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= P53330 (157 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 5TGC-C nrPDB 327 2e-90 4HLJ-A nrPDB 29 0.86 5IYB-Q nrPDB 27 4.8 6GII-A nrPDB 26 7.4 3LEZ-A nrPDB 26 7.9 4UXV-A nrPDB 26 7.9 >5TGC-C nrPDB Length = 158 Score = 327 bits (837), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 157/157 (100%), Positives = 157/157 (100%) Query: 1 MDPQTLITKANKVSYYGNPTSKESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFRY 60 MDPQTLITKANKVSYYGNPTSKESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFRY Sbjct: 2 MDPQTLITKANKVSYYGNPTSKESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFRY 61 Query: 61 KTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEA 120 KTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEA Sbjct: 62 KTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEA 121 Query: 121 LSVDDIRGAVGNSEAIPGLSAGVNNDNTKESKDVKMN 157 LSVDDIRGAVGNSEAIPGLSAGVNNDNTKESKDVKMN Sbjct: 122 LSVDDIRGAVGNSEAIPGLSAGVNNDNTKESKDVKMN 158 >4HLJ-A nrPDB Length = 240 Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust. Identities = 27/84 (32%), Positives = 35/84 (41%), Gaps = 10/84 (11%) Query: 69 DEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTS-------KATGAPS-ANQGDEA 120 D K +QRE +L L + +L S + H D K PS AN G+ Sbjct: 7 DHKQVQRELGNAVLHLH--NPTVLSSSSIEVHWTVDQQSQYIQGYKILYRPSGANHGESD 64 Query: 121 LSVDDIRGAVGNSEAIPGLSAGVN 144 V ++R NS IP L GVN Sbjct: 65 WLVFEVRTPAKNSVVIPDLRKGVN 88 >5IYB-Q nrPDB Length = 439 Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust. Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 5/55 (9%) Query: 53 LEKYPFRYKTWLRNQEDEKNLQRESC---EDILDLKEFDRRILKKSLMTSHTKGD 104 L KY R + + L R SC ED+L+L +FDR+ L+ L ++ KGD Sbjct: 17 LAKYVIRGFYGIEHALALDILIRNSCVKEEDMLELLKFDRKQLRSVL--NNLKGD 69 >6GII-A nrPDB Length = 479 Score = 25.8 bits (55), Expect = 7.4, Method: Composition-based stats. Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 16/71 (22%) Query: 30 YQPSKVSSNVQQPQQQLGDMENNLEKYPFRYKTWLRNQEDEKNLQRESCEDILDLKEFDR 89 + PS V + QP ++ + LE+Y + + L N+++ +L+R R Sbjct: 120 FSPSNVLQSFAQPSAEVRQV---LERYGYAFNRTLVNEDEPMHLER-------------R 163 Query: 90 RILKKSLMTSH 100 R+L + + H Sbjct: 164 RVLMEPFASEH 174 >3LEZ-A nrPDB Length = 260 Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust. Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%) Query: 72 NLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAP 112 LQ+ ED+LD DRR + +++ ++T GD G P Sbjct: 158 TLQQYVLEDVLD---ADRREVLTNMLINNTTGDALIRAGVP 195 >4UXV-A nrPDB Length = 545 Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust. Identities = 12/37 (32%), Positives = 23/37 (62%), Gaps = 2/37 (5%) Query: 23 ESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFR 59 E WR +W + V++++ + ++ L D E N +KY F+ Sbjct: 48 EKWREEWDEI--VTAHMPKVEELLYDAEENADKYRFK 82 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: 5TGC-C nrPDB 318 8e-88 Sequences not found previously or not previously below threshold: 4HLJ-A nrPDB 31 0.23 4UXV-A nrPDB 29 0.73 3LEZ-A nrPDB 29 1.4 6GII-A nrPDB 28 1.4 1AII-A nrPDB 28 1.7 5OQL-H nrPDB 28 1.8 2YQU-A nrPDB 27 2.6 CONVERGED! >5TGC-C nrPDB Length = 158 Score = 318 bits (814), Expect = 8e-88, Method: Composition-based stats. Identities = 157/157 (100%), Positives = 157/157 (100%) Query: 1 MDPQTLITKANKVSYYGNPTSKESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFRY 60 MDPQTLITKANKVSYYGNPTSKESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFRY Sbjct: 2 MDPQTLITKANKVSYYGNPTSKESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFRY 61 Query: 61 KTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEA 120 KTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEA Sbjct: 62 KTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEA 121 Query: 121 LSVDDIRGAVGNSEAIPGLSAGVNNDNTKESKDVKMN 157 LSVDDIRGAVGNSEAIPGLSAGVNNDNTKESKDVKMN Sbjct: 122 LSVDDIRGAVGNSEAIPGLSAGVNNDNTKESKDVKMN 158 >4HLJ-A nrPDB