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= P52870 (82 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 6N3Q-B nrPDB 164 6e-42 2WW9-C nrPDB 91 1e-19 2WWB-C nrPDB 40 2e-04 2IVF-A nrPDB 28 0.65 3RP9-A nrPDB 26 3.1 5Y0V-A nrPDB 25 6.3 5FGN-A nrPDB 25 7.0 5A2O-A nrPDB 25 8.3 >6N3Q-B nrPDB Length = 82 Score = 164 bits (416), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 82/82 (100%), Positives = 82/82 (100%) Query: 1 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL 60 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL Sbjct: 1 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL 60 Query: 61 AVGFIFSVVALHVISKVAGKLF 82 AVGFIFSVVALHVISKVAGKLF Sbjct: 61 AVGFIFSVVALHVISKVAGKLF 82 >2WW9-C nrPDB Length = 87 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 46/83 (55%), Positives = 59/83 (71%), Gaps = 7/83 (8%) Query: 1 MSSPTPPGGQRTLQKRKQGSS--QKVAASAPKKNTN-----SNNSILKIYSDEATGLRVD 53 M++ PPGGQR LQKR+Q S +K A P S++SILK+Y+DEA G RVD Sbjct: 1 MAASVPPGGQRILQKRRQAQSIKEKQAKQTPTSTRQAGYGGSSSSILKLYTDEANGFRVD 60 Query: 54 PLVVLFLAVGFIFSVVALHVISK 76 LVVLFL+VGFIFSV+ALH+++K Sbjct: 61 SLVVLFLSVGFIFSVIALHLLTK 83 >2WWB-C nrPDB Length = 96 Score = 40.0 bits (92), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 2/65 (3%) Query: 12 TLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFLAVGFIFSVVAL 71 T+++RK S SA + + + + Y++++ GL+V P+ VL +++ FI SV L Sbjct: 30 TVRQRKNASCG--TRSAGRTTSAGTGGMWRFYTEDSPGLKVGPVPVLVMSLLFIASVFML 87 Query: 72 HVISK 76 H+ K Sbjct: 88 HIWGK 92 >2IVF-A nrPDB Length = 976 Score = 28.5 bits (62), Expect = 0.65, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 1/64 (1%) Query: 1 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL 60 MS PT GG L + +G +++ + P N A GL V P + L+ Sbjct: 494 MSKPTAQGGMDELHQMAEGFNKRTLEADPTSTDEMGNIEFMKVVTSAVGL-VPPAMWLYY 552 Query: 61 AVGF 64 VG+ Sbjct: 553 HVGY 556 >3RP9-A nrPDB Length = 458 Score = 26.2 bits (56), Expect = 3.1, Method: Composition-based stats. Identities = 12/30 (40%), Positives = 18/30 (60%) Query: 5 TPPGGQRTLQKRKQGSSQKVAASAPKKNTN 34 T G Q+ Q+RKQ S K AS P+ +++ Sbjct: 19 TVSGSQQEGQQRKQHHSSKPTASMPRPHSD 48 >5Y0V-A nrPDB Length = 578 Score = 25.4 bits (54), Expect = 6.3, Method: Composition-based stats. Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 3/40 (7%) Query: 18 QGSSQKVAASAPKK---NTNSNNSILKIYSDEATGLRVDP 54 +GS+ K+ A N N N + DE+ GLRV P Sbjct: 96 RGSTPKLTGKAVDVYLVNENPNEKAFSLEMDESYGLRVSP 135 >5FGN-A nrPDB Length = 550 Score = 25.0 bits (53), Expect = 7.0, Method: Composition-based stats. Identities = 11/22 (50%), Positives = 14/22 (63%) Query: 56 VVLFLAVGFIFSVVALHVISKV 77 VVLF F+F V+AL + KV Sbjct: 55 VVLFFLSNFVFHVIALPFVHKV 76 >5A2O-A nrPDB Length = 590 Score = 25.0 bits (53), Expect = 8.3, Method: Composition-based stats. Identities = 11/26 (42%), Positives = 17/26 (65%) Query: 55 LVVLFLAVGFIFSVVALHVISKVAGK 80 L++ LA+GF FS V + ++ K GK Sbjct: 502 LLLSTLALGFFFSSVLVTIVEKFTGK 527 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: 6N3Q-B nrPDB 129 4e-31 2WW9-C nrPDB 106 3e-24 2WWB-C nrPDB 90 2e-19 Sequences not found previously