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= 046173
         (308 letters)

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

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



>pdb|1XQ4|A Chain A, Crystal Structure Of The Putative Apaa Protein From
           Bordetella Pertussis, Northeast Structural Genomics
           Target Ber40
 pdb|1XQ4|B Chain B, Crystal Structure Of The Putative Apaa Protein From
           Bordetella Pertussis, Northeast Structural Genomics
           Target Ber40
 pdb|1XQ4|C Chain C, Crystal Structure Of The Putative Apaa Protein From
           Bordetella Pertussis, Northeast Structural Genomics
           Target Ber40
 pdb|1XQ4|D Chain D, Crystal Structure Of The Putative Apaa Protein From
           Bordetella Pertussis, Northeast Structural Genomics
           Target Ber40
          Length = 139

 Score = 33.9 bits (76), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 26/79 (32%), Positives = 33/79 (41%), Gaps = 18/79 (22%)

Query: 239 RHWVIHAYNVVLSDVSGEAVIGM-------------SCTPLPGSSGSVRGSLMFVPARLA 285
           RHW+I      + +V G  V+G              S  PLP   G+ RG+   V     
Sbjct: 54  RHWIITDGEERVQEVRGLGVVGQQPLLAPGETFEYTSGCPLPTPIGTXRGTYHCV----- 108

Query: 286 DPKGSPFEVEVAEFPLQQP 304
              G PFEV +AEF L  P
Sbjct: 109 GENGIPFEVPIAEFLLAXP 127


>pdb|1TZA|A Chain A, X-Ray Structure Of Northeast Structural Genomics
           Consortium Target Sor45
 pdb|1TZA|B Chain B, X-Ray Structure Of Northeast Structural Genomics
           Consortium Target Sor45
          Length = 134

 Score = 30.8 bits (68), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 224 CIINGMTFSSCLLQHRHWVIHAYNVVLSDVSGEAVIGMSCTPLPGSS 270
            IIN +   +  L+ RHW+I   N   S+V G  V+G + T  P ++
Sbjct: 35  TIIN-LGEQAAKLETRHWIITDANGKTSEVQGAGVVGETPTIPPNTA 80


>pdb|2LAH|A Chain A, Solution Nmr Structure Of Mitotic Checkpoint
          SerineTHREONINE-Protein Kinase Bub1 N-Terminal Domain
          From Homo Sapiens, Northeast Structural Genomics
          Consortium Target Hr5460a (Methods Development)
          Length = 160

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 10/19 (52%), Positives = 14/19 (73%)

Query: 14 WDRFKKWLTENFPEAKATL 32
          W+R+ +W+ ENFPE K  L
Sbjct: 37 WERYIQWVEENFPENKEYL 55


>pdb|4A1G|A Chain A, The Crystal Structure Of The Human Bub1 Tpr Domain In
          Complex With The Ki Motif Of Knl1
 pdb|4A1G|B Chain B, The Crystal Structure Of The Human Bub1 Tpr Domain In
          Complex With The Ki Motif Of Knl1
 pdb|4A1G|C Chain C, The Crystal Structure Of The Human Bub1 Tpr Domain In
          Complex With The Ki Motif Of Knl1
 pdb|4A1G|D Chain D, The Crystal Structure Of The Human Bub1 Tpr Domain In
          Complex With The Ki Motif Of Knl1
          Length = 152

 Score = 29.6 bits (65), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 10/19 (52%), Positives = 14/19 (73%)

Query: 14 WDRFKKWLTENFPEAKATL 32
          W+R+ +W+ ENFPE K  L
Sbjct: 29 WERYIQWVEENFPENKEYL 47


  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
   0.323    0.139    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,879,274
Number of Sequences: 62578
Number of extensions: 409124
Number of successful extensions: 927
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 923
Number of HSP's gapped (non-prelim): 4
length of query: 308
length of database: 14,973,337
effective HSP length: 99
effective length of query: 209
effective length of database: 8,778,115
effective search space: 1834626035
effective search space used: 1834626035
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)