Closed okapick closed 5 years ago
Sorry. I updated with a positve protein in the tremol analysis. It is not working the draw, disorder and domainseq functions. What do you think is happening? It is because my protein cant be draw.
Regards.
Hi, I just commit a fix to the domainseq issue. But for your domainseq command to work you need to provide an hca result file with hca domain annotation (you only have clusters in your example). Try, the command "hcatk segment -i myprot.fasta -o myprot.hca -m domain". I don't have any problem using the draw option with your sequence. Do you get an error (please open a new issue for the option) ?
Hi again. I am trying to run the command domainseq. I obtain this error.
My fasta is this
My hca file is this
Tremol file is this
Qname U Qdesc U Qseq M
Qname n Qdesc n Qseq D
Qname i Qdesc i Qseq V
Qname g Qdesc g Qseq N
Qname e Qdesc e Qseq S
Qname n Qdesc n Qseq T
Qname e Qdesc e Qseq K
Qname 0 Qdesc 0 Qseq W
Qname 0 Qdesc 0 Qseq R
Qname 0 Qdesc 0 Qseq P
Qname 4 Qdesc 4 Qseq L
Qname 4 Qdesc 4 Qseq Q
Qname 6 Qdesc 6 Qseq G
Qname 9 Qdesc 9 Qseq P
Qname . Qdesc . Qseq N
Qname p Qdesc p Qseq S
Qname 1 Qdesc 1 Qseq R
Qdom 1 1 3 Qdom 2 49 52 Qdom 3 126 183
Qdom 3 tr|A0A1E1XPV8|A0A1E1XPV8_9ACAR 0 1.2e-17 99.52 Qdom 3 tr|A0A1E1XKH0|A0A1E1XKH0_9ACAR 0 3.6e-15 99.32 Qdom 3 tr|A0A224Z1F7|A0A224Z1F7_9ACAR 0 3.6e-13 99.08 Qdom 3 tr|A0A1G4M4D2|A0A1G4M4D2_ANAPH 0 3e-11 98.78 Qdom 3 tr|A0A1E1XP71|A0A1E1XP71_9ACAR 0 2.5e-10 98.61 Qdom 3 tr|A0A2P8XAR8|A0A2P8XAR8_BLAGE 0 5e-08 98.04 Qdom 3 tr|U1YH85|U1YH85_ANEAE 0 2.4e-06 97.48 Qdom 3 tr|A0A1C7FEV6|A0A1C7FEV6_9VIBR 0 8.2e-06 97.24 Qdom 3 tr|A0A2P8Y6H7|A0A2P8Y6H7_BLAGE 0 2.9e-05 97.02 Qdom 3 tr|A0A131Z9P9|A0A131Z9P9_RHIAP 0 0.00024 96.53 Qdom 3 tr|A0A1S3JNB6|A0A1S3JNB6_LINUN 0 IPR018316/SM00865;IPR036525/SSF52490;IPR036525/G3DSA:3.40.50.1440;IPR008280/SSF55307;IPR037103/G3DSA:3.30.1330.20;IPR018316/PF03953;IPR000217/PR01161;IPR003008/SM00864;IPR023123/G3DSA:1.10.287.600;IPR000217/PTHR11588;IPR002453/PR01163 0.00031 96.46 Qdom 3 tr|A0A2T7PWA6|A0A2T7PWA6_POMCA 0 0.00035 96.43 Qdom 3 tr|A0A0B6YEL9|A0A0B6YEL9_9EUPU 0 0.00062 96.26 Qdom 3 tr|R7V3H0|R7V3H0_CAPTE 