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= psy18081
         (82 letters)

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

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



>pdb|1Q8K|A Chain A, Solution Structure Of Alpha Subunit Of Human Eif2
          Length = 308

 Score = 73.9 bits (180), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 36/55 (65%), Positives = 41/55 (74%)

Query: 2   STEKMPIKINLIAPPLYVMTTVTPEKADGLKALQEAIDTIKAKIEQLGGVFQVQM 56
           STE MPIKINLIAPP YVMTT T E+ +GL  L +A+  IK KIE+  GVF VQM
Sbjct: 216 STENMPIKINLIAPPRYVMTTTTLERTEGLSVLSQAMAVIKEKIEEKRGVFNVQM 270


>pdb|1Q1L|A Chain A, Crystal Structure Of Chorismate Synthase
 pdb|1Q1L|B Chain B, Crystal Structure Of Chorismate Synthase
 pdb|1Q1L|C Chain C, Crystal Structure Of Chorismate Synthase
 pdb|1Q1L|D Chain D, Crystal Structure Of Chorismate Synthase
          Length = 401

 Score = 28.5 bits (62), Expect = 1.1,   Method: Composition-based stats.
 Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 3/30 (10%)

Query: 25  PEKADGLKALQEAIDTIKAKIEQLGGVFQV 54
           PEK +  K     ID +K K E LGGVF+V
Sbjct: 207 PEKDEEFKTY---IDEVKEKGESLGGVFEV 233


>pdb|1HF2|A Chain A, Crystal Structure Of The Bacterial Cell-Division
          Inhibitor Minc From T. Maritima
 pdb|1HF2|B Chain B, Crystal Structure Of The Bacterial Cell-Division
          Inhibitor Minc From T. Maritima
 pdb|1HF2|C Chain C, Crystal Structure Of The Bacterial Cell-Division
          Inhibitor Minc From T. Maritima
 pdb|1HF2|D Chain D, Crystal Structure Of The Bacterial Cell-Division
          Inhibitor Minc From T. Maritima
          Length = 210

 Score = 28.1 bits (61), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 12/37 (32%), Positives = 24/37 (64%)

Query: 34 LQEAIDTIKAKIEQLGGVFQVQMAVSILLMSMIQNSQ 70
          L+E ++ I A+I Q+GG F     +S+++ +  ++SQ
Sbjct: 21 LEEVLNAISARITQMGGFFAKGDRISLMIENHNKHSQ 57


>pdb|2D4E|A Chain A, Crystal Structure Of The Hpcc From Thermus Thermophilus
           Hb8
 pdb|2D4E|B Chain B, Crystal Structure Of The Hpcc From Thermus Thermophilus
           Hb8
 pdb|2D4E|C Chain C, Crystal Structure Of The Hpcc From Thermus Thermophilus
           Hb8
 pdb|2D4E|D Chain D, Crystal Structure Of The Hpcc From Thermus Thermophilus
           Hb8
          Length = 515

 Score = 26.6 bits (57), Expect = 4.1,   Method: Composition-based stats.
 Identities = 14/39 (35%), Positives = 21/39 (53%)

Query: 12  LIAPPLYVMTTVTPEKADGLKALQEAIDTIKAKIEQLGG 50
           L+A PL  + T+T E   G   ++ A D +K    +LGG
Sbjct: 236 LVAHPLVPLLTLTGETETGKIVMRNAADHLKRLSPELGG 274


>pdb|3HRD|A Chain A, Crystal Structure Of Nicotinate Dehydrogenase
 pdb|3HRD|E Chain E, Crystal Structure Of Nicotinate Dehydrogenase
          Length = 425

 Score = 25.8 bits (55), Expect = 5.6,   Method: Composition-based stats.
 Identities = 10/25 (40%), Positives = 18/25 (72%)

Query: 34  LQEAIDTIKAKIEQLGGVFQVQMAV 58
           +QEA+D I  + E+L G+F ++ A+
Sbjct: 113 VQEALDAITIEYEELEGIFTMERAL 137


>pdb|3QQ5|A Chain A, Crystal Structure Of The [fefe]-Hydrogenase Maturation
           Protein Hydf
          Length = 423

 Score = 25.4 bits (54), Expect = 7.4,   Method: Composition-based stats.
 Identities = 11/35 (31%), Positives = 20/35 (57%)

Query: 38  IDTIKAKIEQLGGVFQVQMAVSILLMSMIQNSQTD 72
           ID +  K E+L G+++ +    +LL+S +Q    D
Sbjct: 150 IDVLGEKAEELKGLYESRYEAKVLLVSALQKKGFD 184


  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
   0.318    0.131    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,833,055
Number of Sequences: 62578
Number of extensions: 45338
Number of successful extensions: 151
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 145
Number of HSP's gapped (non-prelim): 8
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)