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
571,282 sequences; 206,678,396 total letters
Results from round 1
Query= sp|Q80H93|NS8B_SARS ORF8b protein OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=8b PE=1 SV=1
Length=84
Score E
Sequences producing significant alignments: (Bits) Value
sp|Q80H93|NS8B_SARS ORF8b protein OS=Severe acute respiratory syn... 177 5e-59
sp|Q0Q469|NS8_BC279 Non-structural protein 8 OS=Bat coronavirus 2... 34.7 0.029
sp|Q3I5I8|NS8_BCRP3 Non-structural protein 8 OS=Bat coronavirus R... 34.3 0.032
sp|P0DTC8|NS8_SARS2 ORF8 protein OS=Severe acute respiratory synd... 33.5 0.065
sp|Q3LZX5|NS8_BCHK3 Non-structural protein 8 OS=Bat coronavirus H... 33.1 0.084
sp|B8H0P3|RL1_CAUVN Large ribosomal subunit protein uL1 OS=Caulob... 33.1 0.16
sp|Q9AAG0|RL1_CAUVC Large ribosomal subunit protein uL1 OS=Caulob... 33.1 0.16
sp|Q0BYA1|RL1_HYPNA Large ribosomal subunit protein uL1 OS=Hyphom... 32.3 0.25
sp|G5EGH7|LON8_CAEEL Protein lon-8 OS=Caenorhabditis elegans OX=6... 31.6 0.52
sp|Q10231|ERG7_SCHPO Lanosterol synthase erg7 OS=Schizosaccharomy... 31.6 0.53
sp|B0T064|RL1_CAUSK Large ribosomal subunit protein uL1 OS=Caulob... 31.2 0.76
sp|Q8K0D2|HABP2_MOUSE Hyaluronan-binding protein 2 OS=Mus musculu... 29.3 3.7
sp|F1N4E5|TOIP1_BOVIN Torsin-1A-interacting protein 1 OS=Bos taur... 28.5 7.4
sp|Q6L711|HABP2_RAT Hyaluronan-binding protein 2 OS=Rattus norveg... 28.1 8.7
sp|Q83MG9|CAIC_SHIFL Crotonobetaine/carnitine--CoA ligase OS=Shig... 28.1 10.0
>sp|Q80H93|NS8B_SARS ORF8b protein OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=8b PE=1 SV=1
Length=84
Score = 177 bits (449), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 84/84 (100%), Positives = 84/84 (100%), Gaps = 0/84 (0%)
Query 1 MCLKILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIARC 60
MCLKILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIARC
Sbjct 1 MCLKILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIARC 60
Query 61 WYLHEGHQTAAFRDVLVVLNKRTN 84
WYLHEGHQTAAFRDVLVVLNKRTN
Sbjct 61 WYLHEGHQTAAFRDVLVVLNKRTN 84
>sp|Q0Q469|NS8_BC279 Non-structural protein 8 OS=Bat coronavirus
279/2005 OX=389167 GN=8 PE=3 SV=1
Length=121
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/58 (38%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 25 GKVLPFH--RWHTMVQTCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
GK +P H + +C P + INCQ P G+LI RC Y + DV VVL+
Sbjct 66 GKRIPIHYEMFGNYTISCEP-LEINCQAPPVGSLIVRCSY---DYDFVEHHDVRVVLD 119
>sp|Q3I5I8|NS8_BCRP3 Non-structural protein 8 OS=Bat coronavirus
Rp3/2004 OX=349344 GN=8 PE=3 SV=1
Length=121
Score = 34.3 bits (77), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/58 (38%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 25 GKVLPFH--RWHTMVQTCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
