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= 029264
         (196 letters)

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

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



>pdb|2A96|A Chain A, Crystal Structure Of Phosphate Tethered Phon Of S.
           Typhimurium
 pdb|2A96|B Chain B, Crystal Structure Of Phosphate Tethered Phon Of S.
           Typhimurium
 pdb|2A96|C Chain C, Crystal Structure Of Phosphate Tethered Phon Of S.
           Typhimurium
 pdb|2A96|D Chain D, Crystal Structure Of Phosphate Tethered Phon Of S.
           Typhimurium
          Length = 250

 Score = 32.3 bits (72), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 19/109 (17%)

Query: 88  KSIFRRSRP--LYN-----PDMKPAVSVDHFSFPSGHASRVFFVASFISLLDDFSGNCWL 140
           K  + R+RP  L+N     P+ +  +  D  S+PSGH +    +A  +S           
Sbjct: 123 KKYYMRTRPFVLFNHSTCRPEDENTLRKDG-SYPSGHTAYSTLLALVLSQARPERAQELA 181

Query: 141 VLGVWTWAVLTSCSRVLLGRHFVSDVLAGACLGVLEAAFVFRFLKVKTI 189
             G W +      SRV+ G H+ SDV AG  +G +E      F +++TI
Sbjct: 182 RRG-WEFGQ----SRVICGAHWQSDVDAGRYVGAVE------FARLQTI 219


>pdb|2AKC|A Chain A, Crystal Structure Of Tungstate Complex Of The Phon Protein
           From S. Typhimurium
 pdb|2AKC|B Chain B, Crystal Structure Of Tungstate Complex Of The Phon Protein
           From S. Typhimurium
 pdb|2AKC|C Chain C, Crystal Structure Of Tungstate Complex Of The Phon Protein
           From S. Typhimurium
 pdb|2AKC|D Chain D, Crystal Structure Of Tungstate Complex Of The Phon Protein
           From S. Typhimurium
          Length = 230

 Score = 32.0 bits (71), Expect = 0.20,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 19/109 (17%)

Query: 88  KSIFRRSRP--LYN-----PDMKPAVSVDHFSFPSGHASRVFFVASFISLLDDFSGNCWL 140
           K  + R+RP  L+N     P+ +  +  D  S+PSGH +    +A  +S           
Sbjct: 103 KKYYMRTRPFVLFNHSTCRPEDENTLRKDG-SYPSGHTAYSTLLALVLSQARPERAQELA 161

Query: 141 VLGVWTWAVLTSCSRVLLGRHFVSDVLAGACLGVLEAAFVFRFLKVKTI 189
             G W +      SRV+ G H+ SDV AG  +G +E      F +++TI
Sbjct: 162 RRG-WEFGQ----SRVICGAHWQSDVDAGRYVGAVE------FARLQTI 199


>pdb|2IPB|A Chain A, Crystal Structure Of T159d Mutant Of S. Typhimurium Phon
           Protein
 pdb|2IPB|B Chain B, Crystal Structure Of T159d Mutant Of S. Typhimurium Phon
           Protein
 pdb|2IPB|C Chain C, Crystal Structure Of T159d Mutant Of S. Typhimurium Phon
           Protein
 pdb|2IPB|D Chain D, Crystal Structure Of T159d Mutant Of S. Typhimurium Phon
           Protein
          Length = 230

 Score = 31.6 bits (70), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 19/109 (17%)

Query: 88  KSIFRRSRP--LYN-----PDMKPAVSVDHFSFPSGHASRVFFVASFISLLDDFSGNCWL 140
           K  + R+RP  L+N     P+ +  +  D  S+PSGH +    +A  +S           
Sbjct: 103 KKYYMRTRPFVLFNHSTCRPEDENTLRKDG-SYPSGHDAYSTLLALVLSQARPERAQELA 161

Query: 141 VLGVWTWAVLTSCSRVLLGRHFVSDVLAGACLGVLEAAFVFRFLKVKTI 189
             G W +      SRV+ G H+ SDV AG  +G +E      F +++TI
Sbjct: 162 RRG-WEFGQ----SRVICGAHWQSDVDAGRYVGAVE------FARLQTI 199


  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
   0.330    0.139    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,825,783
Number of Sequences: 62578
Number of extensions: 153836
Number of successful extensions: 305
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 302
Number of HSP's gapped (non-prelim): 3
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 49 (23.5 bits)