PSIBLAST 2.11.0+ Reference: Stephen F. Altschul, 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: Stephen F. Altschul, 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: Alejandro A. Schaffer, 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. Database: uniprot_sprot.fasta 570,830 sequences; 206,533,160 total letters Results from round 1 Query= sp|P0DTD2|ORF9B_SARS2 ORF9b protein OS=Severe acute respiratory syndrome coronavirus 2 OX=2697049 GN=9b PE=1 SV=1 Length=97 Score E Sequences producing significant alignments: (Bits) Value sp|P0DTD2|ORF9B_SARS2 ORF9b protein OS=Severe acute respiratory s... 197 3e-66 sp|Q3LZX3|ORF9B_BCHK3 Protein 9b OS=Bat coronavirus HKU3 OX=44273... 147 9e-47 sp|P0C5A6|ORF9B_BC279 Protein 9b OS=Bat coronavirus 279/2005 OX=3... 139 1e-43 sp|P59636|ORF9B_SARS ORF9b protein OS=Severe acute respiratory sy... 139 2e-43 sp|Q3I5I6|ORF9B_BCRP3 Protein 9b OS=Bat coronavirus Rp3/2004 OX=3... 135 5e-42 sp|Q10572|FOX1_CAEEL Sex determination protein fox-1 OS=Caenorhab... 29.6 4.4 sp|Q05736|PR1_ASPOF Pathogenesis-related protein 1 OS=Asparagus o... 28.9 5.1 sp|Q8Y866|DEF_LISMO Peptide deformylase OS=Listeria monocytogenes... 28.9 7.0 sp|B8DCF7|DEF_LISMH Peptide deformylase OS=Listeria monocytogenes... 28.5 7.3 >sp|P0DTD2|ORF9B_SARS2 ORF9b protein OS=Severe acute respiratory syndrome coronavirus 2 OX=2697049 GN=9b PE=1 SV=1 Length=97 Score = 197 bits (500), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 97/97 (100%), Positives = 97/97 (100%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT Sbjct 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK Sbjct 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 >sp|Q3LZX3|ORF9B_BCHK3 Protein 9b OS=Bat coronavirus HKU3 OX=442736 GN=9b PE=3 SV=1 Length=97 Score = 147 bits (372), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 72/97 (74%), Positives = 84/97 (87%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPK++ + PAL LVDPQIQ+ +TRME+AV DQNN GPKVYPIILRLGS LSL+MA++ Sbjct 1 MDPKVNVVPPALHLVDPQIQMTITRMEDAVVHDQNNAGPKVYPIILRLGSQLSLSMAKRN 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE +AFQ TPI V+MTKLATTEELPDEFVVVT K Sbjct 61 LDSLEARAFQSTPIVVKMTKLATTEELPDEFVVVTAK 97 >sp|P0C5A6|ORF9B_BC279 Protein 9b OS=Bat coronavirus 279/2005 OX=389167 GN=9b PE=3 SV=1 Length=97 Score = 139 bits (351), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 71/97 (73%), Positives = 80/97 (82%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPK S + PAL LVDPQIQL + RME+AV Q+N PKVYPIILRLGS LSL+MAR+ Sbjct 1 MDPKTSVVPPALHLVDPQIQLTIIRMEDAVVHGQSNAVPKVYPIILRLGSQLSLSMARRN 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE +AFQ TPI V+MTKLATTEELPDEFVVVT K Sbjct 61 LDSLEARAFQSTPIVVKMTKLATTEELPDEFVVVTAK 97 >sp|P59636|ORF9B_SARS ORF9b protein OS=Severe acute respiratory syndrome coronavirus OX=694009 GN=9b PE=1 SV=1 Length=98 Score = 139 bits (350), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 