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= 022978
         (289 letters)

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

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



>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From
           Synechocystis Sp. Pcc 6803
          Length = 170

 Score = 38.9 bits (89), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 7/86 (8%)

Query: 186 SSQRMAESSVLDAHTSKVDGEPYWFYEYLIRKSPTNLGQEPNLYRHYVASTAEREGYLYS 245
           +SQ   ++ +++A     DG+ Y+  EY +           N+ RH +AS     G L +
Sbjct: 91  ASQGDRQAELINAEARDEDGQVYYTLEYRVLVGD-------NVERHDLASVTTNRGKLIT 143

Query: 246 ISASTLGKQWDEMGPFLEKSVASFHL 271
              ST   +WD +    +   +SFH+
Sbjct: 144 FDLSTAEDRWDTVKSLFDTVASSFHV 169


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

 Score = 34.7 bits (78), Expect = 0.071,   Method: Compositional matrix adjust.
 Identities = 44/192 (22%), Positives = 81/192 (42%), Gaps = 38/192 (19%)

Query: 83  MASFVDEINAYTYLYPMELPSKKFLFKWVESRKPERYSSAAPLSPNARLRIVSERVDIID 142
           + ++VD  + Y +LYP           WV+ +                   V + VD++ 
Sbjct: 8   LQAYVDSYDGYEFLYPR---------GWVQVQ-------------------VEDPVDVVF 39

Query: 143 NLIISVTIGPPNVQFLKSKDKSTWNAKDVAD-SVLSDKSALRVTSSQRMAESSVLDAHTS 201
           + II  T    NV  + +   ST + +++     + D+    + +      SS L A TS
Sbjct: 40  HDIIETT---ENVSVVVNTVASTKSLEELGSPEEVGDRLLRNIIAPSESGRSSALIAATS 96

Query: 202 -KVDGEPYWFYEYLIR-KSPTNLGQEPNLYRHYVASTAEREGYLYSISASTLGKQWDEMG 259
            K D + Y+  EY +      N  Q+    RH ++S A   G +Y++S S   ++W ++ 
Sbjct: 97  QKADDKTYYILEYAVTLPGDGNTAQQ----RHNLSSIAVSRGKVYTLSVSAPEERWPKVE 152

Query: 260 PFLEKSVASFHL 271
              +  V+SF +
Sbjct: 153 DQFKTIVSSFTV 164


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

 Score = 33.9 bits (76), Expect = 0.100,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 43/86 (50%), Gaps = 6/86 (6%)

Query: 187 SQRMAESSVLDAHTSKVDGEPYWFYEYLIRKSPTNLGQEPNLYRHYVASTAEREGYLYSI 246
           S  +A ++VL++ T  VDG+ Y+    L R +  + G      +H V +   ++G LY  
Sbjct: 109 SGVVASANVLESSTPVVDGKQYYSITVLTRTADGDEGG-----KHQVIAATVKDGKLYIC 163

Query: 247 SASTLGKQWDEMG-PFLEKSVASFHL 271
            A    K+W +    F+E + +SF +
Sbjct: 164 KAQAGDKRWFKGAKKFVESATSSFSV 189


>pdb|3H5K|A Chain A, Crystal Structure Of The Ribosome Inactivating Protein
           Pdl1
 pdb|3H5K|B Chain B, Crystal Structure Of The Ribosome Inactivating Protein
           Pdl1
 pdb|3LE7|A Chain A, Crystal Structure Of Pd-L1 From P. Dioica In Complex With
           Adenine
 pdb|3LE7|B Chain B, Crystal Structure Of Pd-L1 From P. Dioica In Complex With
           Adenine
          Length = 261

 Score = 29.3 bits (64), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 7/94 (7%)

Query: 74  GSVAGEDVKMASFVDEINAYTYLYPMELPSKKFLFKWVESRKPERYSSAAPLSPNARLRI 133
           G ++G+    +SF D+  A   L  +++ S+   FK++E++    ++     SPN ++  
Sbjct: 149 GKISGQ----SSFTDKTEAKFLLVAIQMVSEAARFKYIENQVKTNFNR--DFSPNDKILD 202

Query: 134 VSERVDIIDNLIISVTIGP-PNVQFLKSKDKSTW 166
           + E    I   I   T G  P    LK+ D + W
Sbjct: 203 LEENWGKISTAIHDATNGALPKPLELKNADGTKW 236


  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
   0.317    0.132    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,989,828
Number of Sequences: 62578
Number of extensions: 294751
Number of successful extensions: 718
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 710
Number of HSP's gapped (non-prelim): 11
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
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: 51 (24.3 bits)