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= psy1559
         (138 letters)

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

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



>pdb|1HCN|B Chain B, Structure Of Human Chorionic Gonadotropin At 2.6 Angstroms
           Resolution From Mad Analysis Of The Selenomethionyl
           Protein
 pdb|1HRP|B Chain B, Crystal Structure Of Human Chorionic Gonadotropin
 pdb|1QFW|B Chain B, Ternary Complex Of Human Chorionic Gonadotropin With Fv
           Anti Alpha Subunit And Fv Anti Beta Subunit
          Length = 145

 Score = 28.9 bits (63), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 3/52 (5%)

Query: 77  VCQHGARALKVVILNNCEENVEQGTEVYRYLEALSCKCSVCKSSEASCEGLR 128
           VC +     + + L  C   V     V  Y  ALSC+C++C+ S   C G +
Sbjct: 56  VCNYRDVRFESIRLPGCPRGVN---PVVSYAVALSCQCALCRRSTTDCGGPK 104


>pdb|3BMA|A Chain A, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
           From Streptococcus Pneumoniae R6
 pdb|3BMA|B Chain B, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
           From Streptococcus Pneumoniae R6
 pdb|3BMA|C Chain C, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
           From Streptococcus Pneumoniae R6
 pdb|3BMA|D Chain D, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
           From Streptococcus Pneumoniae R6
 pdb|3BMA|E Chain E, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
           From Streptococcus Pneumoniae R6
 pdb|3BMA|F Chain F, Crystal Structure Of D-Alanyl-Lipoteichoic Acid Synthetase
           From Streptococcus Pneumoniae R6
          Length = 407

 Score = 27.7 bits (60), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 3/63 (4%)

Query: 79  QHGARALKVVILNNCEENV---EQGTEVYRYLEALSCKCSVCKSSEASCEGLRYSSYNSL 135
           Q   +A++ V+  + E+N    E G E Y Y E +       K S+ S   L+   YN L
Sbjct: 219 QFSYQAIEDVVKADAEKNTSNNEMGMENYFYNEQIKKDLKKLKDSQKSFTYLKSPEYNDL 278

Query: 136 NMI 138
            ++
Sbjct: 279 QLV 281


>pdb|3N5F|A Chain A, Crystal Structure Of L-N-Carbamoylase From Geobacillus
           Stearothermophilus Cect43
 pdb|3N5F|B Chain B, Crystal Structure Of L-N-Carbamoylase From Geobacillus
           Stearothermophilus Cect43
          Length = 408

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 22/39 (56%)

Query: 94  EENVEQGTEVYRYLEALSCKCSVCKSSEASCEGLRYSSY 132
           E NV   TE  + +  + C   V +++EA+C+ L Y S+
Sbjct: 310 ERNVRVTTERLQEMPPVLCSDEVKRAAEAACQKLGYPSF 348


  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
   0.322    0.133    0.436 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,952,680
Number of Sequences: 62578
Number of extensions: 141577
Number of successful extensions: 252
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 250
Number of HSP's gapped (non-prelim): 4
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)