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= 021078
         (317 letters)

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

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



>pdb|3ND2|A Chain A, Structure Of Yeast Importin-Beta (Kap95p)
          Length = 861

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 23/99 (23%), Positives = 45/99 (45%), Gaps = 4/99 (4%)

Query: 195 VQNTELDKPDFGSIPSMME----CSENDPTTESLMASDSEDLSDIFETDSETETEEKAEL 250
           V NT  ++P+     S++     C   DP +++L++S +  L  I +    TET +   L
Sbjct: 140 VDNTGAEQPENVKRASLLALGYMCESADPQSQALVSSSNNILIAIVQGAQSTETSKAVRL 199

Query: 251 RPLYLDQFDKFPVQNDEEHEDFEEHLRQISIDSRNAKSL 289
             L         ++N+ E E    +L Q+  ++  A+ +
Sbjct: 200 AALNALADSLIFIKNNMEREGERNYLMQVVCEATQAEDI 238


>pdb|2BJ1|A Chain A, Nikr In Open Conformation And Nickel Bound To
           High-Affinity Sites
 pdb|2BJ1|B Chain B, Nikr In Open Conformation And Nickel Bound To
           High-Affinity Sites
 pdb|2BJ3|A Chain A, Nikr-Apo
 pdb|2BJ3|B Chain B, Nikr-Apo
 pdb|2BJ3|C Chain C, Nikr-Apo
 pdb|2BJ3|D Chain D, Nikr-Apo
 pdb|2BJ7|A Chain A, Nikr In Closed Conformation And Nickel Bound To High-
           Affinity Sites
 pdb|2BJ7|B Chain B, Nikr In Closed Conformation And Nickel Bound To High-
           Affinity Sites
 pdb|2BJ8|A Chain A, Nikr In Closed Conformation And Nickel Bound To High And
           Low-Affinity Sites
 pdb|2BJ8|B Chain B, Nikr In Closed Conformation And Nickel Bound To High And
           Low-Affinity Sites
 pdb|2BJ9|A Chain A, Nikr With Bound Nickel And Phosphate
 pdb|2BJ9|B Chain B, Nikr With Bound Nickel And Phosphate
          Length = 138

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 25/39 (64%)

Query: 73  VILNMHLHWKKHQTLKVIVKTFSAEEVKEIAAELARLTG 111
           +I ++H+H  +H  L+VIV    A+++K IA +L  L G
Sbjct: 84  IISSLHVHMDEHNCLEVIVVKGEAKKIKMIADKLLSLKG 122


>pdb|2BPT|A Chain A, Structure Of The Nup1p:kap95p Complex
 pdb|2BKU|B Chain B, Kap95p:rangtp Complex
 pdb|2BKU|D Chain D, Kap95p:rangtp Complex
 pdb|3EA5|B Chain B, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt
           The Gtp- Bound Conformation: Implications For Nuclear
           Import Complex Assembly Dynamics
 pdb|3EA5|D Chain D, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt
           The Gtp- Bound Conformation: Implications For Nuclear
           Import Complex Assembly Dynamics
          Length = 861

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 23/99 (23%), Positives = 45/99 (45%), Gaps = 4/99 (4%)

Query: 195 VQNTELDKPDFGSIPSMME----CSENDPTTESLMASDSEDLSDIFETDSETETEEKAEL 250
           V NT  ++P+     S++     C   DP +++L++S +  L  I +    TET +   L
Sbjct: 140 VDNTGAEQPENVKRASLLALGYMCESADPQSQALVSSSNNILIAIVQGAQSTETSKAVRL 199

Query: 251 RPLYLDQFDKFPVQNDEEHEDFEEHLRQISIDSRNAKSL 289
             L         ++N+ E E    +L Q+  ++  A+ +
Sbjct: 200 AALNALADSLIFIKNNMEREGERNYLMQVVCEATQAEDI 238


>pdb|2OLS|A Chain A, The Crystal Structure Of The Phosphoenolpyruvate Synthase
           From Neisseria Meningitidis
          Length = 794

 Score = 29.3 bits (64), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 13/24 (54%), Positives = 16/24 (66%)

Query: 105 ELARLTGGIVLEIHEENTIIMYRG 128
           E A L GG V E HEEN ++ +RG
Sbjct: 587 EYANLVGGNVYEPHEENPMLGFRG 610


>pdb|1V9X|A Chain A, Solution Structure Of The First Zn-Finger Domain Of
           Poly(Adp-Ribose) Polymerase-1
          Length = 114

 Score = 28.5 bits (62), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 19/29 (65%)

Query: 289 LGKDEDSSHFDEVDKMFLRAASLLKKQKR 317
           LGK   S+HFD +  M+  A+ +LKK K+
Sbjct: 37  LGKLVQSTHFDGIMPMWNHASCILKKTKQ 65


  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    0.130    0.360 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,830,649
Number of Sequences: 62578
Number of extensions: 354495
Number of successful extensions: 723
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 718
Number of HSP's gapped (non-prelim): 14
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)