71/98 (72%), Positives = 83/98 (85%), Gaps = 1/98 (1%) Query 1 MDP-KISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARK 59 MDP + + + PAL LVDPQIQL +TRME+A+G+ QN+ PKVYPIILRLGS LSL+MAR+ Sbjct 1 MDPNQTNVVPPALHLVDPQIQLTITRMEDAMGQGQNSADPKVYPIILRLGSQLSLSMARR 60 Query 60 TLNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE +AFQ TPI VQMTKLATTEELPDEFVVVT K Sbjct 61 NLDSLEARAFQSTPIVVQMTKLATTEELPDEFVVVTAK 98 >sp|Q3I5I6|ORF9B_BCRP3 Protein 9b OS=Bat coronavirus Rp3/2004 OX=349344 GN=9b PE=3 SV=1 Length=97 Score = 135 bits (341), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 70/97 (72%), Positives = 77/97 (79%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPK S + PAL LVDPQIQL TRME+AV QNN KVYPIILRLGS LSL+M R+ Sbjct 1 MDPKTSVVLPALHLVDPQIQLTTTRMEDAVVHGQNNADLKVYPIILRLGSQLSLSMVRRN 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE + FQ TPI V+MTKLATTEELPDEFVVVT K Sbjct 61 LDSLEVRVFQSTPIVVKMTKLATTEELPDEFVVVTAK 97 >sp|Q10572|FOX1_CAEEL Sex determination protein fox-1 OS=Caenorhabditis elegans OX=6239 GN=fox-1 PE=1 SV=3 Length=429 Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust. Identities = 16/43 (37%), Positives = 21/43 (49%), Gaps = 0/43 (0%) Query 43 PIILRLGSPLSLNMARKTLNSLEDKAFQLTPIAVQMTKLATTE 85 P+ G PL N A N+L+ AF + P AVQ LA + Sbjct 332 PLAQLQGQPLLFNAAALQTNALQQSAFGMDPAAVQAALLANEQ 374 >sp|Q05736|PR1_ASPOF Pathogenesis-related protein 1 OS=Asparagus officinalis OX=4686 GN=PR1 PE=2 SV=1 Length=158 Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust. Identities = 14/47 (30%), Positives = 26/47 (55%), Gaps = 0/47 (0%) Query 19 IQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKTLNSLE 65 + +A RM A D +N+GPK+ P + GS +S + + T+ ++ Sbjct 12 VNVAAGRMFKAAMLDWHNLGPKIVPDFIAGGSVVSGDGSVGTIREIK 58 >sp|Q8Y866|DEF_LISMO Peptide deformylase OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) OX=169963 GN=def PE=3 SV=1 Length=183 Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 19/33 (58%), Gaps = 0/33 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRD 33 MD + E HPALR V ++ ++ E +GRD Sbjct 4 MDDIVREGHPALREVATEVTFPLSDEEKKLGRD 36 >sp|B8DCF7|DEF_LISMH Peptide deformylase OS=Listeria monocytogenes serotype 4a (strain HCC23) OX=552536 GN=def PE=3 SV=1 Length=183 Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust. Identities = 13/33 (39%), Positives = 19/33 (58%), Gaps = 0/33 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRD 33 MD + E HPALR V ++ ++ E +GRD Sbjct 4 MDDIVREGHPALREVATEVTFPLSDEEKKLGRD 36 Lambda K H a alpha 0.317 0.133 0.364 0.792 4.96 Gapped Lambda K H a alpha sigma 0.267 0.0410 0.140 1.90 42.6 43.6 Effective search space used: 5048626500 Results from round 2 Query= sp|P0DTD2|ORF9B_SARS2 ORF9b protein OS=Severe acute respiratory syndrome coronavirus 2 OX=2697049 GN=9b PE=1 SV=1 Length=97 Score E Sequences producing significant alignments: (Bits) Value Sequences used in model and found again: sp|Q3LZX3|ORF9B_BCHK3 Protein 9b OS=Bat coronavirus HKU3 OX=44273... 