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= 047772
         (498 letters)

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

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



>pdb|2L0E|A Chain A, Structural And Functional Analysis Of Tm Vi Of The Nhe1
           Isoform Of The Na+H+ EXCHANGER
          Length = 33

 Score = 35.8 bits (81), Expect = 0.055,   Method: Composition-based stats.
 Identities = 13/22 (59%), Positives = 20/22 (90%)

Query: 159 LMFGALISATDPVTVLSIFQEL 180
           L+FG++ISA DPV VL++F+E+
Sbjct: 7   LLFGSIISAVDPVAVLAVFEEI 28


>pdb|1DYK|A Chain A, Laminin Alpha 2 Chain Lg4-5 Domain Pair
          Length = 394

 Score = 33.1 bits (74), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 52/107 (48%), Gaps = 16/107 (14%)

Query: 154 PF-VECLMFGALISATDPVTVLSIFQELGTDMNLY-ALVFGESVLNDAMAISLYRTMSLV 211
           PF V  ++ G  ++ ++P  +L+  ++ G   N + A+ F ++ + + + I L      V
Sbjct: 12  PFPVPTMVHGPCVAESEPA-LLTGSKQFGLSRNSHIAIAFDDTKVKNRLTIELE-----V 65

Query: 212 RSHASSGQNFFMVIVRFLETFVGSILQNLECCLFVLFPYFSYMLAEG 258
           R+ A SG  F+M  +   + F    L+N        FPYFSY L  G
Sbjct: 66  RTEAESGLLFYMARINHAD-FATVQLRNG-------FPYFSYDLGSG 104


>pdb|1OKQ|A Chain A, Laminin Alpha 2 Chain Lg4-5 Domain Pair, Ca1 Site Mutant
          Length = 394

 Score = 32.0 bits (71), Expect = 0.84,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 51/107 (47%), Gaps = 16/107 (14%)

Query: 154 PF-VECLMFGALISATDPVTVLSIFQELGTDMNLY-ALVFGESVLNDAMAISLYRTMSLV 211
           PF V  ++ G  ++ ++P  +L+  ++ G   N + A+ F ++ + + + I L      V
Sbjct: 12  PFPVPTMVHGPCVAESEPA-LLTGSKQFGLSRNSHIAIAFDDTKVKNRLTIELE-----V 65

Query: 212 RSHASSGQNFFMVIVRFLETFVGSILQNLECCLFVLFPYFSYMLAEG 258
           R+ A SG  F+M  +     F    L+N        FPYFSY L  G
Sbjct: 66  RTEAESGLLFYMARINH-AAFATVQLRNG-------FPYFSYDLGSG 104


>pdb|2HTG|A Chain A, Structural And Functional Characterization Of Tm Vii Of
           The Nhe1 Isoform Of The Na+H+ EXCHANGER
          Length = 28

 Score = 30.8 bits (68), Expect = 1.9,   Method: Composition-based stats.
 Identities = 13/21 (61%), Positives = 18/21 (85%)

Query: 186 LYALVFGESVLNDAMAISLYR 206
           L+ LVFGES+LNDA+ + LY+
Sbjct: 6   LHILVFGESLLNDAVTVVLYK 26


>pdb|2PBL|A Chain A, Crystal Structure Of A Putative Thioesterase (Tm1040_2492)
           From Silicibacter Sp. Tm1040 At 1.79 A Resolution
 pdb|2PBL|B Chain B, Crystal Structure Of A Putative Thioesterase (Tm1040_2492)
           From Silicibacter Sp. Tm1040 At 1.79 A Resolution
 pdb|2PBL|C Chain C, Crystal Structure Of A Putative Thioesterase (Tm1040_2492)
           From Silicibacter Sp. Tm1040 At 1.79 A Resolution
 pdb|2PBL|D Chain D, Crystal Structure Of A Putative Thioesterase (Tm1040_2492)
           From Silicibacter Sp. Tm1040 At 1.79 A Resolution
          Length = 262

 Score = 28.5 bits (62), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 11/20 (55%), Positives = 15/20 (75%)

Query: 304 FVFIYMGFDIAMEKHSWSHL 323
           FVF++ G+  A +K SWSHL
Sbjct: 66  FVFVHGGYWXAFDKSSWSHL 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
   0.326    0.139    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,511,685
Number of Sequences: 62578
Number of extensions: 452644
Number of successful extensions: 913
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: 910
Number of HSP's gapped (non-prelim): 5
length of query: 498
length of database: 14,973,337
effective HSP length: 103
effective length of query: 395
effective length of database: 8,527,803
effective search space: 3368482185
effective search space used: 3368482185
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)