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= 013628
         (439 letters)

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

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



>pdb|2RHQ|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
           Engineering And Inhibitor Studies
          Length = 795

 Score = 33.1 bits (74), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 34/136 (25%), Positives = 56/136 (41%), Gaps = 20/136 (14%)

Query: 236 YLVPPGSSFGGLNDRLGIGDLNTSI----VALSRLSLIPQLDLAG------FRQLNSETA 285
           YL+   +S   L DR+  GDL + +    +   +++     +L+       FRQL  ET 
Sbjct: 382 YLLQELASGEVLQDRVSSGDLGSFVTPIDITAEKVNKTIGFNLSNDEIQSIFRQLGFETT 441

Query: 286 FKAQLTTHHVPRLTKRLPFCIVTD------RKYGFPPSRFGVPVAAMSSKGPLSG--AKC 337
            K +  T +VP  ++R    I  D      R YG+      +PV    + G L+    K 
Sbjct: 442 LKGETLTVNVP--SRRKDITIKEDLIEEVARIYGYDEIPSSLPVFGEVTSGELTDRQHKT 499

Query: 338 RPCTAVCRGSCVNDVM 353
           R       G+ +N  +
Sbjct: 500 RTLKETLEGAGLNQAI 515


>pdb|2RHS|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
           Engineering And Inhibitor Studies
 pdb|2RHS|D Chain D, Phers From Staphylococcus Haemolyticus- Rational Protein
           Engineering And Inhibitor Studies
          Length = 800

 Score = 33.1 bits (74), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 34/136 (25%), Positives = 56/136 (41%), Gaps = 20/136 (14%)

Query: 236 YLVPPGSSFGGLNDRLGIGDLNTSI----VALSRLSLIPQLDLAG------FRQLNSETA 285
           YL+   +S   L DR+  GDL + +    +   +++     +L+       FRQL  ET 
Sbjct: 386 YLLQELASGEVLQDRVSSGDLGSFVTPIDITAEKVNKTIGFNLSNDEIQSIFRQLGFETT 445

Query: 286 FKAQLTTHHVPRLTKRLPFCIVTD------RKYGFPPSRFGVPVAAMSSKGPLSG--AKC 337
            K +  T +VP  ++R    I  D      R YG+      +PV    + G L+    K 
Sbjct: 446 LKGETLTVNVP--SRRKDITIKEDLIEEVARIYGYDEIPSSLPVFGEVTSGELTDRQHKT 503

Query: 338 RPCTAVCRGSCVNDVM 353
           R       G+ +N  +
Sbjct: 504 RTLKETLEGAGLNQAI 519


>pdb|3CU5|A Chain A, Crystal Structure Of A Two Component Transcriptional
           Regulator Arac From Clostridium Phytofermentans Isdg
 pdb|3CU5|B Chain B, Crystal Structure Of A Two Component Transcriptional
           Regulator Arac From Clostridium Phytofermentans Isdg
          Length = 141

 Score = 30.4 bits (67), Expect = 1.9,   Method: Composition-based stats.
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 5/65 (7%)

Query: 103 LVGGARRFELTGPSIIENILEVYPNADLFLHSPLDKNAYKFSLLKLAPRLASVRIFEPKP 162
           L+   R   + G  +++NIL++YP+  +   S      Y    LK A +  ++R  E KP
Sbjct: 53  LLTDVRMPRMDGIELVDNILKLYPDCSVIFMSGYSDKEY----LKAAIKFRAIRYVE-KP 107

Query: 163 LNETE 167
           ++ +E
Sbjct: 108 IDPSE 112


>pdb|1U0S|Y Chain Y, Chemotaxis Kinase Chea P2 Domain In Complex With Response
           Regulator Chey From The Thermophile Thermotoga Maritima
          Length = 118

 Score = 28.9 bits (63), Expect = 5.9,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 111 ELTGPSIIENILEVYPNADLFLHSPLDKNAYKFSLLKLAPRLASVRIFEPKPLNETESQV 170
           E+ G   I+ I+++ PNA + + S + + A     +K   +   V+ F+P  + E  ++V
Sbjct: 58  EMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV 117


>pdb|3TMY|A Chain A, Chey From Thermotoga Maritima (Mn-Iii)
 pdb|3TMY|B Chain B, Chey From Thermotoga Maritima (Mn-Iii)
 pdb|4TMY|A Chain A, Chey From Thermotoga Maritima (mg-iv)
 pdb|4TMY|B Chain B, Chey From Thermotoga Maritima (mg-iv)
 pdb|1TMY|A Chain A, Chey From Thermotoga Maritima (Apo-I)
 pdb|2TMY|A Chain A, Chey From Thermotoga Maritima (Apo-Ii)
          Length = 120

 Score = 28.9 bits (63), Expect = 5.9,   Method: Composition-based stats.
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 111 ELTGPSIIENILEVYPNADLFLHSPLDKNAYKFSLLKLAPRLASVRIFEPKPLNETESQV 170
           E+ G   I+ I+++ PNA + + S + + A     +K   +   V+ F+P  + E  ++V
Sbjct: 59  EMNGIDAIKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKV 118


  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
   0.321    0.137    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,181,078
Number of Sequences: 62578
Number of extensions: 531702
Number of successful extensions: 940
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 938
Number of HSP's gapped (non-prelim): 5
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)