0 0.0013 96.02 Qdom 3 tr|A0A2H9N9F1|A0A2H9N9F1_9ARCH 0 0.0014 95.89 Qdom 3 tr|A0A151IUY3|A0A151IUY3_9HYME 0 0.0021 95.73 Qdom 3 tr|A0A1F2UF58|A0A1F2UF58_9BACT 0 0.0026 95.73 Qdom 3 tr|U1Y579|U1Y579_9ACTN 0 0.0032 95.64 Qdom 3 tr|A0A2C9LJI4|A0A2C9LJI4_BIOGL 0 0.0047 95.5 Qdom 3 tr|A0A2C9LTW0|A0A2C9LTW0_BIOGL 0 0.005 95.48 Qdom 3 tr|D3E443|D3E443_METRM 0 IPR026493/TIGR04165 0.0052 95.43 Qdom 3 tr|A0A1B6MD12|A0A1B6MD12_9HEMI 0 0.0053 95.45 Qdom 3 tr|A0A0F8XXA5|A0A0F8XXA5_9ZZZZ 0 0.0067 95.33 Qdom 3 tr|A0A2E5ENY5|A0A2E5ENY5_9BACT 0 0.0075 95.17 Qdom 3 tr|A0A094INJ6|A0A094INJ6_9BACT 0 0.009 95.18 Qdom 3 tr|A0A1W2G2G0|A0A1W2G2G0_9EURY 0 0.0098 95.06 Qdom 3 tr|A0A2H6JZR7|A0A2H6JZR7_9ARCH 0 0.0098 95.13 Qdom 3 tr|A0A1I7KFA1|A0A1I7KFA1_9FIRM 0 IPR025874/PF12773 0.012 95.02 Qdom 3 tr|A0A1B6CRJ9|A0A1B6CRJ9_9HEMI 0 0.012 95.03 Qdom 3 tr|A0A2T4LXA3|A0A2T4LXA3_STACR 0 0.015 94.87 Qdom 3 tr|A0A2I5LK77|A0A2I5LK77_PSEAI 0 0.016 94.77 Qdom 3 tr|A0A0H4PAR5|A0A0H4PAR5_9BACT 0 0.017 94.77 Qdom 3 tr|R0ALW0|R0ALW0_9FIRM 0 0.017 94.78 Qdom 3 tr|C1F715|C1F715_ACIC5 0 0.018 94.73 Qdom 3 tr|A0A151WKZ0|A0A151WKZ0_9HYME 0 0.018 94.74 Qdom 3 tr|A0A2G2R1B4|A0A2G2R1B4_9RHOB 0 0.019 94.64 Qdom 3 tr|A0A0B2SHZ4|A0A0B2SHZ4_GLYSO 0 IPR014900/PF08792 0.022 94.62 Qdom 3 tr|A0A2J6WUH8|A0A2J6WUH8_9EURY 0 0.024 94.26 Qdom 3 tr|L7M066|L7M066_9ACAR 0 0.026 94.36 Qdom 3 tr|A0A1I6H8E4|A0A1I6H8E4_9GAMM 0 0.035 94.23 Qdom 3 tr|A0A2V4ET49|A0A2V4ET49_AVIPA 0 0.039 93.9 Qdom 3 tr|A0A1F5SHZ8|A0A1F5SHZ8_9BACT 0 0.045 94.01 Qdom 3 tr|A0A0D2G9M8|A0A0D2G9M8_9DELT 0 IPR006640/PF10263;IPR006640/SM00731 0.046 94.0 Qdom 3 tr|A0A2B4RNB4|A0A2B4RNB4_STYPI 0 0.047 93.86 Qdom 3 tr|A0A2E5ZD94|A0A2E5ZD94_9EURY 0 0.048 93.89 Qdom 3 tr|A0A1V4YUG1|A0A1V4YUG1_9EURY 0 0.052 93.87 Qdom 3 tr|A0A2D5YFD5|A0A2D5YFD5_9GAMM 0 0.054 93.84 Qdom 3 tr|A0A1Z9U693|A0A1Z9U693_9EURY 0 0.06 93.58 Qdom 3 tr|A0A1V4B1T6|A0A1V4B1T6_9PAST 0 0.07 93.37 Qdom 3 tr|A0A1B6G3W5|A0A1B6G3W5_9HEMI 0 0.071 93.48 Qdom 3 tr|N2BGJ3|N2BGJ3_9HELI 0 0.075 93.3 Qdom 3 tr|A0A202BGF1|A0A202BGF1_CHRVL 0 IPR007684/PF04606 0.081 93.27 Qdom 3 tr|K1Q7Z1|K1Q7Z1_CRAGI 0 0.082 93.23 Qdom 3 tr|A0A0F9TXM1|A0A0F9TXM1_9ZZZZ 0 