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= 020558
         (324 letters)

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

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



>pdb|1L0B|A Chain A, Crystal Structure Of Rat Brca1 Tandem-Brct Region
          Length = 229

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 43/193 (22%), Positives = 77/193 (39%), Gaps = 36/193 (18%)

Query: 28  IISRLTLKEAARTSVLSSRWKYLWTYASNLNFDASKLLVNVYEETIEEERLRYM------ 81
           ++S LT KE       +   KY       +  + + +++    E + E  L+Y       
Sbjct: 11  VVSGLTPKEVMIVQKFAE--KYRLALTDVITEETTHVIIKTDAEFVCERTLKYFLGIAGG 68

Query: 82  ------CWVNKVLESHKSLSVNEFIIVFDL--DDSHESNISHWVYTAISKRAQKFELNLF 133
                  WV K ++  K LSV+EF +  D+    +H+            +R+++ +  LF
Sbjct: 69  KWIVSYSWVIKSIQERKLLSVHEFEVKGDVVTGSNHQG----------PRRSRESQEKLF 118

Query: 134 PAL---CWPPASGIYEFSQGCYDYLKSPCGLSRVKSLRFLYFDT----VNVTEEILEFFI 186
             L   C  P + + +      + +   CG S VK L  L  DT    + + +       
Sbjct: 119 EGLQIYCCEPFTNMPKDE---LERMLQLCGASVVKELPLLTRDTGAHPIVLVQPSAWTED 175

Query: 187 NNCPNLDDLRVGR 199
           N+CP++  L  GR
Sbjct: 176 NDCPDIGQLCKGR 188


>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
 pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure
          Of The Skp1-Skp2 Complex
          Length = 272

 Score = 29.3 bits (64), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 13/70 (18%)

Query: 20 LPDDILVNIISRLTLKEAARTSVLSSRWKYLWTYASNLNFDASKLLVNVYEETIEEERLR 79
          LPD++L+ I S L L E  + S +  RW  L +  S               +T++E R++
Sbjct: 12 LPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDES-------------LWQTLDEFRVQ 58

Query: 80 YMCWVNKVLE 89
          +M   N V+E
Sbjct: 59 HMDLSNSVIE 68


  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    0.138    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,655,395
Number of Sequences: 62578
Number of extensions: 321872
Number of successful extensions: 659
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 2
length of query: 324
length of database: 14,973,337
effective HSP length: 99
effective length of query: 225
effective length of database: 8,778,115
effective search space: 1975075875
effective search space used: 1975075875
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)