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= P59768 (71 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 3AH8-G nrPDB 141 5e-35 5UKL-G nrPDB 127 1e-30 1GOT-G nrPDB 47 2e-06 6B20-C nrPDB 47 3e-06 6N9G-A nrPDB 33 0.027 2AZN-A nrPDB 25 5.7 5T4O-G nrPDB 25 7.7 >3AH8-G nrPDB Length = 78 Score = 141 bits (356), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 70/71 (98%), Positives = 70/71 (98%) Query: 1 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP 60 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP Sbjct: 8 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP 67 Query: 61 FREKKFFCAIL 71 FREKKFF AIL Sbjct: 68 FREKKFFSAIL 78 >5UKL-G nrPDB Length = 62 Score = 127 bits (319), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 62/62 (100%), Positives = 62/62 (100%) Query: 8 SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFF 67 SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFF Sbjct: 1 SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFF 60 Query: 68 CA 69 CA Sbjct: 61 CA 62 >1GOT-G nrPDB Length = 73 Score = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 3/62 (4%) Query: 5 NTASIAQARKL---VEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF 61 N + + KL V+QLK E ++R+ VSK + Y E + EDPL+ +P +NPF Sbjct: 12 NIEDLTEKDKLKMEVDQLKKEVTLERMLVSKCCEEFRDYVEERSGEDPLVKGIPEDKNPF 71 Query: 62 RE 63 +E Sbjct: 72 KE 73 >6B20-C nrPDB Length = 60 Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 20/48 (41%), Positives = 30/48 (62%) Query: 16 VEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFRE 63 V+QLK E ++R+ VSK + Y E + EDPL+ +P +NPF+E Sbjct: 13 VDQLKKEVTLERMLVSKCCEEFRDYVEERSGEDPLVKGIPEDKNPFKE 60 >6N9G-A nrPDB Length = 469 Score = 33.1 bits (74), Expect = 0.027, Method: Composition-based stats. Identities = 15/51 (29%), Positives = 31/51 (60%), Gaps = 1/51 (1%) Query: 11 QARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF 61 + ++ ++ +++ + R+K+SK A L++Y E + + DP L P P NP+ Sbjct: 257 ELQQQIKYWQIQLDRHRLKMSKVADSLLSYTEQYVEYDPFLAP-PDPSNPW 306 >2AZN-A nrPDB Length = 219 Score = 25.4 bits (54), Expect = 5.7, Method: Composition-based stats. Identities = 18/61 (29%), Positives = 26/61 (42%), Gaps = 11/61 (18%) Query: 4 NNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLT--PVPASENPF 61 NN + I+ L+ K+ AN+D I V K+DP LT + + NP Sbjct: 22 NNDSRISCEEDLIRVHKIRANVDGIMVGIGTV---------LKDDPRLTVHKIKSDRNPV 72 Query: 62 R 62 R Sbjct: 73 R 73 >5T4O-G nrPDB Length = 287 Score = 25.0 bits (53), Expect = 7.7, Method: Composition-based stats. Identities = 13/40 (32%), Positives = 20/40 (50%) Query: 5 NTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAH 44 NT I +A ++V KM + DR+ S+ A+ M H Sbjct: 16 NTQKITKAMEMVAASKMRKSQDRMAASRPYAETMRKVIGH 55 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: 3AH8-G nrPDB 110 1e-25 5UKL-G nrPDB 96 4e-21 1GOT-G nrPDB 84 1e-17 6B20-C nrPDB 77 1e-15 Sequences not found previously or not previously below threshold: 6N9G-A nrPDB 33 0.032 4DYS-A nrPDB 29 0.72 2I0O-A nrPDB 27 1.5 5Y6P-a8 nrPDB 26 3.6 CONVERGED! >3AH8-G nrPDB Length = 78 Score = 110 bits (276), Expect = 1e-25, Method: Composition-based stats. Identities = 70/71 (98%), Positives = 70/71 (98%) Query: 1 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP 60 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP Sbjct: 8 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENP 