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= 027752
         (219 letters)

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

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



>pdb|3JRO|C Chain C, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
          Length = 426

 Score = 30.8 bits (68), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 34/64 (53%)

Query: 149 SKDYSLKQYLLFADKLQAKAKELVSEENCFTPFDVERALWSSAIGLKLKASKSNQDSEIK 208
           S  Y  +++  F+D L+    E  +E+N   PF++ R   S+A  L L  + S  +S + 
Sbjct: 6   SPTYQTERFTKFSDTLKEFKIEQNNEQNPIDPFNIIREFRSAAGQLALDLANSGDESNVI 65

Query: 209 TTKN 212
           ++K+
Sbjct: 66  SSKD 69


>pdb|3IKO|C Chain C, Crystal Structure Of The Heterotrimeric
           Sec13-Nup145c-Nup84 Nucleoporin Complex
 pdb|3IKO|F Chain F, Crystal Structure Of The Heterotrimeric
           Sec13-Nup145c-Nup84 Nucleoporin Complex
 pdb|3IKO|I Chain I, Crystal Structure Of The Heterotrimeric
           Sec13-Nup145c-Nup84 Nucleoporin Complex
          Length = 460

 Score = 30.8 bits (68), Expect = 0.64,   Method: Compositional matrix adjust.
 Identities = 18/64 (28%), Positives = 34/64 (53%)

Query: 149 SKDYSLKQYLLFADKLQAKAKELVSEENCFTPFDVERALWSSAIGLKLKASKSNQDSEIK 208
           S  Y  +++  F+D L+    E  +E+N   PF++ R   S+A  L L  + S  +S + 
Sbjct: 4   SPTYQTERFTKFSDTLKEFKIEQNNEQNPIDPFNIIREFRSAAGQLALDLANSGDESNVI 63

Query: 209 TTKN 212
           ++K+
Sbjct: 64  SSKD 67


>pdb|3HOS|A Chain A, Crystal Structure Of The Mariner Mos1 Paired End Complex
           With Mg
 pdb|3HOS|B Chain B, Crystal Structure Of The Mariner Mos1 Paired End Complex
           With Mg
 pdb|3HOT|A Chain A, Crystal Structure Of The Mos1 Mariner Paired End Complex
           With Mn
 pdb|3HOT|B Chain B, Crystal Structure Of The Mos1 Mariner Paired End Complex
           With Mn
          Length = 345

 Score = 28.9 bits (63), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 13/23 (56%), Positives = 18/23 (78%), Gaps = 2/23 (8%)

Query: 127 AAYAPDLAPFMSDEAMGAALGHS 149
           AAY+PDLAP  SD  + A++GH+
Sbjct: 274 AAYSPDLAP--SDYHLFASMGHA 294


>pdb|2F7T|A Chain A, Crystal Structure Of The Catalytic Domain Of Mos1 Mariner
           Transposase
          Length = 227

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 13/23 (56%), Positives = 18/23 (78%), Gaps = 2/23 (8%)

Query: 127 AAYAPDLAPFMSDEAMGAALGHS 149
           AAY+PDLAP  SD  + A++GH+
Sbjct: 156 AAYSPDLAP--SDYHLFASMGHA 176


  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
   0.313    0.127    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,639,622
Number of Sequences: 62578
Number of extensions: 191944
Number of successful extensions: 332
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 9
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
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: 49 (23.5 bits)