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= 044908
         (275 letters)

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

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



>pdb|3A2E|A Chain A, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|B Chain B, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|C Chain C, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|D Chain D, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
          Length = 108

 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/107 (28%), Positives = 53/107 (49%), Gaps = 7/107 (6%)

Query: 10  LVYKNCSSQTLAGSNESHSKSLHSLFQELVPQSSKS----KFFKATAGDDPSAAVSGFFQ 65
            V   C++Q +  S    +++L ++  +L   ++ S    K  +A +G  P+A   G   
Sbjct: 5   FVSSACNTQKIP-SGSPFNRNLRAMLADLRQNTAFSGYDYKTSRAGSGGAPTA--YGRAT 61

Query: 66  CRGDLSNKDCFDCVNTLPDLSNSLCNKAVAGRIQLHGCYFYYETDEF 112
           C+  +S  DC  C++ L +   S+CN A+  R+QL  C+  YE   F
Sbjct: 62  CKQSISQSDCTACLSNLVNRIFSICNNAIGARVQLVDCFIQYEQRSF 108



 Score = 33.1 bits (74), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 25/54 (46%)

Query: 160 SGDYESVHAMAQCEGDLIDCDCGECVSNAVQIAQEECVGSVSGQIYLDRCFISY 213
           SG   + +  A C+  +   DC  C+SN V      C  ++  ++ L  CFI Y
Sbjct: 50  SGGAPTAYGRATCKQSISQSDCTACLSNLVNRIFSICNNAIGARVQLVDCFIQY 103


>pdb|3DEG|C Chain C, Complex Of Elongating Escherichia Coli 70s Ribosome And
           Ef4(Lepa)- Gmppnp
          Length = 545

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%)

Query: 146 ETMESGVIDGKGFYSGDYESVHAMAQCEGDLIDCDCGECV 185
           ET +   ID  G     YE   ++A CEG L+  D G+ V
Sbjct: 69  ETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGV 108


>pdb|3CB4|D Chain D, The Crystal Structure Of Lepa
 pdb|3CB4|A Chain A, The Crystal Structure Of Lepa
 pdb|3CB4|B Chain B, The Crystal Structure Of Lepa
 pdb|3CB4|C Chain C, The Crystal Structure Of Lepa
 pdb|3CB4|E Chain E, The Crystal Structure Of Lepa
 pdb|3CB4|F Chain F, The Crystal Structure Of Lepa
          Length = 599

 Score = 29.3 bits (64), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%)

Query: 146 ETMESGVIDGKGFYSGDYESVHAMAQCEGDLIDCDCGECV 185
           ET +   ID  G     YE   ++A CEG L+  D G+ V
Sbjct: 69  ETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGV 108


>pdb|1A0J|A Chain A, Crystal Structure Of A Non-Psychrophilic Trypsin From A
           Cold-Adapted Fish Species.
 pdb|1A0J|B Chain B, Crystal Structure Of A Non-Psychrophilic Trypsin From A
           Cold-Adapted Fish Species.
 pdb|1A0J|C Chain C, Crystal Structure Of A Non-Psychrophilic Trypsin From A
           Cold-Adapted Fish Species.
 pdb|1A0J|D Chain D, Crystal Structure Of A Non-Psychrophilic Trypsin From A
           Cold-Adapted Fish Species
          Length = 223

 Score = 27.3 bits (59), Expect = 9.8,   Method: Compositional matrix adjust.
 Identities = 18/40 (45%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 60  VSGFFQCRGDLSN-KDCFDCVNTLPDLSNSLCNKAVAGRI 98
           VSG+    G  SN  D   C++ LP LS+S CN A  G+I
Sbjct: 118 VSGWGNLSGSSSNYPDTLRCLD-LPILSSSSCNSAYPGQI 156


  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    0.133    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,350,166
Number of Sequences: 62578
Number of extensions: 279588
Number of successful extensions: 436
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 432
Number of HSP's gapped (non-prelim): 5
length of query: 275
length of database: 14,973,337
effective HSP length: 97
effective length of query: 178
effective length of database: 8,903,271
effective search space: 1584782238
effective search space used: 1584782238
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: 51 (24.3 bits)