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= 034823
         (82 letters)

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

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



>pdb|1AYJ|A Chain A, Determination Of The Three-Dimensional Solution
          Structure Of Raphanus Sativus Antifungal Protein 1
          (Rs-Afp1) By 1h Nmr, 20 Structures
          Length = 51

 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 27/50 (54%)

Query: 33 KQCSKRAQKWTGPCIKTGSCRNHCRKREGAVDGACHYDFPGFACFCYYNC 82
          K C + +  W+G C    +C+N C   E A  G+C+Y FP   C CY+ C
Sbjct: 2  KLCERPSGTWSGVCGNNNACKNQCINLEKARHGSCNYVFPAHKCICYFPC 51


>pdb|1BK8|A Chain A, Determination Of The Three-Dimensional Solution
          Structure Of Aesculus Hippocastanum Antimicrobial
          Protein 1 (Ah- Amp1) By 1h Nmr, 25 Structures
          Length = 50

 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 1/49 (2%)

Query: 35 CSKR-AQKWTGPCIKTGSCRNHCRKREGAVDGACHYDFPGFACFCYYNC 82
          C++R +Q W+G C  T  C   C+  E A  GACH     + CFCY+NC
Sbjct: 2  CNERPSQTWSGNCGNTAHCDKQCQDWEKASHGACHKRENHWKCFCYFNC 50


>pdb|2GL1|A Chain A, Nmr Solution Structure Of Vigna Radiata Defensin 2
          (Vrd2)
          Length = 47

 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/50 (42%), Positives = 26/50 (52%), Gaps = 3/50 (6%)

Query: 33 KQCSKRAQKWTGPCIKTGSCRNHCRKREGAVDGACHYDFPGFACFCYYNC 82
          K C   A  + GPC  TGSC +HC+ +E    G C  D   F C+C  NC
Sbjct: 1  KTCENLANTYRGPCFTTGSCDDHCKNKEHLRSGRCRDD---FRCWCTRNC 47


>pdb|3PSM|A Chain A, .98a Crystal Structure Of A Dimeric Plant Defensin Spe10
 pdb|3PSM|B Chain B, .98a Crystal Structure Of A Dimeric Plant Defensin Spe10
          Length = 47

 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)

Query: 33 KQCSKRAQKWTGPCIKTGSCRNHCRKREGAVDGACHYDFPGFACFCYYNC 82
          K C   A  + GPC   GSC +HC+ +E  + G C  D   F C+C  NC
Sbjct: 1  KTCENLADTFRGPCFTDGSCDDHCKNKEHLIKGRCRDD---FRCWCTRNC 47


>pdb|2LJ7|A Chain A, 3d Solution Structure Of Plant Defensin Lc-Def
          Length = 47

 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 3/50 (6%)

Query: 33 KQCSKRAQKWTGPCIKTGSCRNHCRKREGAVDGACHYDFPGFACFCYYNC 82
          K C   +  + GPCI  G+C  HC+++E  + G C  D   F C+C  NC
Sbjct: 1  KTCENLSDSFKGPCIPDGNCNKHCKEKEHLLSGRCRDD---FRCWCTRNC 47


>pdb|1JKZ|A Chain A, Nmr Solution Structure Of Pisum Sativum Defensin 1
          (Psd1)
          Length = 46

 Score = 35.4 bits (80), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 4/50 (8%)

Query: 33 KQCSKRAQKWTGPCIKTGSCRNHCRKREGAVDGACHYDFPGFACFCYYNC 82
          K C   A  + G C    SC +HC+ +   + G CH     + CFC  NC
Sbjct: 1  KTCEHLADTYRGVCFTNASCDDHCKNKAHLISGTCH----NWKCFCTQNC 46


  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
   0.325    0.134    0.472 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,000,564
Number of Sequences: 62578
Number of extensions: 58215
Number of successful extensions: 125
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 117
Number of HSP's gapped (non-prelim): 17
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)