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= psy11113
         (699 letters)

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

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



>pdb|1OMX|A Chain A, Crystal Structure Of Mouse Alpha-1,4-N-
           Acetylhexosaminyltransferase (Extl2)
 pdb|1OMX|B Chain B, Crystal Structure Of Mouse Alpha-1,4-N-
           Acetylhexosaminyltransferase (Extl2)
 pdb|1OMZ|A Chain A, Crystal Structure Of Mouse Alpha-1,4-N-
           Acetylhexosaminyltransferase (Extl2) In Complex With
           Udpgalnac
 pdb|1OMZ|B Chain B, Crystal Structure Of Mouse Alpha-1,4-N-
           Acetylhexosaminyltransferase (Extl2) In Complex With
           Udpgalnac
 pdb|1ON6|A Chain A, Crystal Structure Of Mouse Alpha-1,4-N-
           Acetylhexosaminotransferase (Extl2) In Complex With
           Udpglcnac
 pdb|1ON6|B Chain B, Crystal Structure Of Mouse Alpha-1,4-N-
           Acetylhexosaminotransferase (Extl2) In Complex With
           Udpglcnac
 pdb|1ON8|A Chain A, Crystal Structure Of Mouse
           Alpha-1,4-N-Acetylhexosaminyltransferase (Extl2) With
           Udp And Glcuab(1-3)galb(1-O)-Naphthalenelmethanol An
           Acceptor Substrate Analog
 pdb|1ON8|B Chain B, Crystal Structure Of Mouse
           Alpha-1,4-N-Acetylhexosaminyltransferase (Extl2) With
           Udp And Glcuab(1-3)galb(1-O)-Naphthalenelmethanol An
           Acceptor Substrate Analog
          Length = 293

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 43/125 (34%), Positives = 71/125 (56%), Gaps = 3/125 (2%)

Query: 546 SNKQREQFTIIILTYERDQVLINSLSRLNNLPYLNKVVVVWNSVQPPREDLRWPDIG--- 602
           S    + FT+I+ TY R  +L+  L+    +P L+KV+VVWN+V     +  W  +G   
Sbjct: 23  SKSALDSFTLIMQTYNRTDLLLRLLNHYQAVPSLHKVIVVWNNVGEKGPEELWNSLGPHP 82

Query: 603 VPVVVVRTNTNDLNNRFKPYDVIETEAVLNMDDDVYLRHDEIMFAFRVWREQRDRIVGFP 662
           +PV+      N + NR + +  +ET AVL +DDD  +   +++FAF +W++  D+I+GF 
Sbjct: 83  IPVIFKPQTANKMRNRLQVFPEVETNAVLMVDDDTLISAQDLVFAFSIWQQFPDQIIGFV 142

Query: 663 GRYHA 667
            R H 
Sbjct: 143 PRKHV 147


>pdb|2JVR|A Chain A, Segmental Isotope Labeling Of Npl3p
          Length = 111

 Score = 28.9 bits (63), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 11/35 (31%), Positives = 20/35 (57%)

Query: 558 LTYERDQVLINSLSRLNNLPYLNKVVVVWNSVQPP 592
           L +  +++L+ +L RLNN+ +   V+ V     PP
Sbjct: 72  LEFPSEEILVEALERLNNIEFRGSVITVERDDNPP 106


  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    0.137    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,714,966
Number of Sequences: 62578
Number of extensions: 868858
Number of successful extensions: 1752
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1748
Number of HSP's gapped (non-prelim): 4
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
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: 55 (25.8 bits)