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= 006469
         (644 letters)

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

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



>pdb|3C8C|A Chain A, Crystal Structure Of Mcp_n And Cache Domains Of Methyl-
           Accepting Chemotaxis Protein From Vibrio Cholerae
 pdb|3C8C|B Chain B, Crystal Structure Of Mcp_n And Cache Domains Of Methyl-
           Accepting Chemotaxis Protein From Vibrio Cholerae
          Length = 240

 Score = 32.3 bits (72), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 26/99 (26%), Positives = 46/99 (46%), Gaps = 16/99 (16%)

Query: 316 LNSELHNIETALSNEREQHMNEIKKLNA----LLIEKEAALEDMKKELQARPTSKMVDDL 371
           L S  +++  A   E  + +NE+K  +A    ++ E    +   KKE   +P S+ + + 
Sbjct: 135 LGSIFYDVSLA---ELAELVNEVKLFDAGYVFIVSEDGTTIAHPKKEFNGKPXSEFLGES 191

Query: 372 RKKVKILQ--------AVGYNSIEAEDWEVATN-DEEMS 401
           +  V   Q        AV ++ +E EDW V    DEE++
Sbjct: 192 KINVDTHQVIINGKPYAVSFSDVEGEDWYVGVVIDEEIA 230


>pdb|3ZTA|A Chain A, The Bacterial Stressosome: A Modular System That Has Been
           Adapted To Control Secondary Messenger Signaling
          Length = 146

 Score = 31.2 bits (69), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 31/102 (30%), Positives = 43/102 (42%), Gaps = 22/102 (21%)

Query: 513 RDRFRARLRETEEEVRQLKEKIGVLTAELEKTKADNVQLYGKIRFVQDYNNEKVISRGSK 572
           RD  RA L + E+         G  T+ELEK  AD V    KI F Q Y+ E +     +
Sbjct: 38  RDFCRAILSDLEQS--------GFTTSELEKEIADKV----KIXFAQGYHIEVL-----Q 80

Query: 573 KYAEDLESGFTSDIESKYKKMYEDDINPFAAFSKKERDQRYK 614
              E +   F S I  +Y      D+   A++    RD  +K
Sbjct: 81  LILEKILDSFISVIREQYH-----DLQAAASYITTVRDHIFK 117


>pdb|2DU2|A Chain A, Crystal Structure Analysis Of The L-Lactate Oxidase
 pdb|2DU2|B Chain B, Crystal Structure Analysis Of The L-Lactate Oxidase
 pdb|2DU2|C Chain C, Crystal Structure Analysis Of The L-Lactate Oxidase
 pdb|2DU2|D Chain D, Crystal Structure Analysis Of The L-Lactate Oxidase
 pdb|2E77|A Chain A, Crystal Structure Of L-Lactate Oxidase With Pyruvate
           Complex
 pdb|2E77|B Chain B, Crystal Structure Of L-Lactate Oxidase With Pyruvate
           Complex
 pdb|2E77|C Chain C, Crystal Structure Of L-Lactate Oxidase With Pyruvate
           Complex
 pdb|2E77|D Chain D, Crystal Structure Of L-Lactate Oxidase With Pyruvate
           Complex
 pdb|2ZFA|A Chain A, Structure Of Lactate Oxidase At Ph4.5 From Aerococcus
           Viridans
 pdb|2ZFA|B Chain B, Structure Of Lactate Oxidase At Ph4.5 From Aerococcus
           Viridans
          Length = 374

 Score = 29.6 bits (65), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 5/67 (7%)

Query: 64  STRDFKKASPEEKLSLFNSLLKGYQ--EEVDNLTKRAKFGENAFLNIYQKLYEAPDPYPA 121
           S RD ++ +    L +F   +KG Q  E+ D   KR   G     +  ++LYEAP  +  
Sbjct: 223 SPRDIEEIAGHSGLPVF---VKGIQHPEDADMAIKRGASGIWVSNHGARQLYEAPGSFDT 279

Query: 122 LASIAEQ 128
           L +IAE+
Sbjct: 280 LPAIAER 286


>pdb|2NLI|A Chain A, Crystal Structure Of The Complex Between L-Lactate Oxidase
           And A Substrate Analogue At 1.59 Angstrom Resolution
 pdb|2NLI|B Chain B, Crystal Structure Of The Complex Between L-Lactate Oxidase
           And A Substrate Analogue At 1.59 Angstrom Resolution
          Length = 368

 Score = 29.3 bits (64), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 5/67 (7%)

Query: 64  STRDFKKASPEEKLSLFNSLLKGYQ--EEVDNLTKRAKFGENAFLNIYQKLYEAPDPYPA 121
           S RD ++ +    L +F   +KG Q  E+ D   KR   G     +  ++LYEAP  +  
Sbjct: 217 SPRDIEEIAGHSGLPVF---VKGIQHPEDADMAIKRGASGIWVSNHGARQLYEAPGSFDT 273

Query: 122 LASIAEQ 128
           L +IAE+
Sbjct: 274 LPAIAER 280


  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
   0.309    0.126    0.329 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,342,747
Number of Sequences: 62578
Number of extensions: 575728
Number of successful extensions: 2061
Number of sequences better than 100.0: 88
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 78
Number of HSP's that attempted gapping in prelim test: 1985
Number of HSP's gapped (non-prelim): 132
length of query: 644
length of database: 14,973,337
effective HSP length: 105
effective length of query: 539
effective length of database: 8,402,647
effective search space: 4529026733
effective search space used: 4529026733
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (25.8 bits)