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= 035921
         (305 letters)

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

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



>pdb|1X4T|A Chain A, Solution Structure Of Isy1 Domain In Hypothetical
          Protein
          Length = 92

 Score = 33.1 bits (74), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 34/70 (48%), Gaps = 5/70 (7%)

Query: 33 AGARKEDVPYITCQV-----CEKLASQLYHQVQKKQAQISPKKISEFEIIGIAENVCNLK 87
          +G  KE  P++  +       EK   Q+  ++ KK AQI    + EF I  + + +  L 
Sbjct: 6  SGKVKERRPFLASECTELPKAEKWRRQIIGEISKKVAQIQNAGLGEFRIRDLNDEINKLL 65

Query: 88 KEEADWILKI 97
          +E+  W ++I
Sbjct: 66 REKGHWEVRI 75


>pdb|2IIE|A Chain A, Single Chain Integration Host Factor Protein (Scihf2) In
           Complex With Dna
          Length = 204

 Score = 30.0 bits (66), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 17/75 (22%)

Query: 108 LVEQEAEGQCNSECKTIERACQEIM-------------GYSDTDVAEYLY----TSKPDI 150
           L+E+ A  Q +   KT+E A +E++             G +  +++EYL+     SK D 
Sbjct: 8   LIERLATQQSHIPAKTVEDAVKEMLEHMASTLAQGGSGGLTKAEMSEYLFDKLGLSKRDA 67

Query: 151 KSLVNYLCKDLSKAC 165
           K LV    +++ +A 
Sbjct: 68  KELVELFFEEIRRAL 82


>pdb|2IIF|A Chain A, Single Chain Integration Host Factor Mutant Protein
           (Scihf2- K45ae) In Complex With Dna
          Length = 204

 Score = 30.0 bits (66), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 17/75 (22%)

Query: 108 LVEQEAEGQCNSECKTIERACQEIM-------------GYSDTDVAEYLYT----SKPDI 150
           L+E+ A  Q +   KT+E A +E++             G +  +++EYL+     SK D 
Sbjct: 8   LIERLATQQSHIPAKTVEDAVKEMLEHMASTLAQGGSGGLTKAEMSEYLFDKLGLSKRDA 67

Query: 151 KSLVNYLCKDLSKAC 165
           K LV    +++ +A 
Sbjct: 68  KELVELFFEEIRRAL 82


  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
   0.314    0.131    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,119,897
Number of Sequences: 62578
Number of extensions: 303106
Number of successful extensions: 540
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 537
Number of HSP's gapped (non-prelim): 5
length of query: 305
length of database: 14,973,337
effective HSP length: 98
effective length of query: 207
effective length of database: 8,840,693
effective search space: 1830023451
effective search space used: 1830023451
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)