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= P87108 (93 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 3DXR-B nrPDB 191 7e-50 2BSK-B nrPDB 72 4e-14 3CJH-A nrPDB 38 0.001 3CJH-B nrPDB 37 0.003 3DXR-A nrPDB 34 0.012 2BSK-A nrPDB 33 0.029 1XDX-A nrPDB 27 2.2 4HDR-A nrPDB 26 3.5 6G4G-A nrPDB 26 4.3 3NO6-A nrPDB 25 9.1 >3DXR-B nrPDB Length = 95 Score = 191 bits (484), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 93/93 (100%), Positives = 93/93 (100%) Query: 1 MSFLGFGGGQPQLSSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESS 60 MSFLGFGGGQPQLSSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESS Sbjct: 3 MSFLGFGGGQPQLSSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESS 62 Query: 61 CLDRCVAKYFETNVQVGENMQKMGQSFNAAGKF 93 CLDRCVAKYFETNVQVGENMQKMGQSFNAAGKF Sbjct: 63 CLDRCVAKYFETNVQVGENMQKMGQSFNAAGKF 95 >2BSK-B nrPDB Length = 90 Score = 72.4 bits (176), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 26/64 (40%), Positives = 47/64 (73%) Query: 21 AAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENM 80 AAE E++++ DM+N++ + C++KC+ Y E EL+K ES CLDRCV+KY + + ++G+ + Sbjct: 10 AAELEVEMMADMYNRMTSACHRKCVPPHYKEAELSKGESVCLDRCVSKYLDIHERMGKKL 69 Query: 81 QKMG 84 ++ Sbjct: 70 TELS 73 >3CJH-A nrPDB Length = 64 Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust. Identities = 18/64 (28%), Positives = 39/64 (60%), Gaps = 5/64 (7%) Query: 30 TDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQKMGQSFNA 89 T++ NK+ NC++KC+ + Y+ +N+ +C+D+C+AKY + + + Q+ +A Sbjct: 6 TELVNKISENCFEKCLTSPYA----TRND-ACIDQCLAKYMRSWNVISKAYISRIQNASA 60 Query: 90 AGKF 93 +G+ Sbjct: 61 SGEI 64 >3CJH-B nrPDB Length = 64 Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust. Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 11/67 (16%) Query: 15 SQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNV 74 S+QK+Q + ++ N C+KKC+ S ++ L+ E CL CV ++ +TN+ Sbjct: 6 SKQKVQMS----------IHQFTNICFKKCV-ESVNDSNLSSQEEQCLSNCVNRFLDTNI 54 Query: 75 QVGENMQ 81 ++ +Q Sbjct: 55 RIVNGLQ 61 >3DXR-A nrPDB Length = 89 Score = 34.3 bits (77), Expect = 0.012, Method: Compositional matrix adjust. Identities = 13/51 (25%), Positives = 30/51 (58%), Gaps = 1/51 (1%) Query: 32 MFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQK 82 +++ LV C+ C+N ++ +L E +C+ +C K+ + + +VG+ Q+ Sbjct: 29 LYSNLVERCFTDCVN-DFTTSKLTNKEQTCIMKCSEKFLKHSERVGQRFQE 78 >2BSK-A nrPDB Length = 89 Score = 33.1 bits (74), Expect = 0.029, Method: Compositional matrix adjust. Identities = 12/50 (24%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 33 FNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQK 82 +NKL C+ C+ ++ E+ E++C + C+ KY + ++ Q+ Sbjct: 21 YNKLTETCFLDCVK-DFTTREVKPEETTCSEHCLQKYLKMTQRISMRFQE 69 >1XDX-A nrPDB Length = 114 Score = 26.9 bits (58), Expect = 2.2, Method: Compositional matrix adjust. Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 5/51 (9%) Query: 46 NTSYSEGELNKNESSCLDRCVAKYFETN-----VQVGENMQKMGQSFNAAG 91 N YSE ++++ SSCL+ C+ + N V MQK G + A Sbjct: 32 NQQYSEAKVSQWTSSCLEHCIKRLTALNKPFKYVVTCIIMQKNGAGLHTAA 82 >4HDR-A nrPDB Length = 348 Score = 26.2 bits (56), Expect = 3.5, Method: Composition-based stats. Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%) Query: 11 PQLSSQQKIQAAEAELDLVTDMFNKLVNNCY 41 P ++ +Q IQA E +D+V D K N C+ Sbjct: 145 PAMTREQAIQAVETGIDIVNDRV-KHGNRCF 174 >6G4G-A nrPDB Length = 840 Score = 25.8 bits (55), Expect = 4.3, Method: Composition-based stats. Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 2/41 (4%) Query: 37 VNNCYKKCINTSYSEGELNKNESSCLDR--CVAKYFETNVQ 75 + +C KKC ++S+ E + +S C DR C + +T V+ Sbjct: 8 IGSCRKKCFDSSHRGLEGCRCDSGCTDRGDCCWDFEDTCVK 48 >3NO6-A nrPDB Length = 248 Score = 24.6 bits (52), Expect = 9.1, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 26/50 (52%) Query: 15 SQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDR 64 + + Q E+D + D+F++L++ K C T E + N +S+ +R Sbjct: 179 TSKWFQFYSTEMDELVDVFDQLMDRLTKHCSETEKKEIKENFLQSTIHER 228 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: 3DXR-B nrPDB 144 8e-36 2BSK-B nrPDB 99 4e-22 3CJH-A nrPDB 79 3e-16 Sequences not found previously or not previously below threshold: 2BSK-A nrPDB 37 0.002 3DXR-A nrPDB 35 0.008 3CJH-B nrPDB 34 0.018 6G4G-A nrPDB 27 1.5 1XDX-A nrPDB 27 2.0 2K9N-A nrPDB 26 2.9 6C01-A nrPDB 26 3.9 1KXL-A nrPDB 25 8.1 CONVERGED! >3DXR-B nrPDB Length = 95 Score = 144 bits (363), Expect = 8e-36, Method: Composition-based stats. Identities = 93/93 (100%), Positives = 93/93 (100%) Query: 1 MSFLGFGGGQPQLSSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESS 60 MSFLGFGGGQPQLSSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESS Sbjct: 3 MSFLGFGGGQPQLSSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESS 62 Query: 61 CLDRCVAKYFETNVQVGENMQKMGQSFNAAGKF 93 CLDRCVAKYFETNVQVGENMQKMGQSFNAAGKF Sbjct: 63 CLDRCVAKYFETNVQVGENMQKMGQSFNAAGKF 95 >2BSK-B nrPDB Length = 90 Score = 99.0 bits (245), Expect = 4e-22, Method: Composition-based stats. Identities = 26/64 (40%), Positives = 47/64 (73%) Query: 21 AAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENM 80 AAE E++++ DM+N++ + C++KC+ Y E EL+K ES CLDRCV+KY + + ++G+ + Sbjct: 10 AAELEVEMMADMYNRMTSACHRKCVPPHYKEAELSKGESVCLDRCVSKYLDIHERMGKKL 69 Query: 81 QKMG 84 ++ Sbjct: 70 TELS 73 >3CJH-A nrPDB Length = 64 Score = 79.4 bits (194), Expect = 3e-16, Method: Composition-based stats. Identities = 18/64 (28%), Positives = 39/64 (60%), Gaps = 5/64 (7%) Query: 30 TDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQKMGQSFNA 89 T++ NK+ NC++KC+ + Y+ +N+ +C+D+C+AKY + + + Q+ +A Sbjct: 6 TELVNKISENCFEKCLTSPYA----TRND-ACIDQCLAKYMRSWNVISKAYISRIQNASA 60 Query: 90 AGKF 93 +G+ Sbjct: 61 SGEI 64 >2BSK-A nrPDB Length = 89 Score = 36.6 bits (83), Expect = 0.002, Method: Composition-based stats. Identities = 12/50 (24%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 33 FNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQK 82 +NKL C+ C+ ++ E+ E++C + C+ KY + ++ Q+ Sbjct: 21 YNKLTETCFLDCVKD-FTTREVKPEETTCSEHCLQKYLKMTQRISMRFQE 69 >3DXR-A nrPDB Length = 89 Score = 34.7 bits (78), Expect = 0.008, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 30/51 (58%), Gaps = 1/51 (1%) Query: 32 MFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQK 82 +++ LV C+ C+N ++ +L E +C+ +C K+ + + +VG+ Q+ Sbjct: 29 LYSNLVERCFTDCVND-FTTSKLTNKEQTCIMKCSEKFLKHSERVGQRFQE 78 >3CJH-B nrPDB Length = 64 Score = 33.9 bits (76), Expect = 0.018, Method: Composition-based stats. Identities = 18/69 (26%), Positives = 37/69 (53%), Gaps = 11/69 (15%) Query: 14 SSQQKIQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETN 73 +S+QK+Q + ++ N C+KKC+ + ++ L+ E CL CV ++ +TN Sbjct: 5 NSKQKVQMS----------IHQFTNICFKKCVES-VNDSNLSSQEEQCLSNCVNRFLDTN 53 Query: 74 VQVGENMQK 82 +++ +Q Sbjct: 54 IRIVNGLQN 62 >6G4G-A nrPDB Length = 840 Score = 27.4 bits (59), Expect = 1.5, Method: Composition-based stats. Identities = 10/26 (38%), Positives = 16/26 (61%) Query: 39 NCYKKCINTSYSEGELNKNESSCLDR 64 +C KKC ++S+ E + +S C DR Sbjct: 10 SCRKKCFDSSHRGLEGCRCDSGCTDR 35 >1XDX-A nrPDB Length = 114 Score = 27.0 bits (58), Expect = 2.0, Method: Composition-based stats. Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 1/76 (1%) Query: 17 QKIQAAEAELDLVTDMFNKLVNNCYKKCI-NTSYSEGELNKNESSCLDRCVAKYFETNVQ 75 + + A E V D + ++ + N YSE ++++ SSCL+ C+ + N Sbjct: 2 EGVDPAVEEAAFVADDVSNIIKESIDAVLQNQQYSEAKVSQWTSSCLEHCIKRLTALNKP 61 Query: 76 VGENMQKMGQSFNAAG 91 + + N AG Sbjct: 62 FKYVVTCIIMQKNGAG 77 >2K9N-A nrPDB Length = 107 Score = 26.2 bits (56), Expect = 2.9, Method: Composition-based stats. Identities = 9/58 (15%), Positives = 22/58 (37%), Gaps = 3/58 (5%) Query: 32 MFNKLVNNCYKKC---INTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQKMGQS 86 M + C ++ IN + + E LD+ A+Y ++ + ++ + Sbjct: 31 MITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKYAEYGPKWNKISKFLKNRSDN 88 >6C01-A nrPDB Length = 838 Score = 25.9 bits (55), Expect = 3.9, Method: Composition-based stats. Identities = 9/26 (34%), Positives = 15/26 (57%) Query: 39 NCYKKCINTSYSEGELNKNESSCLDR 64 +C KKC + S+ E + + +C DR Sbjct: 16 SCRKKCFDASFRGLENCRCDVACKDR 41 >1KXL-A nrPDB Length = 199 Score = 25.1 bits (53), Expect = 8.1, Method: Composition-based stats. Identities = 10/59 (16%), Positives = 25/59 (42%), Gaps = 1/59 (1%) Query: 25 ELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQKM 83 ++++ M+N +N ++C +S+ + S C + Y ++GE+ Sbjct: 123 KMNIKVKMYNGKLNAIVRECEPVPHSQISSIASPSQC-EHLRLFYQRAFKRIGESAISR 180 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 0.315 0.129 0.352 Lambda K H 0.267 0.0391 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 3,161,015 Number of Sequences: 36641 Number of extensions: 94029 Number of successful extensions: 295 Number of sequences better than 10.0: 13 Number of HSP's better than 10.0 without gapping: 22 Number of HSP's successfully gapped in prelim test: 11 Number of HSP's that attempted gapping in prelim test: 267 Number of HSP's gapped (non-prelim): 33 length of query: 93 length of database: 10,336,785 effective HSP length: 61 effective length of query: 32 effective length of database: 8,101,684 effective search space: 259253888 effective search space used: 259253888 T: 11 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 52 (24.7 bits)