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= 030310
         (179 letters)

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

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



>pdb|2VU4|A Chain A, Structure Of Psbp Protein From Spinacia Oleracea At 1.98 A
           Resolution
          Length = 190

 Score =  186 bits (471), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 82/100 (82%), Positives = 94/100 (94%)

Query: 77  AYGESANVFGKPKTNTDFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVS 136
           AYGE+ANVFGKPK NT+F+PYNGDGFKL +PSKWNPSKE+EFPGQVLRYEDNFD+ SN+S
Sbjct: 5   AYGEAANVFGKPKKNTEFMPYNGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLS 64

Query: 137 VIITPTDKKSITDYGSPEEFLSKVDYLLGKQAYSGKTSSE 176
           V++ PTDKKSITD+GSPE+FLS+VDYLLGKQAY GKT SE
Sbjct: 65  VLVQPTDKKSITDFGSPEDFLSQVDYLLGKQAYFGKTDSE 104


>pdb|1V2B|A Chain A, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
           Complex Of Photosystem Ii From Higher Plants
 pdb|1V2B|B Chain B, Crystal Structure Of Psbp Protein In The Oxygen-Evolving
           Complex Of Photosystem Ii From Higher Plants
          Length = 177

 Score =  163 bits (412), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 74/91 (81%), Positives = 83/91 (91%)

Query: 86  GKPKTNTDFLPYNGDGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVSVIITPTDKK 145
           GKPKT+TDF  YNGDGFKL IPSKWNP+KE E+PGQVLR+EDNFD+ SNV V ITPTDKK
Sbjct: 1   GKPKTDTDFQTYNGDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDKK 60

Query: 146 SITDYGSPEEFLSKVDYLLGKQAYSGKTSSE 176
           SITD+GSPE+FLS+VDYLLG+QAYSGKT SE
Sbjct: 61  SITDFGSPEQFLSQVDYLLGRQAYSGKTDSE 91


>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
          Length = 165

 Score = 31.6 bits (70), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 100 DGFKLSIPSKWNPSKEREFPGQVLRYEDNFDSNSNVSVII-TPTDKKSITDYGSPEE 155
           DG++   P  W    + E P  V+ + D  ++  NVSV++ T    KS+ + GSPEE
Sbjct: 16  DGYEFLYPRGW-VQVQVEDPVDVV-FHDIIETTENVSVVVNTVASTKSLEELGSPEE 70


  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
   0.312    0.127    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,439,312
Number of Sequences: 62578
Number of extensions: 218623
Number of successful extensions: 310
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 308
Number of HSP's gapped (non-prelim): 3
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 48 (23.1 bits)