162 2e-52 sp|P0C5A6|ORF9B_BC279 Protein 9b OS=Bat coronavirus 279/2005 OX=3... 159 3e-51 sp|P59636|ORF9B_SARS ORF9b protein OS=Severe acute respiratory sy... 156 4e-50 sp|Q3I5I6|ORF9B_BCRP3 Protein 9b OS=Bat coronavirus Rp3/2004 OX=3... 156 4e-50 sp|P0DTD2|ORF9B_SARS2 ORF9b protein OS=Severe acute respiratory s... 152 1e-48 Sequences not found previously or not previously below threshold: sp|A0A0C1EFK1|OPAE_ASPUT Epimerase opaE OS=Aspergillus ustus OX=4... 32.4 0.36 sp|Q98IH6|ADC2_RHILO Acetoacetate decarboxylase 2 OS=Mesorhizobiu... 31.6 0.81 sp|Q98AN6|ADC1_RHILO Acetoacetate decarboxylase 1 OS=Mesorhizobiu... 29.7 3.3 sp|Q7NSA6|ADC_CHRVO Acetoacetate decarboxylase OS=Chromobacterium... 28.9 6.2 >sp|Q3LZX3|ORF9B_BCHK3 Protein 9b OS=Bat coronavirus HKU3 OX=442736 GN=9b PE=3 SV=1 Length=97 Score = 162 bits (409), Expect = 2e-52, Method: Composition-based stats. Identities = 72/97 (74%), Positives = 84/97 (87%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPK++ + PAL LVDPQIQ+ +TRME+AV DQNN GPKVYPIILRLGS LSL+MA++ Sbjct 1 MDPKVNVVPPALHLVDPQIQMTITRMEDAVVHDQNNAGPKVYPIILRLGSQLSLSMAKRN 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE +AFQ TPI V+MTKLATTEELPDEFVVVT K Sbjct 61 LDSLEARAFQSTPIVVKMTKLATTEELPDEFVVVTAK 97 >sp|P0C5A6|ORF9B_BC279 Protein 9b OS=Bat coronavirus 279/2005 OX=389167 GN=9b PE=3 SV=1 Length=97 Score = 159 bits (401), Expect = 3e-51, Method: Composition-based stats. Identities = 71/97 (73%), Positives = 80/97 (82%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPK S + PAL LVDPQIQL + RME+AV Q+N PKVYPIILRLGS LSL+MAR+ Sbjct 1 MDPKTSVVPPALHLVDPQIQLTIIRMEDAVVHGQSNAVPKVYPIILRLGSQLSLSMARRN 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE +AFQ TPI V+MTKLATTEELPDEFVVVT K Sbjct 61 LDSLEARAFQSTPIVVKMTKLATTEELPDEFVVVTAK 97 >sp|P59636|ORF9B_SARS ORF9b protein OS=Severe acute respiratory syndrome coronavirus OX=694009 GN=9b PE=1 SV=1 Length=98 Score = 156 bits (394), Expect = 4e-50, Method: Composition-based stats. Identities = 71/98 (72%), Positives = 83/98 (85%), Gaps = 1/98 (1%) Query 1 MDP-KISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARK 59 MDP + + + PAL LVDPQIQL +TRME+A+G+ QN+ PKVYPIILRLGS LSL+MAR+ Sbjct 1 MDPNQTNVVPPALHLVDPQIQLTITRMEDAMGQGQNSADPKVYPIILRLGSQLSLSMARR 60 Query 60 TLNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE +AFQ TPI VQMTKLATTEELPDEFVVVT K Sbjct 61 NLDSLEARAFQSTPIVVQMTKLATTEELPDEFVVVTAK 98 >sp|Q3I5I6|ORF9B_BCRP3 Protein 9b OS=Bat coronavirus Rp3/2004 OX=349344 GN=9b PE=3 SV=1 Length=97 Score = 156 bits (394), Expect = 4e-50, Method: Composition-based stats. Identities = 70/97 (72%), Positives = 77/97 (79%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPK S + PAL LVDPQIQL TRME+AV QNN KVYPIILRLGS LSL+M R+ Sbjct 1 MDPKTSVVLPALHLVDPQIQLTTTRMEDAVVHGQNNADLKVYPIILRLGSQLSLSMVRRN 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 L+SLE + FQ TPI V+MTKLATTEELPDEFVVVT K Sbjct 61 