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= 017157
         (376 letters)

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

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



>pdb|3C1D|A Chain A, X-Ray Crystal Structure Of Recx
 pdb|3C1D|B Chain B, X-Ray Crystal Structure Of Recx
          Length = 159

 Score = 37.4 bits (85), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 63/156 (40%), Gaps = 34/156 (21%)

Query: 216 AVKLLATRAFTAVEMRKKLN----GKKFPSHV------IEAVITDFQSRGLINDSLXXXX 265
           AV++LA R  +  E+R+KL     GK  P  +       E VI      G ++DS     
Sbjct: 11  AVRILAVRDHSEQELRRKLAAPIMGKNGPEEIDATAEDYERVIAWCHEHGYLDDS-RFVA 69

Query: 266 XXXXXXXXXXXGPRRIKQALFKKGISQTDAKKAVNLVFRDGESDEDQESKLGMSKHSIDR 325
                      GP RI+Q L +KGIS+   +KA+       E+D D  +           
Sbjct: 70  RFIASRSRKGYGPARIRQELNQKGISREATEKAMR------EADIDWAA----------- 112

Query: 326 LFVQASKQWLRSQGAPKET---RKSRIIHWLQYRGF 358
               A  Q  R  G P  T    K +I  +L YRG+
Sbjct: 113 ---LARDQATRKYGEPLPTVFSEKVKIQRFLLYRGY 145


>pdb|3D5L|A Chain A, Crystal Structure Of Regulatory Protein Recx
 pdb|3D5L|B Chain B, Crystal Structure Of Regulatory Protein Recx
          Length = 221

 Score = 32.7 bits (73), Expect = 0.33,   Method: Compositional matrix adjust.
 Identities = 32/147 (21%), Positives = 57/147 (38%), Gaps = 15/147 (10%)

Query: 220 LATRAFTAVEMRKKLNGKKFPSHVIEAVITDFQSRGLINDSLXXXXXXXXXXXXXXXGPR 279
           L+ +  T  ++ KKL     P   +E ++   + + LI+D                 GP 
Sbjct: 71  LSYQMRTESDIVKKLKEIDTPEEFVEPILKKLRGQQLIDDHAYAASYVRTMINTDLKGPG 130

Query: 280 RIKQALFKKGISQTDAKKAVNLVFRDGESDEDQESKLGMSKHSIDRLFVQASKQWLRSQG 339
            I+Q L +KGI ++D   A+       E   +   KL +             K + R + 
Sbjct: 131 IIRQHLRQKGIGESDIDDALTQF--TPEVQAELAKKLAL-------------KLFRRYRN 175

Query: 340 APKETRKSRIIHWLQYRGFNWCVTSFI 366
            P+  R+ ++   L  +GF+  V   I
Sbjct: 176 QPERRREQKVQQGLTTKGFSSSVYEMI 202


>pdb|3E3V|A Chain A, Crystal Structure Of Recx From Lactobacillus Salivarius
          Length = 177

 Score = 32.3 bits (72), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 35/158 (22%), Positives = 61/158 (38%), Gaps = 15/158 (9%)

Query: 214 NLAVKLLATRAFTAVEMRKKLNGKKFPSHVIEAVITDFQSRGLINDSLXXXXXXXXXXXX 273
           N A+  L+ +  T  E+  KL         I  +I       LIND              
Sbjct: 22  NAALNYLSYQLRTRKEVEDKLRSLDIHEDYISEIINKLIDLDLINDKNYAESYVRTMMNT 81

Query: 274 XXXGPRRIKQALFKKGISQTDAKKAVNLVFRDGESDEDQESKLGMSKHSIDRLFVQASKQ 333
              GP+ IK  L KKGI    A+ A+ +++ D              K  +++    A K 
Sbjct: 82  SDKGPKVIKLNLSKKGIDDNIAEDAL-ILYTD--------------KLQVEKGVTLAEKL 126

Query: 334 WLRSQGAPKETRKSRIIHWLQYRGFNWCVTSFILKKLE 371
             R        ++++I   L  +GF++ +   I+++L+
Sbjct: 127 ANRYSHDSYRNKQNKIKQSLLTKGFSYDIIDTIIQELD 164


>pdb|2J66|A Chain A, Structural Characterisation Of Btrk Decarboxylase From
           Butirosin Biosynthesis
          Length = 428

 Score = 28.5 bits (62), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 13/68 (19%)

Query: 29  NNAISCVKGRDYSSSFPVRYVPKKSVKIKESENSVPVKGLERNELRKQPDASGLRTEVSN 88
           ++A S  +GR   S++P+ Y+P     ++E           R EL K   A  L T    
Sbjct: 305 HHAASTFRGRSMRSNYPMEYIP-----VREDSG--------RRELEKVTIAGPLCTPEDC 351

Query: 89  SGRDVKKP 96
            G+DV  P
Sbjct: 352 LGKDVHVP 359


  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
   0.315    0.130    0.365 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,186,136
Number of Sequences: 62578
Number of extensions: 323755
Number of successful extensions: 660
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 4
length of query: 376
length of database: 14,973,337
effective HSP length: 100
effective length of query: 276
effective length of database: 8,715,537
effective search space: 2405488212
effective search space used: 2405488212
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)