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= 001240
         (1116 letters)

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

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



>pdb|3GUC|A Chain A, Human Ubiquitin-Activating Enzyme 5 In Complex With Amppnp
 pdb|3GUC|B Chain B, Human Ubiquitin-Activating Enzyme 5 In Complex With Amppnp
 pdb|3H8V|A Chain A, Human Ubiquitin-Activating Enzyme 5 In Complex With Atp
 pdb|3H8V|B Chain B, Human Ubiquitin-Activating Enzyme 5 In Complex With Atp
          Length = 292

 Score = 32.3 bits (72), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 7/75 (9%)

Query: 932  PDLIEHIHKTTARLLLHIDGYVDRISNAKWEVKELGLEHNGYVDLLLGEFKHYKTRLAHG 991
            PD++  +H      + +   ++DRISN        GLE    VDL+L    +++ R+   
Sbjct: 103  PDVLFEVHNYNITTVENFQHFMDRISNG-------GLEEGKPVDLVLSCVDNFEARMTIN 155

Query: 992  GIHKEVQDLLLEYGV 1006
                E+    +E GV
Sbjct: 156  TACNELGQTWMESGV 170


>pdb|3P8C|B Chain B, Structure And Control Of The Actin Regulatory Wave Complex
          Length = 1128

 Score = 32.0 bits (71), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 933 DLIEHIHKTTARLLLHIDGYVDRISNAKWEVKELGLEHNG 972
           D + HIHK    L ++I GY  RI++ + E KE  + H G
Sbjct: 298 DEVFHIHKAAEDLFVNIRGYNKRINDIR-ECKEAAVSHAG 336


>pdb|1MK4|A Chain A, Structure Of Protein Of Unknown Function Yqjy From Bacillus
            Subtilis, Probable Acetyltransferase
 pdb|1MK4|B Chain B, Structure Of Protein Of Unknown Function Yqjy From Bacillus
            Subtilis, Probable Acetyltransferase
          Length = 157

 Score = 31.6 bits (70), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 10/20 (50%), Positives = 15/20 (75%)

Query: 1067 PETEYVHWAAAHPEYTKSQI 1086
            PET Y+H++  HP++ K QI
Sbjct: 66   PETAYIHFSGVHPDFRKMQI 85


  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
   0.318    0.134    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,422,740
Number of Sequences: 62578
Number of extensions: 1137378
Number of successful extensions: 2656
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 2648
Number of HSP's gapped (non-prelim): 8
length of query: 1116
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1007
effective length of database: 8,152,335
effective search space: 8209401345
effective search space used: 8209401345
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)