67 Query: 61 FREKKFFCAIL 71 FREKKFF AIL Sbjct: 68 FREKKFFSAIL 78 >5UKL-G nrPDB Length = 62 Score = 95.5 bits (236), Expect = 4e-21, Method: Composition-based stats. Identities = 62/62 (100%), Positives = 62/62 (100%) Query: 8 SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFF 67 SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFF Sbjct: 1 SIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFF 60 Query: 68 CA 69 CA Sbjct: 61 CA 62 >1GOT-G nrPDB Length = 73 Score = 84.4 bits (207), Expect = 1e-17, Method: Composition-based stats. Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 3/62 (4%) Query: 5 NTASIAQARKL---VEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF 61 N + + KL V+QLK E ++R+ VSK + Y E + EDPL+ +P +NPF Sbjct: 12 NIEDLTEKDKLKMEVDQLKKEVTLERMLVSKCCEEFRDYVEERSGEDPLVKGIPEDKNPF 71 Query: 62 RE 63 +E Sbjct: 72 KE 73 >6B20-C nrPDB Length = 60 Score = 77.4 bits (189), Expect = 1e-15, Method: Composition-based stats. Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 3/60 (5%) Query: 7 ASIAQARKL---VEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFRE 63 + + KL V+QLK E ++R+ VSK + Y E + EDPL+ +P +NPF+E Sbjct: 1 EDLTEKDKLKMEVDQLKKEVTLERMLVSKCCEEFRDYVEERSGEDPLVKGIPEDKNPFKE 60 >6N9G-A nrPDB Length = 469 Score = 32.7 bits (73), Expect = 0.032, Method: Composition-based stats. Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 4/52 (7%) Query: 13 RKLVEQLK---MEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPF 61 +L +Q+K ++ + R+K+SK A L++Y E + + DP L P P NP+ Sbjct: 256 DELQQQIKYWQIQLDRHRLKMSKVADSLLSYTEQYVEYDPFLAP-PDPSNPW 306 >4DYS-A nrPDB Length = 466 Score = 28.5 bits (62), Expect = 0.72, Method: Composition-based stats. Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 2/39 (5%) Query: 19 LKMEANIDRIKVSKAAADLMAYCEAH--AKEDPLLTPVP 55 ++ I+R+ +S Y E H A +DP T P Sbjct: 34 IQNSITIERMVLSAFDERRNKYLEEHPSAGKDPKKTGGP 72 >2I0O-A nrPDB Length = 304 Score = 27.4 bits (59), Expect = 1.5, Method: Composition-based stats. Identities = 8/41 (19%), Positives = 21/41 (51%) Query: 1 MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYC 41 +A + + + ++V+ ++ N +K+SK +L +C Sbjct: 241 LACDGIWNFMTSEQVVQFVQERINKPGMKLSKICEELFDHC 281 >5Y6P-a8 nrPDB Length = 514 Score = 26.2 bits (56), Expect = 3.6, Method: Composition-based stats. Identities = 15/51 (29%), Positives = 21/51 (41%) Query: 5 NTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVP 55 +T S + R E K E ++RIK + +E P LTP P Sbjct: 350 DTLSGVEKRPAKEIAKKEFQLERIKQLVVDLERRVAVLEAEREQPALTPEP 400 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 0.307 0.132 0.349 Lambda K H 0.267 0.0387 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 2,063,439 Number of Sequences: 36641 Number of extensions: 50710 Number of successful extensions: 142 Number of sequences better than 10.0: 10 Number of HSP's better than 10.0 without gapping: 15 Number of HSP's successfully gapped in prelim test: 3 Number of HSP's that attempted gapping in prelim test: 126 Number of HSP's gapped (non-prelim): 18 length of query: 71 length of database: 10,336,785 effective HSP length: 42 effective length of query: 29 effective length of database: 8,797,863 effective search space: 255138027 effective search space used: 255138027 T: 11 A: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.1 bits) S2: 52 (24.7 bits)