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= 024715
         (263 letters)

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

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



>pdb|2YU4|A Chain A, Solution Structure Of The Sp-Ring Domain In Non-Smc
          Element 2 Homolog (Mms21, S. Cerevisiae)
          Length = 94

 Score = 34.3 bits (77), Expect = 0.068,   Method: Compositional matrix adjust.
 Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 5/60 (8%)

Query: 18 GGSSFTCEICIEPMAASKKFKNRNLCTHPFCQDCIARYIQVKVQDDNTAKIDCPGLDCKH 77
          G S FTC I  E M   K  KN+ +C H + +D I R I+ + +     K  CP + C H
Sbjct: 4  GSSGFTCPITKEEMK--KPVKNK-VCGHTYEEDAIVRMIESRQK--RKKKAYCPQIGCSH 58


>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 = 0.52,   Method: Compositional matrix adjust.
 Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 3/36 (8%)

Query: 137 CPNCKQWFCFQCKLKW---HAGYRCEESRNLRDQND 169
           CP C Q FC +CK +W   H G  CE+ +N +  N 
Sbjct: 46  CPQCHQTFCVRCKRQWEEQHRGRSCEDFQNWKRMNS 81


>pdb|2A20|A Chain A, Solution Structure Of Rim2 Zinc Finger Domain
 pdb|2CJS|C Chain C, Structural Basis For A Munc13-1 Dimeric - Munc13-1 - Rim
           Heterodimer Switch: C2-domains As Versatile Protein-
           Protein Interaction Modules
          Length = 62

 Score = 27.7 bits (60), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 2/35 (5%)

Query: 185 PACGHCVERK--DGCSVVMCRCNTRFCYECGRKIS 217
           P CG C + K  DGC      C T+FC  CG ++S
Sbjct: 10  PTCGICHKTKFADGCGHNCSYCQTKFCARCGGRVS 44


  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
   0.327    0.139    0.481 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,227,886
Number of Sequences: 62578
Number of extensions: 326611
Number of successful extensions: 726
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 712
Number of HSP's gapped (non-prelim): 27
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)