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= 031148
         (165 letters)

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

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



>pdb|2JD4|A Chain A, Mouse Laminin Alpha1 Chain, Domains Lg4-5
 pdb|2JD4|B Chain B, Mouse Laminin Alpha1 Chain, Domains Lg4-5
          Length = 383

 Score = 28.5 bits (62), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 17/36 (47%), Positives = 23/36 (63%), Gaps = 1/36 (2%)

Query: 24  KTAAVNGVLLGRVSPQNDAV-VEIADSVPLFHSHLG 58
           +T + NGVLLG  S + DA+ +EI D   LFH + G
Sbjct: 229 RTTSKNGVLLGISSAKVDAIGLEIVDGKVLFHVNNG 264


>pdb|2YHM|A Chain A, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|B Chain B, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|C Chain C, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|D Chain D, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|E Chain E, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|F Chain F, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|G Chain G, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|H Chain H, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|I Chain I, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHM|J Chain J, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P212121 Crystal Form
 pdb|2YHP|A Chain A, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|B Chain B, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|C Chain C, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|D Chain D, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|E Chain E, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|F Chain F, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|G Chain G, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|H Chain H, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|I Chain I, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|J Chain J, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|L Chain L, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|N Chain N, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|O Chain O, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|P Chain P, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|Q Chain Q, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|R Chain R, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|S Chain S, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|T Chain T, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|U Chain U, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHP|V Chain V, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|A Chain A, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|B Chain B, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|C Chain C, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|D Chain D, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|E Chain E, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|F Chain F, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|G Chain G, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|H Chain H, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|I Chain I, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|J Chain J, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|K Chain K, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|L Chain L, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|M Chain M, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|N Chain N, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|O Chain O, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|P Chain P, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|Q Chain Q, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|W Chain W, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|Y Chain Y, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
 pdb|2YHQ|Z Chain Z, Structure Of Respiratory Syncytial Virus Nucleocapsid
           Protein, P1 Crystal Form
          Length = 375

 Score = 26.2 bits (56), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 13/81 (16%)

Query: 27  AVNGVLLGRVSPQND--AVVEIADSVPLFHSHLG---LLPNLEISLIMIEE--HYS---- 75
           +V  ++LG  S Q +   VVE+ +         G   +L N + SL+ + +  H+S    
Sbjct: 266 SVKNIMLGHASVQAEMEQVVEVYEYAQKLGGEAGFYHILNNPKASLLSLTQFPHFSSVVL 325

Query: 76  --AQGLGIVGYFHANERFDDL 94
             A GLGI+G +    R  DL
Sbjct: 326 GNAAGLGIMGEYRGTPRNQDL 346


>pdb|2WJ8|A Chain A, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|B Chain B, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|C Chain C, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|D Chain D, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|E Chain E, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|F Chain F, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|G Chain G, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|H Chain H, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|I Chain I, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|J Chain J, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|K Chain K, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|L Chain L, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|M Chain M, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|N Chain N, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|O Chain O, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|P Chain P, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|Q Chain Q, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|R Chain R, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|S Chain S, Respiratory Syncitial Virus Ribonucleoprotein
 pdb|2WJ8|T Chain T, Respiratory Syncitial Virus Ribonucleoprotein
          Length = 391

 Score = 26.2 bits (56), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 13/81 (16%)

Query: 27  AVNGVLLGRVSPQND--AVVEIADSVPLFHSHLG---LLPNLEISLIMIEE--HYS---- 75
           +V  ++LG  S Q +   VVE+ +         G   +L N + SL+ + +  H+S    
Sbjct: 266 SVKNIMLGHASVQAEMEQVVEVYEYAQKLGGEAGFYHILNNPKASLLSLTQFPHFSSVVL 325

Query: 76  --AQGLGIVGYFHANERFDDL 94
             A GLGI+G +    R  DL
Sbjct: 326 GNAAGLGIMGEYRGTPRNQDL 346


  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
   0.323    0.139    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,653,576
Number of Sequences: 62578
Number of extensions: 180514
Number of successful extensions: 268
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 5
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)