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= psy13058
         (238 letters)

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

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



>pdb|2XWU|B Chain B, Crystal Structure Of Importin 13 - Ubc9 Complex
          Length = 963

 Score = 47.8 bits (112), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 49/224 (21%), Positives = 85/224 (37%), Gaps = 25/224 (11%)

Query: 6   SLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIADEMLLH 65
           +++ V   +H LY +PN   K  A +WL Q Q S  AW          ++W+     LL 
Sbjct: 22  TVENVEKALHQLYYDPNIENKNLAQKWLMQAQVSPQAWH---------FSWQ-----LLQ 67

Query: 66  QNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGKNIITQXXX 125
            +++  E  YF A  +  K+   + ++P++ + SL+  L   + R    S K ++T+   
Sbjct: 68  PDKVP-EIQYFGASALHIKISRYWSDIPTDQYESLKAQLFTQITRFASGS-KIVLTRLCV 125

Query: 126 XXXXXXXQM--SAWEKPVVYIIE-------KLSHKGSIXXXXXXXXXXXXXXXXXKLGKN 176
                   M   AW   V  ++         +  +G                   +L + 
Sbjct: 126 ALASLALSMMPDAWPCAVADMVRLFQAEDSPVDGQGRCLALLELLTVLPEEFQTSRLPQY 185

Query: 177 RREEFEEELKAAGPIVIEFLKTCQANCGDNVSLQTKVLKCFTSW 220
           R+      L      V   L+           ++ KVLKCF+SW
Sbjct: 186 RKGLVRTSLAVECGAVFPLLEQLLQQPSSPSCVRQKVLKCFSSW 229


>pdb|2X19|B Chain B, Crystal Structure Of Importin13 - Rangtp Complex
          Length = 963

 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/115 (26%), Positives = 52/115 (45%), Gaps = 17/115 (14%)

Query: 6   SLDTVYAVVHTLYLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHIYAWKIADEMLLH 65
           +++ V   +H LY +PN   K  A +WL Q Q S  AW          ++W+      L 
Sbjct: 22  TVENVEKALHQLYYDPNIENKNLAQKWLXQAQVSPQAWH---------FSWQ------LL 66

Query: 66  QNELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLCRTNDTSGKNII 120
           Q +   E  YF A  +  K+   + ++P++ + SL+  L   + R    SG  I+
Sbjct: 67  QPDKVPEIQYFGASALHIKISRYWSDIPTDQYESLKAQLFTQITRF--ASGSKIV 119


>pdb|2C6J|A Chain A, Structure Of P. Knowlesi Dbl Domain Capable Of Binding
           Human Duffy Antigen
          Length = 338

 Score = 28.9 bits (63), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 1/42 (2%)

Query: 68  ELGLEAVYFSAQTMRQKVQNAFFELPSESHVSLRDSLIEHLC 109
           ++G E +  +   ++Q++ N F E   E+ ++ RD+L  HLC
Sbjct: 264 KIGTENIATAYDILKQEL-NGFKEATFENEINKRDNLYNHLC 304


>pdb|2J9W|A Chain A, Structural Insight Into The Escrt-I-Ii Link And Its Role
          In Mvb Trafficking
 pdb|2J9W|B Chain B, Structural Insight Into The Escrt-I-Ii Link And Its Role
          In Mvb Trafficking
          Length = 102

 Score = 27.3 bits (59), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 2  ESQPSLDTVYAVVHTL-YLNPNKTEKEKASQWLHQLQKSIYAWKIADEMLRHI 53
          E QP L  +   ++ + +L P+   +EK SQWL +L     + ++ D  +R +
Sbjct: 33 EIQPDLRELMETMNRMSHLPPDFEGREKVSQWLQKLSSMSASDELDDSQVRQM 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
   0.317    0.129    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,166,589
Number of Sequences: 62578
Number of extensions: 202266
Number of successful extensions: 475
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 468
Number of HSP's gapped (non-prelim): 7
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
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: 50 (23.9 bits)