecular Communication
           Between Dnak And Grpe In The Dnak Chaperone System From
           Geobacillus Kaustophilus Hta426
          Length = 213

 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 32/89 (35%), Positives = 50/89 (56%), Gaps = 14/89 (15%)

Query: 195 MKQMQDKVLRSFAEMENVKDRTIREAENSKKFAIQNFAKALLDVADNLGRASSVVKENFL 254
           + +M+ + LR +A+ EN + RT +E E ++K+  Q+ A  LL V DN  RA        L
Sbjct: 75  LSEMEHRYLRLYADFENFRRRTRQEMEAAEKYRAQSLASDLLPVLDNFERA--------L 126

Query: 255 KIDPSNDTAGAVPLLKSLLEGVEMTEKQL 283
           KI+  N+ A      KS+L+G+EM  + L
Sbjct: 127 KIETDNEQA------KSILQGMEMVYRSL 149


>pdb|1DKG|A Chain A, Crystal Structure Of The Nucleotide Exchange Factor Grpe
           Bound To The Atpase Domain Of The Molecular Chaperone
           Dnak
 pdb|1DKG|B Chain B, Crystal Structure Of The Nucleotide Exchange Factor Grpe
           Bound To The Atpase Domain Of The Molecular Chaperone
           Dnak
          Length = 197

 Score = 48.1 bits (113), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 35/106 (33%), Positives = 55/106 (51%), Gaps = 15/106 (14%)

Query: 199 QDKVLRSFAEMENVKDRTIREAENSKKFAIQNFAKALLDVADNLGRASSVVKENFLKIDP 258
           +D +LR  AEMEN++ RT  + E + KFA++ F   LL V D+L RA  V        D 
Sbjct: 59  RDGILRVKAEMENLRRRTELDIEKAHKFALEKFINELLPVIDSLDRALEVA-------DK 111

Query: 259 SNDTAGAVPLLKSLLEGVEMTEKQLGEV--KFYYCFPSHVSASLPP 302
           +N      P + +++E +E+T K + +V  KF     +  +  L P
Sbjct: 112 AN------PDMSAMVEDIELTLKSMLDVVRKFGVEVIAETNVPLDP 151


>pdb|3A6M|A Chain A, Crystal Structure Of Grpe From Thermus Thermophilus Hb8
 pdb|3A6M|B Chain B, Crystal Structure Of Grpe From Thermus Thermophilus Hb8
          Length = 177

 Score = 35.0 bits (79), Expect = 0.051,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 31/54 (57%)

Query: 192 NEEMKQMQDKVLRSFAEMENVKDRTIREAENSKKFAIQNFAKALLDVADNLGRA 245
            EE+K ++DK LR  A+ +N + R   E +  ++  +    +ALL V D+L RA
Sbjct: 32  EEELKGLKDKYLRLLADFDNYRKRMEEELKAREREGVLKALRALLPVLDDLDRA 85


  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    0.126    0.352 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,999,378
Number of Sequences: 62578
Number of extensions: 302070
Number of successful extensions: 500
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 494
Number of HSP's gapped (non-prelim): 8
length of query: 323
length of database: 14,973,337
effective HSP length: 99
effective length of query: 224
effective length of database: 8,778,115
effective search space: 1966297760
effective search space used: 1966297760
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: 51 (24.3 bits)