GK +P H + +C P + INCQ P G+LI RC Y + DV VVL+
Sbjct 66 GKRIPIHYQMFGNYTISCEP-LEINCQAPPVGSLIVRCSY---DYDFVEHHDVRVVLD 119
>sp|P0DTC8|NS8_SARS2 ORF8 protein OS=Severe acute respiratory
syndrome coronavirus 2 OX=2697049 GN=8 PE=1 SV=1
Length=121
Score = 33.5 bits (75), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 26/42 (62%), Gaps = 4/42 (10%)
Query 39 TCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
+C P TINCQ+P G+L+ RC + + + + DV VVL+
Sbjct 82 SCLP-FTINCQEPKLGSLVVRCSFYEDFLE---YHDVRVVLD 119
>sp|Q3LZX5|NS8_BCHK3 Non-structural protein 8 OS=Bat coronavirus
HKU3 OX=442736 GN=8 PE=3 SV=1
Length=121
Score = 33.1 bits (74), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 25 GKVLPFH--RWHTMVQTCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
G+ +P H + +C P + INCQ P G+LI RC Y + DV VVL+
Sbjct 66 GRRIPIHYEMFGNYTISCEP-LEINCQAPPVGSLIVRCSY---DYDFVEHHDVRVVLD 119
>sp|B8H0P3|RL1_CAUVN Large ribosomal subunit protein uL1 OS=Caulobacter
vibrioides (strain NA1000 / CB15N) OX=565050 GN=rplA
PE=3 SV=1
Length=229
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/67 (33%), Positives = 32/67 (48%), Gaps = 5/67 (7%)
Query 19 AWLCALGKVLPFHRW--HTMVQTCTPNVTINCQDPAGGAL---IARCWYLHEGHQTAAFR 73
A + LGKVL + V T TPNV +D GGA+ + + +H G A+F
Sbjct 120 ALVGRLGKVLGPRGLMPNPKVGTVTPNVAQAVKDAKGGAVEFRVEKAGIVHAGIGKASFT 179
Query 74 DVLVVLN 80
D + +N
Sbjct 180 DEALAIN 186
>sp|Q9AAG0|RL1_CAUVC Large ribosomal subunit protein uL1 OS=Caulobacter
vibrioides (strain ATCC 19089 / CB15) OX=190650 GN=rplA
PE=3 SV=1
Length=229
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/67 (33%), Positives = 32/67 (48%), Gaps = 5/67 (7%)
Query 19 AWLCALGKVLPFHRW--HTMVQTCTPNVTINCQDPAGGAL---IARCWYLHEGHQTAAFR 73
A + LGKVL + V T TPNV +D GGA+ + + +H G A+F
Sbjct 120 ALVGRLGKVLGPRGLMPNPKVGTVTPNVAQAVKDAKGGAVEFRVEKAGIVHAGIGKASFT 179
Query 74 DVLVVLN 80
D + +N
Sbjct 180 DEALAIN 186
>sp|Q0BYA1|RL1_HYPNA Large ribosomal subunit protein uL1 OS=Hyphomonas
neptunium (strain ATCC 15444) OX=228405 GN=rplA PE=3
SV=1
Length=231
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/62 (34%), Positives = 29/62 (47%), Gaps = 5/62 (8%)
Query 24 LGKVLPFHRW--HTMVQTCTPNVTINCQDPAGGAL---IARCWYLHEGHQTAAFRDVLVV 78
LGKVL + V T TPNV +D GGA+ + + +H G A+F D +
Sbjct 127 LGKVLGPRGLMPNPKVGTVTPNVAQAVKDAKGGAVEFKVEKAGIVHAGVGKASFSDADIE 186
Query 79 LN 80
N
Sbjct 187 KN 188
>sp|G5EGH7|LON8_CAEEL Protein lon-8 OS=Caenorhabditis elegans
OX=6239 GN=lon-8 PE=2 SV=1
Length=162
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 0/25 (0%)
Query 28 LPFHRWHTMVQTCTPNVTINCQDPA 52
+PF WH ++ PNVT+N +DPA
Sbjct 78 MPFILWHDLIVNGCPNVTLNSRDPA 102
>sp|Q10231|ERG7_SCHPO Lanosterol synthase erg7 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) OX=284812 GN=erg7 PE=2
SV=1
Length=721
Score = 31.6 bits (70), Expect = 0.53, Method: Composition-based stats.