LDSLEVRVFQSTPIVVKMTKLATTEELPDEFVVVTAK 97 >sp|P0DTD2|ORF9B_SARS2 ORF9b protein OS=Severe acute respiratory syndrome coronavirus 2 OX=2697049 GN=9b PE=1 SV=1 Length=97 Score = 152 bits (384), Expect = 1e-48, Method: Composition-based stats. Identities = 97/97 (100%), Positives = 97/97 (100%), Gaps = 0/97 (0%) Query 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT Sbjct 1 MDPKISEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKT 60 Query 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK Sbjct 61 LNSLEDKAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 >sp|A0A0C1EFK1|OPAE_ASPUT Epimerase opaE OS=Aspergillus ustus OX=40382 GN=opaE PE=1 SV=1 Length=274 Score = 32.4 bits (72), Expect = 0.36, Method: Composition-based stats. Identities = 16/91 (18%), Positives = 38/91 (42%), Gaps = 6/91 (7%) Query 7 EMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMARKTLNSLED 66 + L DP + +T + N +G +Q P + P++ + L ++ + L Sbjct 29 VVETVLNHKDPSTHVTITSLANRIGGNQTLAYPSIRPLLYGEMIRVCLQARKENYDVLII 88 Query 67 KAFQLTPIAVQMTKLATTEELPDEFVVVTVK 97 F P+ ++ ++A D+ V++ + Sbjct 89 NCF-GDPMVDELQQIAG-----DDMVILGAR 113 >sp|Q98IH6|ADC2_RHILO Acetoacetate decarboxylase 2 OS=Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099) OX=266835 GN=adc2 PE=3 SV=1 Length=261 Score = 31.6 bits (70), Expect = 0.81, Method: Composition-based stats. Identities = 13/48 (27%), Positives = 21/48 (44%), Gaps = 2/48 (4%) Query 2 DPKI--SEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILR 47 DPK S + L L +P ++ RM ++ G +V P+ R Sbjct 40 DPKKLRSLVPEPLELSEPLVKFEFIRMPDSTGFGNYTESGQVIPVTFR 87 >sp|Q98AN6|ADC1_RHILO Acetoacetate decarboxylase 1 OS=Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099) OX=266835 GN=adc1 PE=3 SV=1 Length=247 Score = 29.7 bits (65), Expect = 3.3, Method: Composition-based stats. Identities = 10/45 (22%), Positives = 21/45 (47%), Gaps = 2/45 (4%) Query 2 DPKI--SEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPI 44 DP+ + L++ +P ++ RM ++ G G +V P+ Sbjct 40 DPQKLRDLVPEPLQVCEPMVKFEFIRMPDSTGFGDYTEGGQVIPV 84 >sp|Q7NSA6|ADC_CHRVO Acetoacetate decarboxylase OS=Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757) OX=243365 GN=adc PE=1 SV=1 Length=246 Score = 28.9 bits (63), Expect = 6.2, Method: Composition-based stats. Identities = 11/52 (21%), Positives = 24/52 (46%), Gaps = 1/52 (2%) Query 6 SEMHPALRLVDPQIQLAVTRMENAVGRDQNNVGPKVYPIILRLGSPLSLNMA 57 + + L++ +P ++ RM ++ G + +V P+ R G S +A Sbjct 46 AVLPEPLQMAEPVVRYEFIRMPDSTGFGDYSESGQVIPVTFR-GERGSYTLA 96 Lambda K H a alpha 0.311 0.125 0.341 0.792 4.96 Gapped Lambda K H a alpha sigma 0.267 0.0383 0.140 1.90 42.6 43.6 Effective search space used: 5048626500 Search has CONVERGED! Database: uniprot_sprot.fasta Posted date: Feb 9, 2024 7:20 PM Number of letters in database: 206,533,160 Number of sequences in database: 570,830 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Neighboring words threshold: 11 Window for multiple hits: 40