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= psy8646
         (191 letters)

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

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



>pdb|1LW3|A Chain A, Crystal Structure Of Myotubularin-Related Protein 2
           Complexed With Phosphate
 pdb|1M7R|A Chain A, Crystal Structure Of Myotubularin-Related Protein-2
           (Mtmr2) Complexed With Phosphate
 pdb|1M7R|B Chain B, Crystal Structure Of Myotubularin-Related Protein-2
           (Mtmr2) Complexed With Phosphate
          Length = 657

 Score = 87.8 bits (216), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 53/145 (36%), Positives = 80/145 (55%), Gaps = 22/145 (15%)

Query: 61  PLLPGEIIQGFAREVTYLCPYSGPARGILSVTNYKLYFRSIDRETPYVVEVPLGVV---- 116
           PLLPGE I+  A++VTY+CP++G  RG L+VTNY+LYF+S++R+ P+V++  LGV+    
Sbjct: 80  PLLPGENIKDMAKDVTYICPFTGAVRGTLTVTNYRLYFKSMERDPPFVLDASLGVINRVE 139

Query: 117 -----------SIKLNTRSNDI--WFWLHKLKKSLEDEMLFDEVQQYAFPVSHKLCRIVS 163
                      S  L T   DI    + HK  +      +F+ + +YAFPVS+ L     
Sbjct: 140 KIGGASSRGENSYGLETVCKDIRNLRFAHK-PEGRTRRSIFENLMKYAFPVSNNLPLFA- 197

Query: 164 SIIEYTDNYFRKMGWNIMNQYAELR 188
              EY +  F + GW + +   E R
Sbjct: 198 --FEYKE-VFPENGWKLYDPLLEYR 219


>pdb|1ZSQ|A Chain A, Crystal Structure Of Mtmr2 In Complex With
           Phosphatidylinositol 3-Phosphate
 pdb|1ZVR|A Chain A, Crystal Structure Of Mtmr2 In Complex With
           Phosphatidylinositol 3,5-Bisphosphate
          Length = 528

 Score = 86.7 bits (213), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 53/145 (36%), Positives = 80/145 (55%), Gaps = 22/145 (15%)

Query: 61  PLLPGEIIQGFAREVTYLCPYSGPARGILSVTNYKLYFRSIDRETPYVVEVPLGVV---- 116
           PLLPGE I+  A++VTY+CP++G  RG L+VTNY+LYF+S++R+ P+V++  LGV+    
Sbjct: 8   PLLPGENIKDMAKDVTYICPFTGAVRGTLTVTNYRLYFKSMERDPPFVLDASLGVINRVE 67

Query: 117 -----------SIKLNTRSNDI--WFWLHKLKKSLEDEMLFDEVQQYAFPVSHKLCRIVS 163
                      S  L T   DI    + HK  +      +F+ + +YAFPVS+ L     
Sbjct: 68  KIGGASSRGENSYGLETVCKDIRNLRFAHK-PEGRTRRSIFENLMKYAFPVSNNLPLFA- 125

Query: 164 SIIEYTDNYFRKMGWNIMNQYAELR 188
              EY +  F + GW + +   E R
Sbjct: 126 --FEYKE-VFPENGWKLYDPLLEYR 147


>pdb|2TBV|A Chain A, Structure Of Tomato Bushy Stunt Virus. V. Coat Protein
           Sequence Determination And Its Structural Implications
 pdb|2TBV|B Chain B, Structure Of Tomato Bushy Stunt Virus. V. Coat Protein
           Sequence Determination And Its Structural Implications
 pdb|2TBV|C Chain C, Structure Of Tomato Bushy Stunt Virus. V. Coat Protein
           Sequence Determination And Its Structural Implications
          Length = 387

 Score = 30.0 bits (66), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 16/67 (23%), Positives = 36/67 (53%), Gaps = 1/67 (1%)

Query: 81  YSGPARGILSVTNYKLYFRSIDRETPYVVEVPLGVVSIKLNTRSNDIWFWLHKLKKSLED 140
           ++G   G ++VT+++ Y   ++  + +VV   +   S++LN  +  ++ WL  L  +  D
Sbjct: 95  FTGRTSGGVTVTSHREYLTQVNNSSGFVVNGGIVGNSLQLNPSNGTLFSWLPALASNF-D 153

Query: 141 EMLFDEV 147
           +  F+ V
Sbjct: 154 QYSFNSV 160


  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
   0.318    0.135    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,294,177
Number of Sequences: 62578
Number of extensions: 189675
Number of successful extensions: 310
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 303
Number of HSP's gapped (non-prelim): 5
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
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: 48 (23.1 bits)