Identities = 22/74 (30%), Positives = 32/74 (43%), Gaps = 8/74 (11%)
Query 4 KILVRYNTRGNTYST----AWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIAR 59
+IL R N Y T +WL LG R + +++ N +C P A+
Sbjct 288 QILDRLNWILEKYFTYLRPSWLKKLGT----RRAYELIKIEDQNTDYSCIGPVNAAMNTV 343
Query 60 CWYLHEGHQTAAFR 73
C Y HEG + AF+
Sbjct 344 CVYFHEGPSSKAFQ 357
>sp|B0T064|RL1_CAUSK Large ribosomal subunit protein uL1 OS=Caulobacter
sp. (strain K31) OX=366602 GN=rplA PE=3 SV=1
Length=229
Score = 31.2 bits (69), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 32/67 (48%), Gaps = 5/67 (7%)
Query 19 AWLCALGKVLPFHRW--HTMVQTCTPNVTINCQDPAGGAL---IARCWYLHEGHQTAAFR 73
A + LGKVL + V T TPNV +D GGA+ + + +H G +F
Sbjct 120 ALVGRLGKVLGPRGLMPNPKVGTVTPNVGQAVKDAKGGAVEFRVEKAGIVHAGIGKVSFT 179
Query 74 DVLVVLN 80
D +++N
Sbjct 180 DEALLIN 186
>sp|Q8K0D2|HABP2_MOUSE Hyaluronan-binding protein 2 OS=Mus musculus
OX=10090 GN=Habp2 PE=1 SV=2
Length=558
Score = 29.3 bits (64), Expect = 3.7, Method: Composition-based stats.
Identities = 17/40 (43%), Positives = 18/40 (45%), Gaps = 1/40 (3%)
Query 31 HRWHTMVQTCTPNVTINCQDP-AGGALIARCWYLHEGHQT 69
H W +QT P T Q GGALI CW L H T
Sbjct 323 HPWQVSLQTSLPLTTSMPQGHFCGGALIHPCWVLTAAHCT 362
>sp|F1N4E5|TOIP1_BOVIN Torsin-1A-interacting protein 1 OS=Bos
taurus OX=9913 GN=TOR1AIP1 PE=3 SV=2
Length=600
Score = 28.5 bits (62), Expect = 7.4, Method: Composition-based stats.
Identities = 14/29 (48%), Positives = 20/29 (69%), Gaps = 3/29 (10%)
Query 51 PAGGALIARCWYLHEGHQTAAFRDVLVVL 79
PAG LI +Y + H++AAF+DV +VL
Sbjct 502 PAGSTLI---FYKYCDHESAAFKDVALVL 527
>sp|Q6L711|HABP2_RAT Hyaluronan-binding protein 2 OS=Rattus norvegicus
OX=10116 GN=Habp2 PE=2 SV=1
Length=558
Score = 28.1 bits (61), Expect = 8.7, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 18/40 (45%), Gaps = 1/40 (3%)
Query 31 HRWHTMVQTCTPNVTINCQDP-AGGALIARCWYLHEGHQT 69
H W +QT P T Q GG+LI CW L H T
Sbjct 323 HPWQVSLQTSLPLTTSMPQGHFCGGSLIHPCWVLTAAHCT 362
>sp|Q83MG9|CAIC_SHIFL Crotonobetaine/carnitine--CoA ligase OS=Shigella
flexneri OX=623 GN=caiC PE=3 SV=2
Length=517
Score = 28.1 bits (61), Expect = 10.0, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 7/45 (16%)
Query 5 ILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQ 49
++ YN R Y +AW CAL R + T P I+CQ
Sbjct 192 VITHYNLRFAGYYSAWQCAL-------RDDDVYMTVMPAFHIDCQ 229
Lambda K H a alpha
