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= 042020
         (538 letters)

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

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



>pdb|2VPK|A Chain A, Crystal Structure Of The Btb Domain Of Human Myoneurin
          Length = 116

 Score = 32.0 bits (71), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 6/87 (6%)

Query: 5   CDLEVDVNGEETFMVDKKILASFSGRFNKLFSGLNGSTSNLKVIFHDFPGGAEGFELIAR 64
           CD  + V GE  F   + +LASFS  F  ++     STS   V        A+GF+ +  
Sbjct: 23  CDCTI-VIGEFQFKAHRNVLASFSEYFGAIYR----STSENNVFLDQSQVKADGFQKLLE 77

Query: 65  YCYSLGKIKITASNIVLLSCAARFMEM 91
           + Y+ G + + + N+  +  AA ++++
Sbjct: 78  FIYT-GTLNLDSWNVKEIHQAADYLKV 103


>pdb|2VF7|A Chain A, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF7|B Chain B, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF7|C Chain C, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF8|A Chain A, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF8|B Chain B, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
          Length = 842

 Score = 30.8 bits (68), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 4/56 (7%)

Query: 145 SGLVERIALSFVASPYTSFSGYFNSTFQFSGDTERCDSLMNICRQRRWWFEDLMFL 200
           +GL +++   F A+P     GY    F F+    RC+     C+   W   +L+FL
Sbjct: 606 TGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEH----CQGEGWVMVELLFL 657


>pdb|4E36|A Chain A, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2 Variant N392k
 pdb|4E36|B Chain B, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2 Variant N392k
          Length = 967

 Score = 30.0 bits (66), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 22/43 (51%)

Query: 137 LFVPEKVLSGLVERIALSFVASPYTSFSGYFNSTFQFSGDTER 179
           L VPEK+   L   +A+ F A     F G++ ST++  G   R
Sbjct: 150 LLVPEKLTPHLKYYVAMDFQAKLGDGFEGFYKSTYRTLGGETR 192


>pdb|3SE6|A Chain A, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2
 pdb|3SE6|B Chain B, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2
          Length = 967

 Score = 30.0 bits (66), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 22/43 (51%)

Query: 137 LFVPEKVLSGLVERIALSFVASPYTSFSGYFNSTFQFSGDTER 179
           L VPEK+   L   +A+ F A     F G++ ST++  G   R
Sbjct: 150 LLVPEKLTPHLKYYVAMDFQAKLGDGFEGFYKSTYRTLGGETR 192


>pdb|3K1L|B Chain B, Crystal Structure Of Fancl
 pdb|3K1L|A Chain A, Crystal Structure Of Fancl
          Length = 381

 Score = 28.9 bits (63), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 42/198 (21%), Positives = 74/198 (37%), Gaps = 44/198 (22%)

Query: 185 NICRQRRWWFEDLMFLNVDFVDKVSKMMITQNF---------EHDLICKFLLHYRKSRFC 235
           N+  Q  W  ED       F+D + K++  Q           E ++    L  Y+ + +C
Sbjct: 73  NLKLQDDWLLED-------FLDHLPKILPAQKAPTVPKELCREGNIYYDILALYKSNEYC 125

Query: 236 SASQVEKCKMT-------------EVVINLLSLLDRSTPSCKSLFNIF-----HVALSLK 277
                E C M              E+ I  L LLD S P C SL  +      ++  +L 
Sbjct: 126 LQVD-EACSMIRFSEFTDFEQHYLELKIPSLLLLDHSLPDCVSLGEMLTKSAGNLEEALN 184

Query: 278 ISRIYRKKLESLIGSQLDQATLDYLLVPSPCGKDYIYDVSLVLRLVKVFLFENRSWLSMS 337
           + R   + L     + +D   L ++L PSP    +           ++F  ++R +L ++
Sbjct: 185 LFRKLLEDLRPFYDNFMDIDELCHVLQPSPISSKHK---------TRLFPLKDRVYLKLT 235

Query: 338 RLNKVAGLVDSYLAEVSP 355
             +  A +    L  + P
Sbjct: 236 IADPFACIASMSLKIIGP 253


  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
   0.323    0.136    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,778,302
Number of Sequences: 62578
Number of extensions: 575084
Number of successful extensions: 1251
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1246
Number of HSP's gapped (non-prelim): 25
length of query: 538
length of database: 14,973,337
effective HSP length: 103
effective length of query: 435
effective length of database: 8,527,803
effective search space: 3709594305
effective search space used: 3709594305
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)