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= P11350
         (225 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

1SIW-C nrPDB                                                          457   e-129
2D4A-B nrPDB                                                           32   0.15 

>1SIW-C nrPDB
          Length = 225

 Score =  457 bits (1175), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 225/225 (100%), Positives = 225/225 (100%)

Query: 1   MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGIL 60
           MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGIL
Sbjct: 1   MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGIL 60

Query: 61  GIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRA 120
           GIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRA
Sbjct: 61  GIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRA 120

Query: 121 TTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGV 180
           TTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGV
Sbjct: 121 TTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGV 180

Query: 181 AFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH 225
           AFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH
Sbjct: 181 AFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH 225


>2D4A-B nrPDB
          Length = 308

 Score = 32.3 bits (72), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 174 SQHLDGVAFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQL 220
           SQ L GV+F     +VLGM    +FP  RL  +  VP+E+L  K ++
Sbjct: 154 SQKL-GVSFKSVNAIVLGMHGQKMFPVPRLSSVGGVPLEHLMSKEEI 199


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


Results from round 2


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

1SIW-C nrPDB                                                          419   e-118

Sequences not found previously or not previously below threshold:

2D4A-B nrPDB                                                           29   2.1  


CONVERGED!
>1SIW-C nrPDB
          Length = 225

 Score =  419 bits (1077), Expect = e-118,   Method: Composition-based stats.
 Identities = 225/225 (100%), Positives = 225/225 (100%)

Query: 1   MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGIL 60
           MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGIL
Sbjct: 1   MQFLNMFFFDIYPYIAGAVFLIGSWLRYDYGQYTWRAASSQMLDRKGMNLASNLFHIGIL 60

Query: 61  GIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRA 120
           GIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRA
Sbjct: 61  GIFVGHFFGMLTPHWMYEAWLPIEVKQKMAMFAGGASGVLCLIGGVLLLKRRLFSPRVRA 120

Query: 121 TTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGV 180
           TTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGV
Sbjct: 121 TTTGADILILSLLVIQCALGLLTIPFSAQHMDGSEMMKLVGWAQSVVTFHGGASQHLDGV 180

Query: 181 AFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH 225
           AFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH
Sbjct: 181 AFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQLVRARH 225


>2D4A-B nrPDB
          Length = 308

 Score = 28.8 bits (63), Expect = 2.1,   Method: Composition-based stats.
 Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)

Query: 174 SQHLDGVAFIFRLHLVLGMTLFLLFPFSRLIHIWSVPVEYLTRKYQL 220
           SQ L GV+F     +VLGM    +FP  RL  +  VP+E+L  K ++
Sbjct: 154 SQKL-GVSFKSVNAIVLGMHGQKMFPVPRLSSVGGVPLEHLMSKEEI 199


  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
   0.333    0.145    0.467 

Lambda     K      H
   0.267   0.0469    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,734,095
Number of Sequences: 36641
Number of extensions: 570782
Number of successful extensions: 1323
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1313
Number of HSP's gapped (non-prelim): 15
length of query: 225
length of database: 10,336,785
effective HSP length: 94
effective length of query: 131
effective length of database: 6,892,531
effective search space: 902921561
effective search space used: 902921561
T: 11
A: 40
X1: 16 ( 7.7 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 58 (26.8 bits)