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= 033564
         (116 letters)

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

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



>pdb|3N90|A Chain A, The 1.7 Angstrom Resolution Crystal Structure Of
           At2g44920, A Pentapeptide Repeat Protein From
           Arabidopsis Thaliana Thylakoid Lumen
          Length = 152

 Score =  123 bits (309), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 60/68 (88%), Positives = 62/68 (91%)

Query: 49  NVTKANLSNANLEGALATGNTSFRGSNITGADFTDVPLRDDQREYLCKVADGVNPTTGNA 108
           NVTK NL+NANLEGA   GNTSF+GSNITGADFTDVPLRDDQR YLCKVADGVN TTGNA
Sbjct: 77  NVTKVNLTNANLEGATMMGNTSFKGSNITGADFTDVPLRDDQRVYLCKVADGVNATTGNA 136

Query: 109 TRDTLLCN 116
           TRDTLLCN
Sbjct: 137 TRDTLLCN 144


>pdb|2F3L|A Chain A, Crystal Structure Of A Lumenal Rfr-Domain Protein
           (Contig83.1_1_243_746) From Cyanothece Sp. 51142 At 2.1
           Angstrom Resolution
          Length = 184

 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 39/64 (60%), Gaps = 1/64 (1%)

Query: 53  ANLSNANLEGALATGNTSFRGSNITGADFTDVPLRDDQREYLCKVADGVNPTTGNATRDT 112
           A+L+NA L  A+    T F  + ITGADF+   L   + + LC  ADGVNP TG +TR++
Sbjct: 122 ADLTNAVLTEAIXX-RTKFDDAKITGADFSLAVLDVYEVDKLCDRADGVNPKTGVSTRES 180

Query: 113 LLCN 116
           L C 
Sbjct: 181 LRCQ 184


>pdb|2G0Y|A Chain A, Crystal Structure Of A Lumenal Pentapeptide Repeat Protein
           From Cyanothece Sp 51142 At 2.3 Angstrom Resolution.
           Tetragonal Crystal Form
          Length = 184

 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 39/64 (60%), Gaps = 1/64 (1%)

Query: 53  ANLSNANLEGALATGNTSFRGSNITGADFTDVPLRDDQREYLCKVADGVNPTTGNATRDT 112
           A+L+NA L  A+    T F  + ITGADF+   L   + + LC  ADGVNP TG +TR++
Sbjct: 122 ADLTNAVLTEAIMM-RTKFDDAKITGADFSLAVLDVYEVDKLCDRADGVNPKTGVSTRES 180

Query: 113 LLCN 116
           L C 
Sbjct: 181 LRCQ 184


>pdb|2O6W|A Chain A, Crystal Structure Of A Pentapeptide Repeat Protein (Rfr23)
           From The Cyanobacterium Cyanothece 51142
          Length = 150

 Score = 29.3 bits (64), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 1/39 (2%)

Query: 49  NVTKANLSNANLEGALATGNTSFRGSNITGADFTDVPLR 87
           N+  ANL NANL+GA    N + RG+ +TG +  +  L+
Sbjct: 102 NLQGANLENANLQGA-NLENANLRGAILTGVNLEETHLK 139


>pdb|1DX5|I Chain I, Crystal Structure Of The Thrombin-Thrombomodulin Complex
 pdb|1DX5|J Chain J, Crystal Structure Of The Thrombin-Thrombomodulin Complex
 pdb|1DX5|K Chain K, Crystal Structure Of The Thrombin-Thrombomodulin Complex
 pdb|1DX5|L Chain L, Crystal Structure Of The Thrombin-Thrombomodulin Complex
          Length = 118

 Score = 26.2 bits (56), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 13/28 (46%)

Query: 89  DQREYLCKVADGVNPTTGNATRDTLLCN 116
           DQ  YLC  A+G  P      R  + CN
Sbjct: 20  DQTSYLCVCAEGFAPIPHEPHRCQMFCN 47


  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
   0.319    0.134    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,884,333
Number of Sequences: 62578
Number of extensions: 88870
Number of successful extensions: 138
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 127
Number of HSP's gapped (non-prelim): 9
length of query: 116
length of database: 14,973,337
effective HSP length: 79
effective length of query: 37
effective length of database: 10,029,675
effective search space: 371097975
effective search space used: 371097975
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)