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= psy2923
         (141 letters)

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

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



>pdb|1E4E|A Chain A, D-Alanyl-D-Lacate Ligase
          Length = 343

 Score = 27.7 bits (60), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 4/48 (8%)

Query: 36  AFLAGKEKLRVQEVGPYVYR----EGMAHVNVSMNDNGTVTATPIHPL 79
           A L+ +E+ R+QE    +Y+     G+A V++ + DNG +    ++ L
Sbjct: 262 ADLSAEERGRIQETVKKIYKTLGCRGLARVDMFLQDNGRIVLNEVNTL 309


>pdb|3IZ3|B Chain B, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
 pdb|3IZ3|C Chain C, Cryoem Structure Of Cytoplasmic Polyhedrosis Virus
 pdb|3J17|B Chain B, Structure Of A Transcribing Cypovirus By Cryo-Electron
           Microscopy
 pdb|3J17|C Chain C, Structure Of A Transcribing Cypovirus By Cryo-Electron
           Microscopy
          Length = 1333

 Score = 26.9 bits (58), Expect = 4.2,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 30/66 (45%), Gaps = 7/66 (10%)

Query: 25  KVYLFNVTNREAFLAGKEKLRVQE-----VGPYV--YREGMAHVNVSMNDNGTVTATPIH 77
           K YL      E     K+KLR  E     VGP V  ++ G A VN+ +N +   TAT I 
Sbjct: 161 KGYLTYSVKYEDQFTKKDKLRASEADDRIVGPTVNLFKYGAAVVNIDLNRDFFDTATGID 220

Query: 78  PLTWVP 83
               +P
Sbjct: 221 LTKGIP 226


>pdb|3CNF|A Chain A, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus
           By Cryo-Electron Microscopy
 pdb|3CNF|B Chain B, 3.88 Angstrom Structure Of Cytoplasmic Polyhedrosis Virus
           By Cryo-Electron Microscopy
 pdb|3IZX|B Chain B, 3.1 Angstrom Cryoem Structure Of Cytoplasmic Polyhedrosis
           Virus
 pdb|3IZX|C Chain C, 3.1 Angstrom Cryoem Structure Of Cytoplasmic Polyhedrosis
           Virus
          Length = 1333

 Score = 26.6 bits (57), Expect = 4.4,   Method: Composition-based stats.
 Identities = 23/66 (34%), Positives = 30/66 (45%), Gaps = 7/66 (10%)

Query: 25  KVYLFNVTNREAFLAGKEKLRVQE-----VGPYV--YREGMAHVNVSMNDNGTVTATPIH 77
           K YL      E     K+KLR  E     VGP V  ++ G A VN+ +N +   TAT I 
Sbjct: 161 KGYLTYSVKYEDQFTKKDKLRASEADDRIVGPTVNLFKYGAAVVNIDLNRDFFDTATGID 220

Query: 78  PLTWVP 83
               +P
Sbjct: 221 LTKGIP 226


>pdb|2PYX|A Chain A, Crystal Structure Of Tryptophan Halogenase (Yp_750003.1)
           From Shewanella Frigidimarina Ncimb 400 At 1.50 A
           Resolution
 pdb|2PYX|B Chain B, Crystal Structure Of Tryptophan Halogenase (Yp_750003.1)
           From Shewanella Frigidimarina Ncimb 400 At 1.50 A
           Resolution
          Length = 526

 Score = 25.8 bits (55), Expect = 9.5,   Method: Composition-based stats.
 Identities = 16/69 (23%), Positives = 34/69 (49%), Gaps = 7/69 (10%)

Query: 54  YREGMAHVNVSMNDNGTVTATPIHPLTWVPELSNGKEDDILI---LPNIALLSFANVMAK 110
           +++G   +N   +    V  + +HP +    L +G ++  L    LP+   +SFA  +  
Sbjct: 88  FKQGSRFINWCKDPQSNVADSYLHPFS----LPHGHQELDLCPYWLPHAEQVSFAEAVCS 143

Query: 111 ASLLTRMGV 119
             +LT++G+
Sbjct: 144 QQVLTQLGL 152


  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
   0.316    0.132    0.376 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,910,643
Number of Sequences: 62578
Number of extensions: 144052
Number of successful extensions: 289
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 289
Number of HSP's gapped (non-prelim): 9
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
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: 46 (22.3 bits)