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= psy6791
         (293 letters)

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

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



>pdb|1V60|A Chain A, Solution Structure Of Bola1 Protein From Mus Musculus
          Length = 123

 Score = 37.0 bits (84), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 6/52 (11%)

Query: 114 KLHIVSRLFQNKTKDERHAMVHEALRDEMLKREAGC--AIDIHADTPEEWND 163
           ++ +VS  F+  +  +RH +VHEAL +E+    AG   A+ I A TP +W +
Sbjct: 64  RVAVVSSRFEGMSPLQRHRLVHEALSEEL----AGPVHALAIQAKTPAQWRE 111


>pdb|3VG8|G Chain G, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|H Chain H, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|I Chain I, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|J Chain J, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|A Chain A, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|B Chain B, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|C Chain C, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|D Chain D, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|E Chain E, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
 pdb|3VG8|F Chain F, Crystal Structure Of Hypothetical Protein Tthb210 From
           Thermus Thermophilus Hb8
          Length = 116

 Score = 30.8 bits (68), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 1/67 (1%)

Query: 44  LTTLFKDQSTLPDGDLVPYIPTLEELRYVLKKPIMRKLKAVNFTIEMNYEQIRFVEKYYM 103
           L TL+ D STLP+G  + Y      ++ V   P ++KL   +  +++  + +R +    +
Sbjct: 18  LGTLYVDPSTLPEGPFLAYDRAGNLVKVVFXVP-LKKLNESHKYVDIGTKTLRALGITRI 76

Query: 104 DHVDYWP 110
           DHV+  P
Sbjct: 77  DHVNXIP 83


>pdb|2DHM|A Chain A, Solution Structure Of The Bola Protein From Escherichia
           Coli
          Length = 107

 Score = 29.3 bits (64), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 22/94 (23%), Positives = 45/94 (47%), Gaps = 9/94 (9%)

Query: 196 LRDKIYNYIAKHFSPTVLHVVDSKKMHPIDNDNPA-FDVLIVSNHFNNLTITQRTMLMHD 254
           +R++I   +   F P  L VVD    H +   + + F V++VS+ F       R  +++ 
Sbjct: 10  IRERIEEKLRAAFQPVFLEVVDESYRHNVPAGSESHFKVVLVSDRFTGERFLNRHRMIYS 69

Query: 255 YLRDFINEGVQFRLHRTMLMHDY-LRDFINEGVQ 287
            L + ++  V       + +H Y ++++  EG+Q
Sbjct: 70  TLAEELSTTVH-----ALALHTYTIKEW--EGLQ 96


>pdb|3PCO|A Chain A, Crystal Structure Of E. Coli Phenylalanine-Trna Synthetase
           Complexed With Phenylalanine And Amp
 pdb|3PCO|C Chain C, Crystal Structure Of E. Coli Phenylalanine-Trna Synthetase
           Complexed With Phenylalanine And Amp
          Length = 327

 Score = 27.3 bits (59), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 15/92 (16%)

Query: 180 RLRAAKTTPVSVKDVKLRDKIYNYIAKHFSPTVLHVVDSKKMHPIDNDNPAF---DVLIV 236
           RL   +T+ V ++ +K +      IA    P  ++  D  + H      P F   + LIV
Sbjct: 164 RLLRTQTSGVQIRTMKAQQPPIRIIA----PGRVYRNDYDQTH-----TPMFHQMEGLIV 214

Query: 237 SNHFNNLTITQRTMLMHDYLRDFINEGVQFRL 268
                N++ T     +HD+LR+F  E +Q R 
Sbjct: 215 DT---NISFTNLKGTLHDFLRNFFEEDLQIRF 243


  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
   0.323    0.139    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,371,154
Number of Sequences: 62578
Number of extensions: 396400
Number of successful extensions: 798
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 790
Number of HSP's gapped (non-prelim): 12
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)