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= 042404
         (311 letters)

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

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



>pdb|3UOM|A Chain A, Ca2+ Complex Of Human Skeletal Calsequestrin
 pdb|3UOM|B Chain B, Ca2+ Complex Of Human Skeletal Calsequestrin
 pdb|3UOM|C Chain C, Ca2+ Complex Of Human Skeletal Calsequestrin
 pdb|3UOM|D Chain D, Ca2+ Complex Of Human Skeletal Calsequestrin
 pdb|3UOM|E Chain E, Ca2+ Complex Of Human Skeletal Calsequestrin
 pdb|3UOM|F Chain F, Ca2+ Complex Of Human Skeletal Calsequestrin
          Length = 362

 Score = 28.9 bits (63), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 29/104 (27%), Positives = 40/104 (38%), Gaps = 22/104 (21%)

Query: 175 TYNHLKVIELYQVSFEDMKEILVVIRLITNSPN----LKELHISGSSNTLAAIEAPDLD- 229
           T   LK   +Y+   +DM  I +V       P+    L+ L      NT    E PDL  
Sbjct: 229 TLRKLKPESMYETWEDDMDGIHIVAFAEEADPDGFEFLETLKAVAQDNT----ENPDLSI 284

Query: 230 -------------FWEKECHADCSFKQLKLVKMTDISGVPHEME 260
                        +WEK    D S  Q+ +V +TD   V  EM+
Sbjct: 285 IWIDPDDFPLLVPYWEKTFDIDLSAPQIGVVNVTDADSVWMEMD 328


>pdb|2VJ3|A Chain A, Human Notch-1 Egfs 11-13
          Length = 135

 Score = 28.5 bits (62), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 4/45 (8%)

Query: 21  CLFNCRKLTRLELFRCEFDPPLTFTGFPCLRSLNLHQVLVAPEAI 65
           CL N R L ++  F+CE   P  FTG  C   ++LH +L A + +
Sbjct: 91  CLHNGRCLDKINEFQCEC--PTGFTGHLC--QVDLHHILDAQKMV 131


  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    0.141    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,353,970
Number of Sequences: 62578
Number of extensions: 311803
Number of successful extensions: 541
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 541
Number of HSP's gapped (non-prelim): 2
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
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: 51 (24.3 bits)