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= psy899
         (411 letters)

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

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



>pdb|1HCI|A Chain A, Crystal Structure Of The Rod Domain Of Alpha-Actinin
 pdb|1HCI|B Chain B, Crystal Structure Of The Rod Domain Of Alpha-Actinin
          Length = 476

 Score = 28.9 bits (63), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 6/55 (10%)

Query: 276 ETFSAAHQYLKPELLNKIRTYISWIQNRGFDIPENLTEIVQK---DFVEMRKENK 327
           E     ++ L  ELL  IR  I W++NR    PE   + +QK   DF + R+++K
Sbjct: 10  ERLMEEYERLASELLEWIRRTIPWLENR---TPEKTMQAMQKKLEDFRDYRRKHK 61


>pdb|2J5B|A Chain A, Structure Of The Tyrosyl Trna Synthetase From Acanthamoeba
           Polyphaga Mimivirus Complexed With Tyrosynol
 pdb|2J5B|B Chain B, Structure Of The Tyrosyl Trna Synthetase From Acanthamoeba
           Polyphaga Mimivirus Complexed With Tyrosynol
          Length = 348

 Score = 28.5 bits (62), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 2/36 (5%)

Query: 313 EIVQKDFVEMRKENKKTD-ANDLHTLIVLARLEHLR 347
           E +Q+DF  M K   KTD AN ++T+I L R EH +
Sbjct: 295 ESIQEDFSSMNKRELKTDVANYINTIIDLVR-EHFK 329


>pdb|1VL2|A Chain A, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
           From Thermotoga Maritima At 1.65 A Resolution
 pdb|1VL2|B Chain B, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
           From Thermotoga Maritima At 1.65 A Resolution
 pdb|1VL2|C Chain C, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
           From Thermotoga Maritima At 1.65 A Resolution
 pdb|1VL2|D Chain D, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
           From Thermotoga Maritima At 1.65 A Resolution
          Length = 421

 Score = 28.1 bits (61), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 8/59 (13%)

Query: 297 ISWIQNRGFDIPENLTEIVQK-DFVEMRKENKKTDANDLHTLIVLARLEHLRLRPATHY 354
           + W+  +GFD+   +  + QK DFV ++++  KT A+ ++       +E LR    T Y
Sbjct: 31  LKWLCEKGFDVIAYVANVGQKDDFVAIKEKALKTGASKVY-------VEDLRREFVTDY 82


>pdb|1SJJ|A Chain A, Cryo-Em Structure Of Chicken Gizzard Smooth Muscle Alpha-
           Actinin
 pdb|1SJJ|B Chain B, Cryo-Em Structure Of Chicken Gizzard Smooth Muscle Alpha-
           Actinin
          Length = 863

 Score = 28.1 bits (61), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 6/49 (12%)

Query: 282 HQYLKPELLNKIRTYISWIQNRGFDIPENLTEIVQK---DFVEMRKENK 327
           ++ L  +LL  IR  I W++NR    PEN  + +Q+   DF + R+ +K
Sbjct: 255 YEKLASDLLEWIRRTIPWLENRA---PENTMQAMQQKLEDFRDYRRLHK 300


  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
   0.320    0.135    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,841,455
Number of Sequences: 62578
Number of extensions: 467394
Number of successful extensions: 946
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 946
Number of HSP's gapped (non-prelim): 4
length of query: 411
length of database: 14,973,337
effective HSP length: 101
effective length of query: 310
effective length of database: 8,652,959
effective search space: 2682417290
effective search space used: 2682417290
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)