BLASTP 2.2.23 [Feb-03-2010]


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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= P21306
         (62 letters)

Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta 
           36,641 sequences; 10,336,785 total letters

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


Results from round 1


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

2HLD-I nrPDB                                                          123   2e-29
5LQZ-I nrPDB                                                           39   6e-04
6F5D-I nrPDB                                                           34   0.012

>2HLD-I nrPDB
          Length = 61

 Score =  123 bits (308), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 2  SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTPIT 61
          SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTPIT
Sbjct: 1  SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTPIT 60

Query: 62 K 62
          K
Sbjct: 61 K 61


>5LQZ-I nrPDB
          Length = 63

 Score = 38.5 bits (88), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/54 (38%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 2  SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAAS 55
          S+W+KAGIS+  YL +AA+ ++ SLK +L+ A+   R  +DA   + + G   S
Sbjct: 1  SSWQKAGISFNKYLAIAARTVQRSLKNDLKVAAE-KRYISDAKVQKLEKGNVVS 53


>6F5D-I nrPDB
          Length = 66

 Score = 34.3 bits (77), Expect = 0.012,   Method: Compositional matrix adjust.
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 2  SAWRKAGISYAAYLNVAAQAIRSSLK 27
          S+WR  GISY  YLNV  + + S++K
Sbjct: 2  SSWRDHGISYLKYLNVCTETLHSTVK 27


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


Results from round 2


                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value
Sequences used in model and found again:

2HLD-I nrPDB                                                           75   6e-15
5LQZ-I nrPDB                                                           61   1e-10

Sequences not found previously or not previously below threshold:

6F5D-I nrPDB                                                           32   0.059
1Z6T-A nrPDB                                                           28   0.88 
1CWW-A nrPDB                                                           27   1.2  


CONVERGED!
>2HLD-I nrPDB
          Length = 61

 Score = 75.2 bits (183), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 2  SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTPIT 61
          SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTPIT
Sbjct: 1  SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPTPIT 60

Query: 62 K 62
          K
Sbjct: 61 K 61


>5LQZ-I nrPDB
          Length = 63

 Score = 60.6 bits (145), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 21/54 (38%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 2  SAWRKAGISYAAYLNVAAQAIRSSLKTELQTASVLNRSQTDAFYTQYKNGTAAS 55
          S+W+KAGIS+  YL +AA+ ++ SLK +L+ A+   R  +DA   + + G   S
Sbjct: 1  SSWQKAGISFNKYLAIAARTVQRSLKNDLKVAAE-KRYISDAKVQKLEKGNVVS 53


>6F5D-I nrPDB
          Length = 66

 Score = 32.1 bits (71), Expect = 0.059,   Method: Composition-based stats.
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 2  SAWRKAGISYAAYLNVAAQAIRSSLK 27
          S+WR  GISY  YLNV  + + S++K
Sbjct: 2  SSWRDHGISYLKYLNVCTETLHSTVK 27


>1Z6T-A nrPDB
          Length = 591

 Score = 28.2 bits (61), Expect = 0.88,   Method: Composition-based stats.
 Identities = 9/36 (25%), Positives = 21/36 (58%)

Query: 23 RSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPT 58
          R +L+ +++T+ +++   +D F T  +     +EPT
Sbjct: 13 REALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPT 48


>1CWW-A nrPDB
          Length = 102

 Score = 27.5 bits (59), Expect = 1.2,   Method: Composition-based stats.
 Identities = 9/36 (25%), Positives = 21/36 (58%)

Query: 23 RSSLKTELQTASVLNRSQTDAFYTQYKNGTAASEPT 58
          R +L+ +++T+ +++   +D F T  +     +EPT
Sbjct: 18 REALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPT 53


  Database: ../databases/nrPDB-GO_2019.06.18_sequences.fasta
    Posted date:  Jan 3, 2023  9:05 PM
  Number of letters in database: 10,336,785
  Number of sequences in database:  36,641
  
Lambda     K      H
   0.312    0.122    0.318 

Lambda     K      H
   0.267   0.0382    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,852,981
Number of Sequences: 36641
Number of extensions: 35894
Number of successful extensions: 90
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 79
Number of HSP's gapped (non-prelim): 10
length of query: 62
length of database: 10,336,785
effective HSP length: 34
effective length of query: 28
effective length of database: 9,090,991
effective search space: 254547748
effective search space used: 254547748
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.7 bits)