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= 023564
         (280 letters)

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

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



>pdb|1CF7|A Chain A, Structural Basis Of Dna Recognition By The Heterodimeric
           Cell Cycle Transcription Factor E2f-Dp
          Length = 76

 Score = 99.0 bits (245), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 49/68 (72%), Positives = 56/68 (82%), Gaps = 1/68 (1%)

Query: 127 CRYDSSLGLLTRKFINLIQEAKDGTLDLNRTAEVLEV-QKRRIYDITNVLEGIGLIEKTS 185
            R++ SLGLLT KF++L+QEAKDG LDL   A+ L V QKRRIYDITNVLEGIGLIEK S
Sbjct: 6   SRHEKSLGLLTTKFVSLLQEAKDGVLDLKLAADTLAVRQKRRIYDITNVLEGIGLIEKKS 65

Query: 186 KNHIRWKG 193
           KN I+WKG
Sbjct: 66  KNSIQWKG 73


>pdb|1CF7|B Chain B, Structural Basis Of Dna Recognition By The Heterodimeric
           Cell Cycle Transcription Factor E2f-Dp
          Length = 95

 Score = 28.9 bits (63), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)

Query: 165 KRRIYDITNVLEGIGLIEKTSKNHIRWKG 193
           +RR+YD  NVL  + +I K  K  I+W G
Sbjct: 61  RRRVYDALNVLMAMNIISK-EKKEIKWIG 88


>pdb|3A1W|A Chain A, Crystal Structue Of The G Domain Of T. Maritima Feob Iron
           Iransporter
          Length = 168

 Score = 28.1 bits (61), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 7/76 (9%)

Query: 176 EGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVAR---LKAEIESLHAEECRIDDSIREKQE 232
           EG+   +  + N I   G+ SLG S +D+++AR   LK + + +      + DS+  +Q 
Sbjct: 44  EGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLV----ILVADSVNPEQS 99

Query: 233 LIRTLEENENHQKYMF 248
           L   LE  E  +K + 
Sbjct: 100 LYLLLEILEMEKKVIL 115


>pdb|3A1T|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
           Feob Iron Iransporter In Gdp Form Ii
 pdb|3A1U|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
           Feob Iron Iransporter In Gmppnp Form
 pdb|3A1U|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
           Feob Iron Iransporter In Gmppnp Form
 pdb|3A1V|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima
           Feob Iron Iransporter In Apo Form
 pdb|3A1V|B Chain B, Crystal Structue Of The Cytosolic Domain Of T. Maritima
           Feob Iron Iransporter In Apo Form
          Length = 258

 Score = 27.3 bits (59), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 22/76 (28%), Positives = 38/76 (50%), Gaps = 7/76 (9%)

Query: 176 EGIGLIEKTSKNHIRWKGSDSLGTSKLDDQVAR---LKAEIESLHAEECRIDDSIREKQE 232
           EG+   +  + N I   G+ SLG S +D+++AR   LK + + +      + DS+  +Q 
Sbjct: 44  EGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLV----ILVADSVNPEQS 99

Query: 233 LIRTLEENENHQKYMF 248
           L   LE  E  +K + 
Sbjct: 100 LYLLLEILEMEKKVIL 115


  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
   0.313    0.130    0.359 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,158,480
Number of Sequences: 62578
Number of extensions: 264635
Number of successful extensions: 648
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 16
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
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: 51 (24.3 bits)