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= P37299
         (77 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

6GIQ-U nrPDB                                                          158   5e-40
5B47-B nrPDB                                                           25   7.4  

>6GIQ-U nrPDB
          Length = 77

 Score =  158 bits (399), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 77/77 (100%), Positives = 77/77 (100%)

Query: 1  MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP 60
          MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP
Sbjct: 1  MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP 60

Query: 61 LLGPTLEDHTPPEDKPN 77
          LLGPTLEDHTPPEDKPN
Sbjct: 61 LLGPTLEDHTPPEDKPN 77


>5B47-B nrPDB
          Length = 304

 Score = 25.0 bits (53), Expect = 7.4,   Method: Composition-based stats.
 Identities = 11/28 (39%), Positives = 14/28 (50%)

Query: 33  WGGASMLGLFVFTEGWPKFQDTLYKKIP 60
           WG    +G+F   E  P F+D L   IP
Sbjct: 246 WGEKIPIGIFYQNELVPTFEDRLTSNIP 273


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


Results from round 2


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

6GIQ-U nrPDB                                                          155   3e-39

Sequences not found previously or not previously below threshold:


CONVERGED!
>6GIQ-U nrPDB
          Length = 77

 Score =  155 bits (393), Expect = 3e-39,   Method: Composition-based stats.
 Identities = 77/77 (100%), Positives = 77/77 (100%)

Query: 1  MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP 60
          MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP
Sbjct: 1  MAYTSHLSSKTGLHFGRLSLRSLTAYAPNLMLWGGASMLGLFVFTEGWPKFQDTLYKKIP 60

Query: 61 LLGPTLEDHTPPEDKPN 77
          LLGPTLEDHTPPEDKPN
Sbjct: 61 LLGPTLEDHTPPEDKPN 77


  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
   0.319    0.137    0.437 

Lambda     K      H
   0.267   0.0427    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,400,535
Number of Sequences: 36641
Number of extensions: 118114
Number of successful extensions: 173
Number of sequences better than 10.0: 1
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 170
Number of HSP's gapped (non-prelim): 3
length of query: 77
length of database: 10,336,785
effective HSP length: 47
effective length of query: 30
effective length of database: 8,614,658
effective search space: 258439740
effective search space used: 258439740
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)