or not previously below threshold: 3J92-1 nrPDB 56 4e-09 6B1T-X nrPDB 26 3.9 3RP9-A nrPDB 26 4.3 >6N3Q-B nrPDB Length = 82 Score = 129 bits (323), Expect = 4e-31, Method: Composition-based stats. Identities = 82/82 (100%), Positives = 82/82 (100%) Query: 1 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL 60 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL Sbjct: 1 MSSPTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFL 60 Query: 61 AVGFIFSVVALHVISKVAGKLF 82 AVGFIFSVVALHVISKVAGKLF Sbjct: 61 AVGFIFSVVALHVISKVAGKLF 82 >2WW9-C nrPDB Length = 87 Score = 106 bits (264), Expect = 3e-24, Method: Composition-based stats. Identities = 46/83 (55%), Positives = 59/83 (71%), Gaps = 7/83 (8%) Query: 1 MSSPTPPGGQRTLQKRKQGSS--QKVAASAPKKNTN-----SNNSILKIYSDEATGLRVD 53 M++ PPGGQR LQKR+Q S +K A P S++SILK+Y+DEA G RVD Sbjct: 1 MAASVPPGGQRILQKRRQAQSIKEKQAKQTPTSTRQAGYGGSSSSILKLYTDEANGFRVD 60 Query: 54 PLVVLFLAVGFIFSVVALHVISK 76 LVVLFL+VGFIFSV+ALH+++K Sbjct: 61 SLVVLFLSVGFIFSVIALHLLTK 83 >2WWB-C nrPDB Length = 96 Score = 90.2 bits (222), Expect = 2e-19, Method: Composition-based stats. Identities = 20/65 (30%), Positives = 37/65 (56%), Gaps = 2/65 (3%) Query: 12 TLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPLVVLFLAVGFIFSVVAL 71 T+++RK S SA + + + + Y++++ GL+V P+ VL +++ FI SV L Sbjct: 30 TVRQRKNASCG--TRSAGRTTSAGTGGMWRFYTEDSPGLKVGPVPVLVMSLLFIASVFML 87 Query: 72 HVISK 76 H+ K Sbjct: 88 HIWGK 92 >3J92-1 nrPDB Length = 104 Score = 55.5 bits (132), Expect = 4e-09, Method: Composition-based stats. Identities = 10/41 (24%), Positives = 22/41 (53%), Gaps = 2/41 (4%) Query: 12 TLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRV 52 T+++RK S SA + + + + Y++++ GL+V Sbjct: 66 TVRQRKNASCG--TRSAGRTTSAGTGGMWRFYTEDSPGLKV 104 >6B1T-X nrPDB Length = 217 Score = 25.8 bits (55), Expect = 3.9, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 20/52 (38%) Query: 4 PTPPGGQRTLQKRKQGSSQKVAASAPKKNTNSNNSILKIYSDEATGLRVDPL 55 P PG + R +S + AAS P+ + + + GL V L Sbjct: 160 PVLPGPTAVVVTRPSRASLRRAASGPRSLRPVASGNWQSTLNSIVGLGVQSL 211 >3RP9-A nrPDB Length = 458 Score = 25.8 bits (55), Expect = 4.3, Method: Composition-based stats. Identities = 11/26 (42%), Positives = 16/26 (61%) Query: 8 GGQRTLQKRKQGSSQKVAASAPKKNT 33 G Q+ Q+RKQ S K AS P+ ++ Sbjct: 22 GSQQEGQQRKQHHSSKPTASMPRPHS 47 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 0.304 0.130 0.330 Lambda K H 0.267 0.0389 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 2,556,664 Number of Sequences: 36641 Number of extensions: 65594 Number of successful extensions: 187 Number of sequences better than 10.0: 8 Number of HSP's better than 10.0 without gapping: 14 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 169 Number of HSP's gapped (non-prelim): 16 length of query: 82 length of database: 10,336,785 effective HSP length: 52 effective length of query: 30 effective length of database: 8,431,453 effective search space: 252943590 effective search space used: 252943590 T: 11 A: 40 X1: 16 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (20.9 bits) S2: 52 (24.7 bits)