0.328 0.137 0.478 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: 5082478694
Results from round 2
Query= sp|Q80H93|NS8B_SARS ORF8b protein OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=8b PE=1 SV=1
Length=84
Score E
Sequences producing significant alignments: (Bits) Value
Sequences used in model and found again:
sp|Q80H93|NS8B_SARS ORF8b protein OS=Severe acute respiratory syn... 172 8e-57
Sequences not found previously or not previously below threshold:
sp|Q3I5I8|NS8_BCRP3 Non-structural protein 8 OS=Bat coronavirus R... 33.1 0.099
sp|Q0Q469|NS8_BC279 Non-structural protein 8 OS=Bat coronavirus 2... 33.1 0.099
sp|P0DTC8|NS8_SARS2 ORF8 protein OS=Severe acute respiratory synd... 32.7 0.12
sp|G5EGH7|LON8_CAEEL Protein lon-8 OS=Caenorhabditis elegans OX=6... 33.1 0.12
sp|Q3LZX5|NS8_BCHK3 Non-structural protein 8 OS=Bat coronavirus H... 31.9 0.23
sp|Q10231|ERG7_SCHPO Lanosterol synthase erg7 OS=Schizosaccharomy... 31.2 0.87
sp|Q8K0D2|HABP2_MOUSE Hyaluronan-binding protein 2 OS=Mus musculu... 30.0 2.1
sp|Q6L711|HABP2_RAT Hyaluronan-binding protein 2 OS=Rattus norveg... 28.8 5.3
>sp|Q80H93|NS8B_SARS ORF8b protein OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=8b PE=1 SV=1
Length=84
Score = 172 bits (435), Expect = 8e-57, Method: Composition-based stats.
Identities = 84/84 (100%), Positives = 84/84 (100%), Gaps = 0/84 (0%)
Query 1 MCLKILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIARC 60
MCLKILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIARC
Sbjct 1 MCLKILVRYNTRGNTYSTAWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIARC 60
Query 61 WYLHEGHQTAAFRDVLVVLNKRTN 84
WYLHEGHQTAAFRDVLVVLNKRTN
Sbjct 61 WYLHEGHQTAAFRDVLVVLNKRTN 84
>sp|Q3I5I8|NS8_BCRP3 Non-structural protein 8 OS=Bat coronavirus
Rp3/2004 OX=349344 GN=8 PE=3 SV=1
Length=121
Score = 33.1 bits (74), Expect = 0.099, Method: Composition-based stats.
Identities = 22/58 (38%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 25 GKVLPFH--RWHTMVQTCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
GK +P H + +C P + INCQ P G+LI RC Y + DV VVL+
Sbjct 66 GKRIPIHYQMFGNYTISCEP-LEINCQAPPVGSLIVRCSY---DYDFVEHHDVRVVLD 119
>sp|Q0Q469|NS8_BC279 Non-structural protein 8 OS=Bat coronavirus
279/2005 OX=389167 GN=8 PE=3 SV=1
Length=121
Score = 33.1 bits (74), Expect = 0.099, Method: Composition-based stats.
