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= 043865
         (203 letters)

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

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



>pdb|2CT7|A Chain A, Solution Structure Of The Ibr Domain Of The Ring Finger
           Protein 31 Protein
          Length = 86

 Score = 31.6 bits (70), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 20/40 (50%)

Query: 69  KARCPNCKQWFCFQCKVAWHAGYRCEESGNLRDWNDIAFG 108
           +A CP C Q FC +CK  W   +R     + ++W  +  G
Sbjct: 43  EATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKRMNSG 82


>pdb|2JMO|A Chain A, Ibr Domain Of Human Parkin
          Length = 80

 Score = 27.3 bits (59), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 28/64 (43%)

Query: 27 FSKWCDVLCEDYVLGFERSYCPNRNCMALVVNEGEINYGTLKKARCPNCKQWFCFQCKVA 86
          ++++     E+ VL      CP   C A ++ E +    T +      C   FC +CK A
Sbjct: 8  YNRYQQYGAEECVLQMGGVLCPRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEA 67

Query: 87 WHAG 90
          +H G
Sbjct: 68 YHEG 71


>pdb|1WD2|A Chain A, Solution Structure Of The C-Terminal Ring From A Ring-Ibr-
           Ring (Triad) Motif
          Length = 60

 Score = 26.9 bits (58), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 3/33 (9%)

Query: 120 PACGSCVERKEGCRVMYCR---CKTSFCYECGG 149
           P C   +E+  GC  M CR   CK  FC+ C G
Sbjct: 10  PKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLG 42


  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
   0.330    0.143    0.518 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,933,575
Number of Sequences: 62578
Number of extensions: 225930
Number of successful extensions: 497
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 489
Number of HSP's gapped (non-prelim): 15
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 49 (23.5 bits)