Length = 240 Score = 30.9 bits (68), Expect = 0.23, Method: Composition-based stats. Identities = 27/84 (32%), Positives = 35/84 (41%), Gaps = 10/84 (11%) Query: 69 DEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGDTS-------KATGAPS-ANQGDEA 120 D K +QRE +L L + +L S + H D K PS AN G+ Sbjct: 7 DHKQVQRELGNAVLHLH--NPTVLSSSSIEVHWTVDQQSQYIQGYKILYRPSGANHGESD 64 Query: 121 LSVDDIRGAVGNSEAIPGLSAGVN 144 V ++R NS IP L GVN Sbjct: 65 WLVFEVRTPAKNSVVIPDLRKGVN 88 >4UXV-A nrPDB Length = 545 Score = 29.4 bits (64), Expect = 0.73, Method: Composition-based stats. Identities = 24/101 (23%), Positives = 43/101 (42%), Gaps = 21/101 (20%) Query: 23 ESWRYDWYQPSKVSSNVQQPQQQLGDMENNLEKYPFR-------------------YKTW 63 E WR +W + V++++ + ++ L D E N +KY F+ + Sbjct: 48 EKWREEWDE--IVTAHMPKVEELLYDAEENADKYRFKKANQVLVHIDDLLTAAESSIEKI 105 Query: 64 LRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMTSHTKGD 104 LR D + +S E+I ++E + K L SH G+ Sbjct: 106 LREISDLVTSEEKSREEIEQVRERYSKSRKNLLAYSHLYGE 146 >3LEZ-A nrPDB Length = 260 Score = 28.6 bits (62), Expect = 1.4, Method: Composition-based stats. Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 9/59 (15%) Query: 73 LQRESCEDILDLKEFDRRILKKSLMTSHTKGDTSKATGAPSANQGDEALSVDDIRGAVG 131 LQ+ ED+LD DRR + +++ ++T GD G P + +V D GA G Sbjct: 159 LQQYVLEDVLDA---DRREVLTNMLINNTTGDALIRAGVP------DGWTVGDKTGAGG 208 >6GII-A nrPDB Length = 479 Score = 28.2 bits (61), Expect = 1.4, Method: Composition-based stats. Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 16/71 (22%) Query: 30 YQPSKVSSNVQQPQQQLGDMENNLEKYPFRYKTWLRNQEDEKNLQRESCEDILDLKEFDR 89 + PS V + QP ++ + LE+Y + + L N+++ +L+R R Sbjct: 120 FSPSNVLQSFAQPSAEVRQV---LERYGYAFNRTLVNEDEPMHLER-------------R 163 Query: 90 RILKKSLMTSH 100 R+L + + H Sbjct: 164 RVLMEPFASEH 174 >1AII-A nrPDB Length = 323 Score = 28.2 bits (61), Expect = 1.7, Method: Composition-based stats. Identities = 24/83 (28%), Positives = 37/83 (44%), Gaps = 6/83 (7%) Query: 73 LQRESCEDILDLKEFDRRILKKSL---MTSHTKGDTSKATGAPSANQGDEALSVDDIRGA 129 L + + D+ + + KKSL ++S T GD KA + + DE+L VD+ Sbjct: 117 LTTRTSRQMKDISQAYYTVYKKSLGDDISSETSGDFRKALLTLADGRRDESLKVDE---H 173 Query: 130 VGNSEAIPGLSAGVNNDNTKESK 152 + +A AG N T E K Sbjct: 174 LAKQDAQILYKAGENRWGTDEDK 196 >5OQL-H nrPDB Length = 270 Score = 28.2 bits (61), Expect = 1.8, Method: Composition-based stats. Identities = 25/89 (28%), Positives = 48/89 (53%), Gaps = 6/89 (6%) Query: 41 QP--QQQLGDMENNLEKYPFRYKTWLRNQEDEKNLQRESCEDILDLKEFDRRILKKSLMT 98 QP +Q+LG +E + Y R + + + Q K+L++++ E D F + +K + Sbjct: 18 QPLERQRLGILEKK-KDYRLRARDYKKKQAVLKSLRQKAAERNEDEFYFGM-MSRKGPGS 75 Query: 99 SHTKGDTSKATGAPSANQGDEALSVDDIR 127 + T+G TG ++G++ALSV+ +R Sbjct: 76 ALTRG--KGFTGTVDGDRGNKALSVETVR 102 >2YQU-A nrPDB Length = 455 Score = 27.4 bits (59), Expect = 2.6, Method: Composition-based stats. Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 7/72 (9%) Query: 82 LDLKEFDRRILKKSLMTSHT----KGDTSKATGAPSANQGDEALSVDDIRGAVGNSEAIP 137 L++ R+ KK +T T +A GA +G E L D + AVG Sbjct: 208 LEVSRAAERVFKKQGLTIRTGVRVTAVVPEAKGARVELEGGEVLEADRVLVAVGRRPYTE 267 Query: 138 GLS---AGVNND 146 GLS AG++ D Sbjct: 268 GLSLENAGLSTD 279 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 0.125 0.357 Lambda K H 0.267 0.0391 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 6,399,695 Number of Sequences: 36641 Number of extensions: 245480 Number of successful extensions: 477 Number of sequences better than 10.0: 8 Number of HSP's better than 10.0 without gapping: 3 Number of HSP's successfully gapped in prelim test: 19 Number of HSP's that attempted gapping in prelim test: 474 Number of HSP's gapped (non-prelim): 22 length of query: 157 length of database: 10,336,785 effective HSP length: 89 effective length of query: 68 effective length of database: 7,075,736 effective search space: 481150048 effective search space used: 481150048 T: 11 A: 40 X1: 16 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.6 bits) S2: 55 (25.9 bits)