Identities = 22/58 (38%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 25 GKVLPFH--RWHTMVQTCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
GK +P H + +C P + INCQ P G+LI RC Y + DV VVL+
Sbjct 66 GKRIPIHYEMFGNYTISCEP-LEINCQAPPVGSLIVRCSY---DYDFVEHHDVRVVLD 119
>sp|P0DTC8|NS8_SARS2 ORF8 protein OS=Severe acute respiratory
syndrome coronavirus 2 OX=2697049 GN=8 PE=1 SV=1
Length=121
Score = 32.7 bits (73), Expect = 0.12, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 26/42 (62%), Gaps = 4/42 (10%)
Query 39 TCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
+C P TINCQ+P G+L+ RC + + + + DV VVL+
Sbjct 82 SCLP-FTINCQEPKLGSLVVRCSFYEDFLE---YHDVRVVLD 119
>sp|G5EGH7|LON8_CAEEL Protein lon-8 OS=Caenorhabditis elegans
OX=6239 GN=lon-8 PE=2 SV=1
Length=162
Score = 33.1 bits (74), Expect = 0.12, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 0/25 (0%)
Query 28 LPFHRWHTMVQTCTPNVTINCQDPA 52
+PF WH ++ PNVT+N +DPA
Sbjct 78 MPFILWHDLIVNGCPNVTLNSRDPA 102
>sp|Q3LZX5|NS8_BCHK3 Non-structural protein 8 OS=Bat coronavirus
HKU3 OX=442736 GN=8 PE=3 SV=1
Length=121
Score = 31.9 bits (71), Expect = 0.23, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 25 GKVLPFH--RWHTMVQTCTPNVTINCQDPAGGALIARCWYLHEGHQTAAFRDVLVVLN 80
G+ +P H + +C P + INCQ P G+LI RC Y + DV VVL+
Sbjct 66 GRRIPIHYEMFGNYTISCEP-LEINCQAPPVGSLIVRCSY---DYDFVEHHDVRVVLD 119
>sp|Q10231|ERG7_SCHPO Lanosterol synthase erg7 OS=Schizosaccharomyces
pombe (strain 972 / ATCC 24843) OX=284812 GN=erg7 PE=2
SV=1
Length=721
Score = 31.2 bits (69), Expect = 0.87, Method: Composition-based stats.
Identities = 22/74 (30%), Positives = 32/74 (43%), Gaps = 8/74 (11%)
Query 4 KILVRYNTRGNTYST----AWLCALGKVLPFHRWHTMVQTCTPNVTINCQDPAGGALIAR 59
+IL R N Y T +WL LG R + +++ N +C P A+
Sbjct 288 QILDRLNWILEKYFTYLRPSWLKKLGT----RRAYELIKIEDQNTDYSCIGPVNAAMNTV 343
Query 60 CWYLHEGHQTAAFR 73
C Y HEG + AF+
Sbjct 344 CVYFHEGPSSKAFQ 357
>sp|Q8K0D2|HABP2_MOUSE Hyaluronan-binding protein 2 OS=Mus musculus
OX=10090 GN=Habp2 PE=1 SV=2
Length=558
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 17/40 (43%), Positives = 18/40 (45%), Gaps = 1/40 (3%)
Query 31 HRWHTMVQTCTPNVTINCQDP-AGGALIARCWYLHEGHQT 69
H W +QT P T Q GGALI CW L H T
Sbjct 323 HPWQVSLQTSLPLTTSMPQGHFCGGALIHPCWVLTAAHCT 362
>sp|Q6L711|HABP2_RAT Hyaluronan-binding protein 2 OS=Rattus norvegicus
OX=10116 GN=Habp2 PE=2 SV=1
Length=558
Score = 28.8 bits (63), Expect = 5.3, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 18/40 (45%), Gaps = 1/40 (3%)
Query 31 HRWHTMVQTCTPNVTINCQDP-AGGALIARCWYLHEGHQT 69
H W +QT P T Q GG+LI CW L H T
Sbjct 323 HPWQVSLQTSLPLTTSMPQGHFCGGSLIHPCWVLTAAHCT 362
Lambda K H a alpha
0.317 0.140 0.532 0.792 4.96
Gapped
Lambda K H a alpha sigma
0.267 0.0428 0.140 1.90 42.6 43.6
Effective search space used: 5082478694
Search has CONVERGED!
Database: uniprot_sprot.fasta
Posted date: Apr 3, 2024 12:05 PM
Number of letters in database: 206,678,396
Number of sequences in database: 571,282
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40