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= psy15835
         (116 letters)

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

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



>pdb|2FTC|K Chain K, Structural Model For The Large Subunit Of The Mammalian
          Mitochondrial Ribosome
          Length = 98

 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/56 (50%), Positives = 37/56 (66%)

Query: 35 IPSFFVGSILSVTSADKHDPNKTRKFVGICIQKRYCGLRHEFVLRNVVDNLGAVPC 90
          IP F+VGSIL VT+AD +   K  +F+GICIQ+   GL   F+LRNV++  G   C
Sbjct: 1  IPEFYVGSILRVTTADPYASGKISQFLGICIQRSGRGLGATFILRNVIEGQGVEIC 56


>pdb|3POY|A Chain A, Crystal Structure Of The Alpha-Neurexin-1 Ectodomain, Lns
           2-6
          Length = 1019

 Score = 28.9 bits (63), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 18/93 (19%)

Query: 11  LKFRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTRKFVGICIQK--R 68
           L+F N     +E   + +RR +  +PS F+G + S+T            ++ +C      
Sbjct: 559 LEFHN-----IETGIITERRYLSSVPSNFIGHLQSLTF-------NGMAYIDLCKNGDID 606

Query: 69  YCGLRHEFVLRNVVDNLGAVPCTGDRHGPYLSL 101
           YC L   F  RN++    A P T      Y++L
Sbjct: 607 YCELNARFGFRNII----ADPVTFKTKSSYVAL 635


>pdb|3QCW|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
           Splice Inserts
 pdb|3QCW|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), No
           Splice Inserts
          Length = 1245

 Score = 28.5 bits (62), Expect = 0.93,   Method: Compositional matrix adjust.
 Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 18/93 (19%)

Query: 11  LKFRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTRKFVGICIQK--R 68
           L+F N     +E   + +RR +  +PS F+G + S+T            ++ +C      
Sbjct: 775 LEFHN-----IETGIITERRYLSSVPSNFIGHLQSLTF-------NGMAYIDLCKNGDID 822

Query: 69  YCGLRHEFVLRNVVDNLGAVPCTGDRHGPYLSL 101
           YC L   F  RN++    A P T      Y++L
Sbjct: 823 YCELNARFGFRNII----ADPVTFKTKSSYVAL 851


>pdb|3R05|A Chain A, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
           Splice Insert Ss3
 pdb|3R05|B Chain B, Structure Of Neurexin 1 Alpha (Domains Lns1-Lns6), With
           Splice Insert Ss3
          Length = 1254

 Score = 28.5 bits (62), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 24/93 (25%), Positives = 40/93 (43%), Gaps = 18/93 (19%)

Query: 11  LKFRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTRKFVGICIQK--R 68
           L+F N     +E   + +RR +  +PS F+G + S+T            ++ +C      
Sbjct: 784 LEFHN-----IETGIITERRYLSSVPSNFIGHLQSLTF-------NGMAYIDLCKNGDID 831

Query: 69  YCGLRHEFVLRNVVDNLGAVPCTGDRHGPYLSL 101
           YC L   F  RN++    A P T      Y++L
Sbjct: 832 YCELNARFGFRNII----ADPVTFKTKSSYVAL 860


>pdb|3FEF|A Chain A, Crystal Structure Of Putative Glucosidase Lpld From
           Bacillus Subtilis
 pdb|3FEF|B Chain B, Crystal Structure Of Putative Glucosidase Lpld From
           Bacillus Subtilis
 pdb|3FEF|C Chain C, Crystal Structure Of Putative Glucosidase Lpld From
           Bacillus Subtilis
 pdb|3FEF|D Chain D, Crystal Structure Of Putative Glucosidase Lpld From
           Bacillus Subtilis
          Length = 450

 Score = 26.6 bits (57), Expect = 3.4,   Method: Composition-based stats.
 Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 6/26 (23%)

Query: 80  NVVDNLGAVPCTGDRH------GPYL 99
           ++ +  GA+P  GDRH      GPYL
Sbjct: 257 DLFETYGAIPAAGDRHLAEFLPGPYL 282


>pdb|2FRE|A Chain A, The Crystal Structure Of The Oxidoreductase Containing Fmn
 pdb|2FRE|B Chain B, The Crystal Structure Of The Oxidoreductase Containing Fmn
          Length = 200

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 15/59 (25%), Positives = 29/59 (49%)

Query: 13  FRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTRKFVGICIQKRYCG 71
           F++++ EKL+  D  K  + + I +    SIL    A++  P+K      +  + R+ G
Sbjct: 139 FKDRIVEKLDIPDGFKVEAGVAIGTLTDKSILPDDLAEREVPSKRVPLADVAFEGRFTG 197


>pdb|1TDH|A Chain A, Crystal Structure Of Human Endonuclease Viii-Like 1
           (Neil1)
          Length = 364

 Score = 26.2 bits (56), Expect = 5.5,   Method: Composition-based stats.
 Identities = 9/26 (34%), Positives = 16/26 (61%)

Query: 3   QEFLPDPELKFRNQVREKLERSDMIK 28
           Q+  P PEL    ++R KL+  D+++
Sbjct: 202 QQHRPSPELTLSQKIRTKLQNPDLLE 227


  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    0.143    0.430 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,407,958
Number of Sequences: 62578
Number of extensions: 120062
Number of successful extensions: 175
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 8
length of query: 116
length of database: 14,973,337
effective HSP length: 79
effective length of query: 37
effective length of database: 10,029,675
effective search space: 371097975
effective search space used: 371097975
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)