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= 025974
         (245 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|Q9S720|PPD3_ARATH PsbP domain-containing protein 3, chloroplastic OS=Arabidopsis
           thaliana GN=PPD3 PE=1 SV=2
          Length = 247

 Score =  260 bits (665), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 142/259 (54%), Positives = 168/259 (64%), Gaps = 36/259 (13%)

Query: 11  MASISPLHTWSQRPHHASFTAFSNNKGTNQYKKQFVFCCKKQEQED--DARTLNRFRIEE 68
           MA+ISP   W   P      +FSN + T    ++   C          D+    + RI  
Sbjct: 1   MAAISP---WLSSPQ-----SFSNPRVTITDSRR---CSSISAAISVLDSSNEEQHRISS 49

Query: 69  QDDDSRTKRREVMFQLAFTACSFPAIVSYALA----------------------ANDWQL 106
           +D     KRR+VM Q+A +    P  +S A A                        DWQ+
Sbjct: 50  RDHVG-MKRRDVMLQIASSVFFLPLAISPAFAETNASEAFRVYTDETNKFEISIPQDWQV 108

Query: 107 GAGEPNGFKSITAFYPQEASSSSVSVVITGLGPDFTRMESFGKVEAFADTLVSGLDRSWR 166
           G  EPNGFKSITAFYPQE S+S+VS+ ITGLGPDFTRMESFGKVEAFA+TLVSGLDRSW+
Sbjct: 109 GQAEPNGFKSITAFYPQETSTSNVSIAITGLGPDFTRMESFGKVEAFAETLVSGLDRSWQ 168

Query: 167 RPPGVAAKLIDCKASKGFYYIEYTLQNPGESRKHLFSAIGMASNGWYNRLYTVTGQFVEE 226
           +P GV AKLID +ASKGFYYIEYTLQNPGE+RKHL+SAIGMA+NGWYNRLYTVTGQF +E
Sbjct: 169 KPVGVTAKLIDSRASKGFYYIEYTLQNPGEARKHLYSAIGMATNGWYNRLYTVTGQFTDE 228

Query: 227 ESEKYGSNIEKAVASFRFI 245
           ES +  S I+K V SFRFI
Sbjct: 229 ESAEQSSKIQKTVKSFRFI 247


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.317    0.130    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 88,766,744
Number of Sequences: 539616
Number of extensions: 3556024
Number of successful extensions: 7961
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 7959
Number of HSP's gapped (non-prelim): 4
length of query: 245
length of database: 191,569,459
effective HSP length: 114
effective length of query: 131
effective length of database: 130,053,235
effective search space: 17036973785
effective search space used: 17036973785
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.7 bits)