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= 015342
         (408 letters)

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

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



>pdb|3IYO|A Chain A, Cryo-Em Model Of Virion-Sized Hev Virion-Sized Capsid
 pdb|3IYO|B Chain B, Cryo-Em Model Of Virion-Sized Hev Virion-Sized Capsid
 pdb|3IYO|D Chain D, Cryo-Em Model Of Virion-Sized Hev Virion-Sized Capsid
          Length = 660

 Score = 31.2 bits (69), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 56/124 (45%), Gaps = 3/124 (2%)

Query: 59  GIAIGYTIAASISMMAIKRSNCFHESGGNNPCHMSSNPYMILFGVMEIFLS-QIPDFDQI 117
           GIAI + I    S + I+  +  HE     P    S P+ +L     ++LS    ++DQ 
Sbjct: 424 GIAIPHDIDLGESRVVIQDYDNQHEQDRPTPSPAPSRPFSVLRANDVLWLSLTAAEYDQS 483

Query: 118 WWLSIVAAV-MSFTYSAIGLALGIVQVAANGAF-KGSLTGISIGTVTQTQKIWRSFQALG 175
            + S    V +S + + + +A G   VA +  + K +L G  + T+ Q  K +      G
Sbjct: 484 TYGSSTGPVYVSDSVTLVNVATGAQAVARSLDWTKVTLDGRPLSTIQQYSKTFFVLPLRG 543

Query: 176 DIAF 179
            ++F
Sbjct: 544 KLSF 547


>pdb|2ZZQ|A Chain A, Crystal Structure Analysis Of The Hev Capsid Protein,
           Porf2
          Length = 552

 Score = 30.8 bits (68), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 56/124 (45%), Gaps = 3/124 (2%)

Query: 59  GIAIGYTIAASISMMAIKRSNCFHESGGNNPCHMSSNPYMILFGVMEIFLS-QIPDFDQI 117
           GIAI + I    S + I+  +  HE     P    S P+ +L     ++LS    ++DQ 
Sbjct: 368 GIAIPHDIDLGESRVVIQDYDNQHEQDRPTPSPAPSRPFSVLRANDVLWLSLTAAEYDQS 427

Query: 118 WWLSIVAAV-MSFTYSAIGLALGIVQVAANGAF-KGSLTGISIGTVTQTQKIWRSFQALG 175
            + S    V +S + + + +A G   VA +  + K +L G  + T+ Q  K +      G
Sbjct: 428 TYGSSTGPVYVSDSVTLVNVATGAQAVARSLDWTKVTLDGRPLSTIQQYSKTFFVLPLRG 487

Query: 176 DIAF 179
            ++F
Sbjct: 488 KLSF 491


  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
   0.328    0.140    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,361,411
Number of Sequences: 62578
Number of extensions: 430952
Number of successful extensions: 1021
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1021
Number of HSP's gapped (non-prelim): 15
length of query: 408
length of database: 14,973,337
effective HSP length: 101
effective length of query: 307
effective length of database: 8,652,959
effective search space: 2656458413
effective search space used: 2656458413
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)