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= 017965
         (363 letters)

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

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



>pdb|4A9A|C Chain C, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
 pdb|4A9A|D Chain D, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
          Length = 142

 Score = 32.0 bits (71), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 10/65 (15%)

Query: 214 RLPIEDEIEDQRGKLKST--TPMTTELFMQWKKKKMEERNAGLAAQQAERAKNDRM--SG 269
           ++ +E+ IE +RGKL  +  TP+T   F QWKK  +      +A   AE+  + +   +G
Sbjct: 16  KITLEEFIETERGKLDKSKLTPITIANFAQWKKDHV------IAKINAEKKLSSKRKPTG 69

Query: 270 RELFL 274
           RE+ L
Sbjct: 70  REIIL 74


>pdb|3SQF|A Chain A, Crystal Structure Of Monomeric M-Pmv Retroviral Protease
 pdb|3SQF|B Chain B, Crystal Structure Of Monomeric M-Pmv Retroviral Protease
          Length = 114

 Score = 28.9 bits (63), Expect = 4.8,   Method: Composition-based stats.
 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 208 LEEESDRLPIEDEIEDQRGKLKSTTPMTTELFMQWKKKKMEERNAGL 254
           LE+     PI D + + RG  +S  P  +  ++ W+ K   E N+GL
Sbjct: 36  LEDWPPNWPITDTLTNLRGIGQSNNPKQSSKYLTWRDK---ENNSGL 79


>pdb|1NSO|A Chain A, Folded Monomer Of Protease From Mason-Pfizer Monkey Virus
          Length = 107

 Score = 28.9 bits (63), Expect = 5.2,   Method: Composition-based stats.
 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 3/47 (6%)

Query: 208 LEEESDRLPIEDEIEDQRGKLKSTTPMTTELFMQWKKKKMEERNAGL 254
           LE+     PI D + + RG  +S  P  +  ++ W+ K   E N+GL
Sbjct: 36  LEDWPPNWPITDTLTNLRGIGQSNNPKQSSKYLTWRDK---ENNSGL 79


>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
           Nup475TTPTIS11
          Length = 77

 Score = 27.7 bits (60), Expect = 9.5,   Method: Composition-based stats.
 Identities = 12/34 (35%), Positives = 22/34 (64%), Gaps = 1/34 (2%)

Query: 89  KSILCEFF-KAGQCQKGFKCKFSHDLNIQRKGEK 121
           K+ LC  + ++G+C+ G KC+F+H L   R+  +
Sbjct: 11  KTELCRTYSESGRCRYGAKCQFAHGLGELRQANR 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
   0.312    0.129    0.374 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,923,109
Number of Sequences: 62578
Number of extensions: 333088
Number of successful extensions: 736
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 733
Number of HSP's gapped (non-prelim): 7
length of query: 363
length of database: 14,973,337
effective HSP length: 100
effective length of query: 263
effective length of database: 8,715,537
effective search space: 2292186231
effective search space used: 2292186231
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)