0.082 93.37 Qdom 3 tr|A0A101HUF4|A0A101HUF4_9FIRM 0 0.082 93.38 Qdom 3 tr|A0A016VA02|A0A016VA02_9BILA 0 0.085 93.33 Qdom 3 tr|V4B9F7|V4B9F7_LOTGI 0 0.094 93.21 Qdom 3 tr|A0A1V4IUX4|A0A1V4IUX4_9CLOT 0 0.096 92.8 Qdom 3 tr|V6AI18|V6AI18_PSEAI 0 0.097 93.17 Qdom 3 tr|A0A2P8XDX9|A0A2P8XDX9_BLAGE 0 0.1 93.13 Qdom 3 tr|A0A1S2DD73|A0A1S2DD73_9GAMM 0 0.11 92.95 Qdom 3 tr|A0A2M7CNP9|A0A2M7CNP9_9CHLR 0 0.12 92.84 Qdom 3 tr|A0A191TLX7|A0A191TLX7_9BACT 0 0.13 92.74 Qdom 3 tr|A0A1N7MKR9|A0A1N7MKR9_9GAMM 0 0.13 92.83 Qdom 3 tr|A0A101DRI4|A0A101DRI4_9EURY 0 0.15 92.51 Qdom 3 tr|A0A0F9BZU8|A0A0F9BZU8_9ZZZZ 0 0.16 92.42 Qdom 3 tr|A0A1V5ZXZ7|A0A1V5ZXZ7_9BACT 0 0.16 92.51 Qdom 3 tr|A0A085GAA8|A0A085GAA8_9GAMM 0 0.17 92.02 Qdom 3 tr|G5H1W1|G5H1W1_9FIRM 0 0.17 92.39 Qdom 3 tr|W9G9W3|W9G9W3_9MICO 0 0.18 91.85 Qdom 3 tr|C4V629|C4V629_9FIRM 0 IPR029063/SSF53335 0.19 91.55 Qdom 3 tr|E9JBM4|E9JBM4_SOLIN 0 0.2 91.84 Qdom 3 tr|A7SIE9|A7SIE9_NEMVE 0 0.2 91.86 Qdom 3 tr|C7Q7S2|C7Q7S2_CATAD 0 0.2 91.98 Qdom 3 tr|E9J6H1|E9J6H1_SOLIN 0 0.2 91.99 Qdom 3 tr|B7PYH8|B7PYH8_IXOSC 0 0.2 92.13 Qdom 3 tr|A0A037UV41|A0A037UV41_9RHIZ 0 0.21 91.98 Qdom 3 tr|A0A0F9EMP9|A0A0F9EMP9_9ZZZZ 0 0.21 92.02 Qdom 3 tr|X1PCN4|X1PCN4_9ZZZZ 0 IPR017896/PS51379 0.21 92.02 Qdom 3 tr|A0A0A9W1F3|A0A0A9W1F3_LYGHE 0 0.22 91.93 Qdom 3 tr|A0A2A2YQG8|A0A2A2YQG8_9ACTN 0 0.23 91.32 Qdom 3 tr|X1SHX7|X1SHX7_9ZZZZ 0 0.23 91.82 Qdom 3 tr|A0A2P2IQM7|A0A2P2IQM7_RHIMU 0 0.23 91.83 Qdom 3 tr|A0A2L2Z6P9|A0A2L2Z6P9_PARTP 0 0.24 91.79 Qdom 3 tr|A0A250FC13|A0A250FC13_9FLAO 0 0.24 91.8 Qdom 3 tr|A0A2D7XWT3|A0A2D7XWT3_9RHOB 0 0.26 91.31 Qdom 3 tr|C1EJ40|C1EJ40_MICCC 0 0.26 91.5 Qdom 3 tr|A0A1B6HVY7|A0A1B6HVY7_9HEMI 0 0.26 91.64 Qdom 3 tr|A0A2B4RSP5|A0A2B4RSP5_STYPI 0 0.27 91.52 Qdom 3 tr|A0A1V4IK17|A0A1V4IK17_9CLOT 0 0.28 91.51 Qdom 3 tr|T2MEU6|T2MEU6_HYDVU 0 IPR016135/SSF54495;IPR015940/PS50030;IPR023313/PS00183;IPR000608/PS50127;IPR015940/SM00165;IPR016135/G3DSA:3.10.110.10;IPR000608/cd00195;IPR000608/PF00179;IPR009060/SSF46934 0.29 91.39 Qdom 3 tr|A0A2B4SVE9|A0A2B4SVE9_STYPI 0 IPR012337/SSF53098;IPR001584/PS50994;IPR041588/PF17921;IPR036397/G3DSA:3.30.420.10 0.29 91.4 Qdom 3 