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= 030795
         (171 letters)

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

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



>pdb|2WSC|N Chain N, Improved Model Of Plant Photosystem I
 pdb|2WSE|N Chain N, Improved Model Of Plant Photosystem I
 pdb|2WSF|N Chain N, Improved Model Of Plant Photosystem I
          Length = 170

 Score =  217 bits (553), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 108/174 (62%), Positives = 129/174 (74%), Gaps = 7/174 (4%)

Query: 1   MAAMNSSVLACNYAISGSAGSSELNAKIVS---VSTPAVHGHKMPVIRAQQVDVSKESRG 57
           M+AMNS+VLACNYA SG    S+LNAK+ S   V++P +   K+P+I+A Q  V+ ES+ 
Sbjct: 1   MSAMNSTVLACNYARSGC---SDLNAKLTSMPSVASPQLSALKLPLIKAHQAKVT-ESKS 56

Query: 58  TDGRRXXXXXXXXXXXXXXXXXXXXXXXXGVIDEYLERSKANKELNDQKRLATSGANFAR 117
             GRR                        GVI+EYLE+SK NKELND+KRLAT+GANFAR
Sbjct: 57  DQGRRSALVYLAATLFTAAAAASNSSANAGVIEEYLEKSKTNKELNDKKRLATTGANFAR 116

Query: 118 AYTVQFGTCKFPENFTGCQDLAKQKKVPFISDDLELECKGKDKYKCGSNVFWKW 171
           AYTV+FG+CKFPENFTGCQDLAKQKKVPF+SDDL+LEC+GKDKYKCGSNVFWKW
Sbjct: 117 AYTVEFGSCKFPENFTGCQDLAKQKKVPFLSDDLDLECEGKDKYKCGSNVFWKW 170


>pdb|2O01|N Chain N, The Structure Of A Plant Photosystem I Supercomplex At 3.4
           Angstrom Resolution
 pdb|3LW5|N Chain N, Improved Model Of Plant Photosystem I
          Length = 85

 Score =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 75/85 (88%), Positives = 84/85 (98%)

Query: 87  GVIDEYLERSKANKELNDQKRLATSGANFARAYTVQFGTCKFPENFTGCQDLAKQKKVPF 146
           GVI+EYLE+SK NKELND+KRLAT+GANFARAYTV+FG+CKFPENFTGCQDLAKQKKVPF
Sbjct: 1   GVIEEYLEKSKTNKELNDKKRLATTGANFARAYTVEFGSCKFPENFTGCQDLAKQKKVPF 60

Query: 147 ISDDLELECKGKDKYKCGSNVFWKW 171
           +SDDL+LEC+GKDKYKCGSNVFWKW
Sbjct: 61  LSDDLDLECEGKDKYKCGSNVFWKW 85


  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
   0.315    0.129    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,203,933
Number of Sequences: 62578
Number of extensions: 136052
Number of successful extensions: 166
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 163
Number of HSP's gapped (non-prelim): 4
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)