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= Q3E7B6
         (73 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

5VOY-c nrPDB                                                          149   4e-37
1QNO-A nrPDB                                                           26   3.6  
6O84-A nrPDB                                                           25   8.5  

>5VOY-c nrPDB
          Length = 73

 Score =  149 bits (375), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 73/73 (100%), Positives = 73/73 (100%)

Query: 1  MSSFYTVVGVFIVVSAMSVLFWIMAPKNNQAVWRSTVILTLAMMFLMWAITFLCQLHPLV 60
          MSSFYTVVGVFIVVSAMSVLFWIMAPKNNQAVWRSTVILTLAMMFLMWAITFLCQLHPLV
Sbjct: 1  MSSFYTVVGVFIVVSAMSVLFWIMAPKNNQAVWRSTVILTLAMMFLMWAITFLCQLHPLV 60

Query: 61 APRRSDLRPEFAE 73
          APRRSDLRPEFAE
Sbjct: 61 APRRSDLRPEFAE 73


>1QNO-A nrPDB
          Length = 344

 Score = 26.2 bits (56), Expect = 3.6,   Method: Composition-based stats.
 Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 3/30 (10%)

Query: 26  PKNNQAVWRSTVILTLAM---MFLMWAITF 52
           P  N+A W++T + T  M   MF  W  TF
Sbjct: 283 PCTNEAPWQTTSLTTRGMGGDMFWQWGDTF 312


>6O84-A nrPDB
          Length = 690

 Score = 25.0 bits (53), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 5/48 (10%)

Query: 4   FYTVVGVFIVVSAMSVLFWIMAP---KNNQAVWRSTVILTLAMMFLMW 48
           F+++  VF  VS  +VL W+      + + +V R  ++LTLA   L+W
Sbjct: 221 FFSIEIVF--VSVQTVLLWVSCKDCVQMHHSVTRYGIMLTLATDILLW 266


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


Results from round 2


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

5VOY-c nrPDB                                                          117   8e-28

Sequences not found previously or not previously below threshold:

6O84-A nrPDB                                                           25   5.1  
1QNO-A nrPDB                                                           25   6.8  


CONVERGED!
>5VOY-c nrPDB
          Length = 73

 Score =  117 bits (294), Expect = 8e-28,   Method: Composition-based stats.
 Identities = 73/73 (100%), Positives = 73/73 (100%)

Query: 1  MSSFYTVVGVFIVVSAMSVLFWIMAPKNNQAVWRSTVILTLAMMFLMWAITFLCQLHPLV 60
          MSSFYTVVGVFIVVSAMSVLFWIMAPKNNQAVWRSTVILTLAMMFLMWAITFLCQLHPLV
Sbjct: 1  MSSFYTVVGVFIVVSAMSVLFWIMAPKNNQAVWRSTVILTLAMMFLMWAITFLCQLHPLV 60

Query: 61 APRRSDLRPEFAE 73
          APRRSDLRPEFAE
Sbjct: 61 APRRSDLRPEFAE 73


>6O84-A nrPDB
          Length = 690

 Score = 25.4 bits (54), Expect = 5.1,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 5/48 (10%)

Query: 4   FYTVVGVFIVVSAMSVLFWIMAP---KNNQAVWRSTVILTLAMMFLMW 48
           F+++  VF  VS  +VL W+      + + +V R  ++LTLA   L+W
Sbjct: 221 FFSIEIVF--VSVQTVLLWVSCKDCVQMHHSVTRYGIMLTLATDILLW 266


>1QNO-A nrPDB
          Length = 344

 Score = 25.0 bits (53), Expect = 6.8,   Method: Composition-based stats.
 Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 3/30 (10%)

Query: 26  PKNNQAVWRSTVILTLAM---MFLMWAITF 52
           P  N+A W++T + T  M   MF  W  TF
Sbjct: 283 PCTNEAPWQTTSLTTRGMGGDMFWQWGDTF 312


  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    0.137    0.443 

Lambda     K      H
   0.267   0.0444    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,398,526
Number of Sequences: 36641
Number of extensions: 114421
Number of successful extensions: 341
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 335
Number of HSP's gapped (non-prelim): 18
length of query: 73
length of database: 10,336,785
effective HSP length: 44
effective length of query: 29
effective length of database: 8,724,581
effective search space: 253012849
effective search space used: 253012849
T: 11
A: 40
X1: 16 ( 7.7 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 53 (24.9 bits)