tr|A0A151J169|A0A151J169_9HYME 0 0.3 90.78 Qdom 3 tr|A0A1R0WFT0|A0A1R0WFT0_9BACL 0 0.3 91.2 Qdom 3 tr|A0A2G2J2J1|A0A2G2J2J1_9PLAN 0 IPR019294/PF10122 0.3 91.33 Qdom 3 tr|A0A2P6L305|A0A2P6L305_NEPCL 0 0.32 91.19 Qdom 3 tr|A0A2H9NV05|A0A2H9NV05_9ARCH 0 0.32 91.22 Qdom 3 tr|A0A2B4SDV1|A0A2B4SDV1_STYPI 0 IPR000033/PS51120;IPR011042/G3DSA:2.120.10.30;IPR000033/SM00135;IPR000033/PF00058 0.33 91.12 Qdom 3 tr|A0A2B4SLC0|A0A2B4SLC0_STYPI 0 0.33 91.17 Qdom 3 tr|A0A016TSU9|A0A016TSU9_9BILA 0 0.34 91.09
Query domain 1
Domain Domain_arrangement number_of_protein
Query domain 2
Domain Domain_arrangement number_of_protein
Query domain 3
Domain Domain_arrangement number_of_protein
INFO 3 110 INFO 3 IPR018316/SM00865;IPR036525/SSF52490;IPR036525/G3DSA:3.40.50.1440;IPR008280/SSF55307;IPR037103/G3DSA:3.30.1330.20;IPR018316/PF03953;IPR000217/PR01161;IPR003008/SM00864;IPR023123/G3DSA:1.10.287.600;IPR000217/PTHR11588;IPR002453/PR01163 1 INFO 3 IPR026493/TIGR04165 1 INFO 3 IPR025874/PF12773 1 INFO 3 IPR014900/PF08792 1 INFO 3 IPR006640/PF10263;IPR006640/SM00731 1 INFO 3 IPR007684/PF04606 1 INFO 3 IPR029063/SSF53335 1 INFO 3 IPR017896/PS51379 1 INFO 3 IPR012337/SSF53098;IPR001584/PS50994;IPR041588/PF17921;IPR036397/G3DSA:3.30.420.10 1 INFO 3 IPR016135/SSF54495;IPR015940/PS50030;IPR023313/PS00183;IPR000608/PS50127;IPR015940/SM00165;IPR016135/G3DSA:3.10.110.10;IPR000608/cd00195;IPR000608/PF00179;IPR009060/SSF46934 1 INFO 3 IPR019294/PF10122 2 INFO 3 IPR000033/PS51120;IPR011042/G3DSA:2.120.10.30;IPR000033/SM00135;IPR000033/PF00058 1 INFO 3 IPR000253/PF00498;IPR000253/cd00060;IPR008984/SSF49879;IPR000253/PS50006 1 INFO 3 IPR010982/SSF47413 1 INFO 3 IPR024064/SSF144020 1 INFO 3 IPR024935/PF00301;IPR024934/PS50903 1 INFO 3 IPR001623/SM00271;IPR007581/cd06559;IPR001305/cd10719;IPR018253/PS00636;IPR002939/PF01556;IPR012724/MF_01152;IPR007581/MF_00801;IPR001305/PS51188;IPR001623/PF00226;IPR036410/SSF57938;IPR008971/SSF49493;IPR001623/cd06257;IPR001623/PR00625;IPR036869/G3DSA:1.10.287.110;IPR001305/PF00684;IPR036869/SSF46565;IPR001623/PS50076;IPR007581/PF04493 1 INFO 3 IPR036236/SSF57667;IPR013087/PF00096;IPR013087/PS50157;IPR013087/SM00355;IPR013087/PS00028 1