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= P40422 (70 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 6CND-L nrPDB 142 2e-35 6J51-L nrPDB 86 3e-18 5U0S-l nrPDB 66 4e-12 6GMH-I nrPDB 25 7.0 >6CND-L nrPDB Length = 70 Score = 142 bits (359), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 70/70 (100%), Positives = 70/70 (100%) Query: 1 MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR 60 MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR Sbjct: 1 MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR 60 Query: 61 TKRLVQFEAR 70 TKRLVQFEAR Sbjct: 61 TKRLVQFEAR 70 >6J51-L nrPDB Length = 72 Score = 86.3 bits (212), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 38/72 (52%), Positives = 53/72 (73%), Gaps = 2/72 (2%) Query: 1 MSREGFQIP--TNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLK 58 MSREGF P T+L AAA+G + + +KY C C+ SL+++D VRCK+CGHR++ K Sbjct: 1 MSREGFVAPSGTDLAAAASGVAPNKHYGVKYTCGACAHNFSLNKSDPVRCKECGHRVIYK 60 Query: 59 ARTKRLVQFEAR 70 ARTKR++QF+AR Sbjct: 61 ARTKRMIQFDAR 72 >5U0S-l nrPDB Length = 63 Score = 65.9 bits (159), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 27/62 (43%), Positives = 43/62 (69%), Gaps = 2/62 (3%) Query: 11 NLDAAAAGT--SQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFE 68 N + GT + R AT+ Y+CA+C ++ ++ + +RC++CGHR++ K RTKR+VQFE Sbjct: 2 NHPTSTGGTAFNPPRPATMIYLCADCGARNTIQAKEVIRCRECGHRVMYKMRTKRMVQFE 61 Query: 69 AR 70 AR Sbjct: 62 AR 63 >6GMH-I nrPDB Length = 125 Score = 25.0 bits (53), Expect = 7.0, Method: Compositional matrix adjust. Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 2/39 (5%) Query: 27 LKYICAECSSKLSLSRTDAVRCKDCGHR--ILLKARTKR 63 L I A+ S +L RT+ C+ CGH+ + ++ + R Sbjct: 65 LTQIIADVSQDPTLPRTEDHPCQKCGHKEAVFFQSHSAR 103 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: 6J51-L nrPDB 107 8e-25 6CND-L nrPDB 103 1e-23 5U0S-l nrPDB 89 4e-19 Sequences not found previously or not previously below threshold: 3UEY-A nrPDB 25 6.3 1DGS-A nrPDB 25 9.9 CONVERGED! >6J51-L nrPDB Length = 72 Score = 107 bits (268), Expect = 8e-25, Method: Composition-based stats. Identities = 38/72 (52%), Positives = 53/72 (73%), Gaps = 2/72 (2%) Query: 1 MSREGFQIP--TNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLK 58 MSREGF P T+L AAA+G + + +KY C C+ SL+++D VRCK+CGHR++ K Sbjct: 1 MSREGFVAPSGTDLAAAASGVAPNKHYGVKYTCGACAHNFSLNKSDPVRCKECGHRVIYK 60 Query: 59 ARTKRLVQFEAR 70 ARTKR++QF+AR Sbjct: 61 ARTKRMIQFDAR 72 >6CND-L nrPDB Length = 70 Score = 103 bits (257), Expect = 1e-23, Method: Composition-based stats. Identities = 70/70 (100%), Positives = 70/70 (100%) Query: 1 MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR 60 MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR Sbjct: 1 MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR 60 Query: 61 TKRLVQFEAR 70 TKRLVQFEAR Sbjct: 61 TKRLVQFEAR 70 >5U0S-l nrPDB Length = 63 Score = 89.0 bits (219), Expect = 4e-19, Method: Composition-based stats. Identities = 27/62 (43%), Positives = 43/62 (69%), Gaps = 2/62 (3%) Query: 11 NLDAAAAGT--SQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFE 68 N + GT + R AT+ Y+CA+C ++ ++ + +RC++CGHR++ K RTKR+VQFE Sbjct: 2 NHPTSTGGTAFNPPRPATMIYLCADCGARNTIQAKEVIRCRECGHRVMYKMRTKRMVQFE 61 Query: 69 AR 70 AR Sbjct: 62 AR 63 >3UEY-A nrPDB Length = 65 Score = 25.4 bits (54), Expect = 6.3, Method: Composition-based stats. Identities = 11/32 (34%), Positives = 15/32 (46%) Query: 31 CAECSSKLSLSRTDAVRCKDCGHRILLKARTK 62 C C S L ++C+DCG + K R K Sbjct: 23 CDHCGSLLWGLVKQGLKCEDCGMNVHHKCREK 54 >1DGS-A nrPDB Length = 667 Score = 24.7 bits (52), Expect = 9.9, Method: Composition-based stats. Identities = 7/26 (26%), Positives = 14/26 (53%), Gaps = 4/26 (15%) Query: 42 RTDAVR----CKDCGHRILLKARTKR 63 + +R C +CGHR++ + + R Sbjct: 396 KERPIRWPEACPECGHRLVKEGKVHR 421 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 0.314 0.131 0.395 Lambda K H 0.267 0.0399 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 2,424,587 Number of Sequences: 36641 Number of extensions: 61794 Number of successful extensions: 249 Number of sequences better than 10.0: 16 Number of HSP's better than 10.0 without gapping: 18 Number of HSP's successfully gapped in prelim test: 6 Number of HSP's that attempted gapping in prelim test: 225 Number of HSP's gapped (non-prelim): 26 length of query: 70 length of database: 10,336,785 effective HSP length: 41 effective length of query: 29 effective length of database: 8,834,504 effective search space: 256200616 effective search space used: 256200616 T: 11 A: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.1 bits) S2: 52 (24.7 bits)