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= psy3446
         (166 letters)

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

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



>pdb|4DQV|A Chain A, Crystal Structure Of Reductase (R) Domain Of Non-Ribosomal
           Peptide Synthetase From Mycobacterium Tuberculosis
          Length = 478

 Score = 29.3 bits (64), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 6/84 (7%)

Query: 11  HFLE----KISAVAGDVSLPGLGLSETDRELLRTNVNVIFHGAATVRFDEKIQLAVAINV 66
           HF E    ++  VAGD S P LGL +     L   V++I   AA V      +L    NV
Sbjct: 133 HFKELAADRLEVVAGDKSEPDLGLDQPXWRRLAETVDLIVDSAAXVNAFPYHEL-FGPNV 191

Query: 67  LGVRAMLELAREIRQLKLFLRLKT 90
            G   ++ +A   + LK F  + T
Sbjct: 192 AGTAELIRIALTTK-LKPFTYVST 214



 Score = 27.7 bits (60), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 32/70 (45%), Gaps = 5/70 (7%)

Query: 94  HFLE----KISAVAGDVSLPGLGLSETDRELLRTNVNVIFHGAATVRFDEKIQLAVAINV 149
           HF E    ++  VAGD S P LGL +     L   V++I   AA V      +L    NV
Sbjct: 133 HFKELAADRLEVVAGDKSEPDLGLDQPXWRRLAETVDLIVDSAAXVNAFPYHEL-FGPNV 191

Query: 150 LGVRAMLELA 159
            G   ++ +A
Sbjct: 192 AGTAELIRIA 201


>pdb|1Z85|A Chain A, Crystal Structure Of A Predicted Rna Methyltransferase
           (Tm1380) From Thermotoga Maritima Msb8 At 2.12 A
           Resolution
 pdb|1Z85|B Chain B, Crystal Structure Of A Predicted Rna Methyltransferase
           (Tm1380) From Thermotoga Maritima Msb8 At 2.12 A
           Resolution
          Length = 234

 Score = 28.9 bits (63), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 21/38 (55%)

Query: 26  PGLGLSETDRELLRTNVNVIFHGAATVRFDEKIQLAVA 63
           P  G SE +RELLR++  ++  G   +RF+    L V 
Sbjct: 188 PEGGFSEKERELLRSSTTIVSLGKKILRFETAAILTVG 225



 Score = 28.9 bits (63), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 21/38 (55%)

Query: 109 PGLGLSETDRELLRTNVNVIFHGAATVRFDEKIQLAVA 146
           P  G SE +RELLR++  ++  G   +RF+    L V 
Sbjct: 188 PEGGFSEKERELLRSSTTIVSLGKKILRFETAAILTVG 225


>pdb|2FR0|A Chain A, The First Ketoreductase Of The Erythromycin Synthase
           (Crystal Form 1)
 pdb|2FR1|A Chain A, The First Ketoreductase Of The Erythromycin Synthase
           (Crystal Form 2)
          Length = 486

 Score = 28.1 bits (61), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 16/63 (25%)

Query: 33  TDRELLR---------TNVNVIFHGAATVR-------FDEKIQLAVAINVLGVRAMLELA 76
           TDRE +R           ++ +FH AAT+          E+I+ A    VLG R + EL 
Sbjct: 289 TDRESVRELLGGIGDDVPLSAVFHAAATLDDGTVDTLTGERIERASRAKVLGARNLHELT 348

Query: 77  REI 79
           RE+
Sbjct: 349 REL 351



 Score = 28.1 bits (61), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 16/63 (25%)

Query: 116 TDRELLR---------TNVNVIFHGAATVR-------FDEKIQLAVAINVLGVRAMLELA 159
           TDRE +R           ++ +FH AAT+          E+I+ A    VLG R + EL 
Sbjct: 289 TDRESVRELLGGIGDDVPLSAVFHAAATLDDGTVDTLTGERIERASRAKVLGARNLHELT 348

Query: 160 REI 162
           RE+
Sbjct: 349 REL 351


>pdb|3RVY|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.7 A)
 pdb|3RVY|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.7 A)
 pdb|3RVZ|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.8 A)
 pdb|3RVZ|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.8 A)
          Length = 285

 Score = 26.9 bits (58), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 18/52 (34%), Positives = 30/52 (57%), Gaps = 3/52 (5%)

Query: 60  LAVAINVLGVRAMLELAREIRQLKLFLRLKTEVPHFLEKISAVAGDVSLPGL 111
             VAI+++   +  E+ R +R L+LF RL T VP   + +SA+     +PG+
Sbjct: 100 FVVAISLVPTSSGFEILRVLRVLRLF-RLVTAVPQMRKIVSALIS--VIPGM 148


  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    0.140    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,935,374
Number of Sequences: 62578
Number of extensions: 132012
Number of successful extensions: 435
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 430
Number of HSP's gapped (non-prelim): 10
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 47 (22.7 bits)