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= 035970
         (377 letters)

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

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



>pdb|2NSQ|A Chain A, Crystal Structure Of The C2 Domain Of The Human E3
           Ubiquitin-Protein Ligase Nedd4-Like Protein
          Length = 155

 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 33/102 (32%), Positives = 49/102 (48%), Gaps = 15/102 (14%)

Query: 6   RVLEISIVSGHDLAL-----VSKSMKTYSVAWVDPERKLT---TRVDQNGLNNPSWNEKF 57
           R+L + +VSG DLA       S      S+   D  R+L    T+  +  LN P WNE+F
Sbjct: 21  RILRVKVVSGIDLAKKDIFGASDPYVKLSLYVADENRELALVQTKTIKKTLN-PKWNEEF 79

Query: 58  VFRVDDRFLTDETSAIMIEIYAAAWL-KDALIGSVRVLISHL 98
            FRV+          ++ E++    L +D  +G V V +SHL
Sbjct: 80  YFRVN-----PSNHRLLFEVFDENRLTRDDFLGQVDVPLSHL 116


>pdb|3M7F|B Chain B, Crystal Structure Of The Nedd4 C2GRB10 SH2 COMPLEX
          Length = 176

 Score = 38.5 bits (88), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 38/141 (26%), Positives = 58/141 (41%), Gaps = 19/141 (13%)

Query: 6   RVLEISIVSGHDLA---LVSKSMKTYSVAWVDPERKLTTRVDQNGLN---NPSWNEKFVF 59
           RV+ + +++G  LA   ++  S     V   DP   + T V    +    NP WNE+ +F
Sbjct: 8   RVVRVKVIAGIGLAKKDILGASDPYVRVTLYDPMSGILTSVQTKTIKKSLNPKWNEEILF 67

Query: 60  RVDDRFLTDETSAIMIEIYAAAWL-KDALIGSVRVLISHLFGTLTHNSSSSTRY----VA 114
           RV       +   I+ E++    L +D  +G V V    L+   T N      Y      
Sbjct: 68  RV-----LPQRHRILFEVFDENRLTRDDFLGQVDV---PLYPLPTENPRMERPYTFKDFV 119

Query: 115 LQVRRPSGRPQGILNLGITLL 135
           L  R    R +G L L +T L
Sbjct: 120 LHPRSHKSRVKGYLRLKMTYL 140


>pdb|3B7Y|A Chain A, Crystal Structure Of The C2 Domain Of The E3 Ubiquitin-
           Protein Ligase Nedd4
 pdb|3B7Y|B Chain B, Crystal Structure Of The C2 Domain Of The E3 Ubiquitin-
           Protein Ligase Nedd4
          Length = 153

 Score = 35.8 bits (81), Expect = 0.044,   Method: Compositional matrix adjust.
 Identities = 36/141 (25%), Positives = 58/141 (41%), Gaps = 19/141 (13%)

Query: 6   RVLEISIVSGHDLA---LVSKSMKTYSVAWVDPERKLTTRVDQNGLN---NPSWNEKFVF 59
           R++ + +++G  LA   ++  S     V   DP   + T V    +    NP WNE+ +F
Sbjct: 20  RIVRVRVIAGIGLAKKDILGASDPYVRVTLYDPMNGVLTSVQTKTIKKSLNPKWNEEILF 79

Query: 60  RVDDRFLTDETSAIMIEIYAAAWL-KDALIGSVRVLISHLFGTLTHNSSSSTRY----VA 114
           RV       +   ++ E++    L +D  +G V V    L+   T N      Y      
Sbjct: 80  RVH-----PQQHRLLFEVFDENRLTRDDFLGQVDV---PLYPLPTENPRLERPYTFKDFV 131

Query: 115 LQVRRPSGRPQGILNLGITLL 135
           L  R    R +G L L +T L
Sbjct: 132 LHPRSHKSRVKGYLRLKMTYL 152


>pdb|2APO|A Chain A, Crystal Structure Of The Methanococcus Jannaschii Cbf5
           Nop10 Complex
          Length = 357

 Score = 31.2 bits (69), Expect = 0.92,   Method: Compositional matrix adjust.
 Identities = 25/104 (24%), Positives = 44/104 (42%), Gaps = 4/104 (3%)

Query: 177 KQSKDDQELERVLKPKD---NSLSKAKLRRSQSDKTDLTSEDYSKNSSHQAQQPTGTGSV 233
           K+  D++EL RV+KP +     L K  ++ S  D     ++ Y +  + +  +  G G  
Sbjct: 247 KEDGDEEELRRVIKPMEYGLRHLKKVVVKDSAVDAICHGADVYVRGIA-KLSKGIGKGET 305

Query: 234 VTGSICNGGSVVKGNGSMVNGSQCSSDVGPSASVVAAAIAKGLY 277
           V      G +V  G   M      ++D G +  V    + +G Y
Sbjct: 306 VLVETLKGEAVAVGKALMNTKEILNADKGVAVDVERVYMDRGTY 349


>pdb|2D8K|A Chain A, Solution Structure Of The First C2 Domain Of
          Synaptotagmin Vii
          Length = 141

 Score = 28.9 bits (63), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 1/26 (3%)

Query: 34 DPERKLTTRVDQNGLNNPSWNEKFVF 59
          D + KL T+V +  LN P WNE F+F
Sbjct: 58 DKKHKLETKVKRKNLN-PHWNETFLF 82


>pdb|1CJY|A Chain A, Human Cytosolic Phospholipase A2
 pdb|1CJY|B Chain B, Human Cytosolic Phospholipase A2
          Length = 749

 Score = 28.5 bits (62), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 5/64 (7%)

Query: 35  PERKLTTRVDQNGLNNPSWNEKFVFRVDDRFLTDETSAIMIEIYAAAWLKDALIGSVRVL 94
           P+ +  TR   N +N P WNE F F +D     ++ + + I +  A ++ D  +G+    
Sbjct: 54  PDSRKRTRHFNNDIN-PVWNETFEFILD----PNQENVLEITLMDANYVMDETLGTATFT 108

Query: 95  ISHL 98
           +S +
Sbjct: 109 VSSM 112


  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
   0.311    0.127    0.366 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,408,026
Number of Sequences: 62578
Number of extensions: 470862
Number of successful extensions: 978
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 975
Number of HSP's gapped (non-prelim): 18
length of query: 377
length of database: 14,973,337
effective HSP length: 100
effective length of query: 277
effective length of database: 8,715,537
effective search space: 2414203749
effective search space used: 2414203749
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)