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= 047480
         (719 letters)

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

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



>pdb|1NP3|A Chain A, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
 pdb|1NP3|B Chain B, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
 pdb|1NP3|C Chain C, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
 pdb|1NP3|D Chain D, Crystal Structure Of Class I Acetohydroxy Acid
           Isomeroreductase From Pseudomonas Aeruginosa
          Length = 338

 Score = 41.6 bits (96), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 34/128 (26%), Positives = 57/128 (44%), Gaps = 17/128 (13%)

Query: 391 YAKCGSIDTALSVFYKIPKNLKTVSLFNSIISGLAQHGLGETSIAVFREMELMGLKPDGV 450
           + K G I   ++++     N K V+L  +   G  + G+ ET+     E +L G +    
Sbjct: 140 FVKGGGIPDLIAIYQDASGNAKNVALSYACGVGGGRTGIIETTFKDETETDLFGEQ---- 195

Query: 451 TFVTVLCACSHGGLVEEGKQFFESMLNYGIKPQMEHYGCM------VDLLARDGRLDEAY 504
               VLC    GG VE  K  FE+++  G  P+M ++ C+      VDL+   G  +  Y
Sbjct: 196 ---AVLC----GGCVELVKAGFETLVEAGYAPEMAYFECLHELKLIVDLMYEGGIANMNY 248

Query: 505 GLIQSMPY 512
            +  +  Y
Sbjct: 249 SISNNAEY 256


>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 32.3 bits (72), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 30/135 (22%), Positives = 52/135 (38%), Gaps = 13/135 (9%)

Query: 388 IDMYAKCGSIDTALSVFYKIPKN------------LKTVSLFNSIISGLAQHGLGETSIA 435
           +DM +K G +  AL ++ +  +N            L   SL  +        GL      
Sbjct: 33  LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSR-GFD 91

Query: 436 VFREMELMGLKPDGVTFVTVLCACSHGGLVEEGKQFFESMLNYGIKPQMEHYGCMVDLLA 495
           +F++M +  + P+  TF             E      + M  +GI+P++  YG  +    
Sbjct: 92  IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151

Query: 496 RDGRLDEAYGLIQSM 510
           R G  D+AY +   M
Sbjct: 152 RKGDADKAYEVDAHM 166


>pdb|4EA3|A Chain A, Structure Of The NOFQ OPIOID RECEPTOR IN COMPLEX WITH A
           PEPTIDE Mimetic
 pdb|4EA3|B Chain B, Structure Of The NOFQ OPIOID RECEPTOR IN COMPLEX WITH A
           PEPTIDE Mimetic
          Length = 434

 Score = 29.6 bits (65), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 19/35 (54%)

Query: 325 GFSQALELFGKMESLGIHPDEVTMVAVLRACVGLG 359
           G    +++F   + LG+ P   T VA+LR C  LG
Sbjct: 348 GCWTPVQVFVLAQGLGVQPSSETAVAILRFCTALG 382


  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
   0.324    0.137    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,850,676
Number of Sequences: 62578
Number of extensions: 790826
Number of successful extensions: 2466
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2465
Number of HSP's gapped (non-prelim): 4
length of query: 719
length of database: 14,973,337
effective HSP length: 106
effective length of query: 613
effective length of database: 8,340,069
effective search space: 5112462297
effective search space used: 5112462297
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: 55 (25.8 bits)