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= 016211
         (393 letters)

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

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



>pdb|2OLN|A Chain A, Nikd, An Unusual Amino Acid Oxidase Essential For
           Nikkomycin Biosynthesis: Closed Form At 1.15 A
           Resolution
 pdb|2OLO|A Chain A, Nikd, An Unusual Amino Acid Oxidase Essential For
           Nikkomycin Biosynthesis: Open Form At 1.9a Resolution
          Length = 397

 Score = 32.3 bits (72), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 26/98 (26%), Positives = 38/98 (38%), Gaps = 5/98 (5%)

Query: 176 GCEFLDGRRVTDFIYDEERCCISDVVCGKETYSAGAVVLAVGIST--LQELIKNSILCNR 233
           G     G  VT+ + D +   ++     + TY AG VVLA G  T  L E +   +  + 
Sbjct: 167 GATLRAGETVTELVPDADGVSVT---TDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSV 223

Query: 234 EEFLKVLNLASIDVVSVKLWFDKKVTVPNVSNACSGFG 271
            E        +  V     WF  +   P  +N   GFG
Sbjct: 224 YEMAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFYGFG 261


>pdb|3HZL|A Chain A, Tyr258phe Mutant Of Nikd, An Unusual Amino Acid Oxidase
           Essential For Nikkomycin Biosynthesis: Open Form At
           1.55a Resolution
          Length = 397

 Score = 31.6 bits (70), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 26/98 (26%), Positives = 38/98 (38%), Gaps = 5/98 (5%)

Query: 176 GCEFLDGRRVTDFIYDEERCCISDVVCGKETYSAGAVVLAVGIST--LQELIKNSILCNR 233
           G     G  VT+ + D +   ++     + TY AG VVLA G  T  L E +   +  + 
Sbjct: 167 GATLRAGETVTELVPDADGVSVT---TDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSV 223

Query: 234 EEFLKVLNLASIDVVSVKLWFDKKVTVPNVSNACSGFG 271
            E        +  V     WF  +   P  +N   GFG
Sbjct: 224 YEMAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFFGFG 261


>pdb|2Q6U|A Chain A, Semet-Substituted Form Of Nikd
          Length = 384

 Score = 31.6 bits (70), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 26/98 (26%), Positives = 38/98 (38%), Gaps = 5/98 (5%)

Query: 176 GCEFLDGRRVTDFIYDEERCCISDVVCGKETYSAGAVVLAVGIST--LQELIKNSILCNR 233
           G     G  VT+ + D +   ++     + TY AG VVLA G  T  L E +   +  + 
Sbjct: 166 GATLRAGETVTELVPDADGVSVT---TDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSV 222

Query: 234 EEFLKVLNLASIDVVSVKLWFDKKVTVPNVSNACSGFG 271
            E        +  V     WF  +   P  +N   GFG
Sbjct: 223 YEXAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFYGFG 260


>pdb|4EQF|A Chain A, Trip8b-1a#206-567 Interacting With The Carboxy-Terminal
           Seven Residues Of Hcn2
          Length = 365

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 14/97 (14%)

Query: 271 GDSLAWTFFDLNKIYDEHKDDSATVIQADFYHANELMPLKDDQVVAKAVSYLSKCIKDFS 330
           GD+ AW F  + +  +E++  +   +Q       EL P     ++A AVSY +   +   
Sbjct: 97  GDAEAWQFLGITQAENENEQAAIVALQRCL----ELQPNNLKALMALAVSYTNTSHQQ-D 151

Query: 331 TATVMDHKIRRFPKSLTHFFPGSYKYMMRGFTSFPNL 367
               + + I++ PK         YKY+++     P L
Sbjct: 152 ACEALKNWIKQNPK---------YKYLVKNKKGSPGL 179


>pdb|2VL7|A Chain A, Structure Of S. Tokodaii Xpd4
          Length = 540

 Score = 29.3 bits (64), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 8/100 (8%)

Query: 222 QELIKNSILCNREEFLKVLN-LASID----VVSVKLWFDKKVTVPNVSNACSGFGDSLAW 276
           Q+ I+NS+ CN+++ LK+ + L  ID    ++    WF +K++   +  A          
Sbjct: 157 QKPIRNSVFCNKDDCLKLEDYLIVIDEAHNLLEADKWFTRKISRKMLERALKEIEIVERL 216

Query: 277 TFFDLNKIYDEHK---DDSATVIQADFYHANELMPLKDDQ 313
              D  K+ D      D  + +I+    H   LMPL D +
Sbjct: 217 NRIDAKKVKDYINLLIDYMSKLIKDGRCHELSLMPLPDRE 256


  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
   0.325    0.139    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,833,790
Number of Sequences: 62578
Number of extensions: 485984
Number of successful extensions: 1262
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1262
Number of HSP's gapped (non-prelim): 5
length of query: 393
length of database: 14,973,337
effective HSP length: 101
effective length of query: 292
effective length of database: 8,652,959
effective search space: 2526664028
effective search space used: 2526664028
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)