# --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- # target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target #------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- Zot PF05707.12 gi|313122740|ref|YP_004044666.1| - 0.0012 18.5 0.1 0.13 11.8 0.2 2.2 2 0 0 2 2 2 1 Zonular occludens toxin (Zot) AAA PF00004.29 gi|313122740|ref|YP_004044666.1| - 0.0089 16.4 0.0 2.4 8.6 0.0 2.3 2 0 0 2 2 2 1 ATPase family associated with various cellular activities (AAA) PhoH PF02562.16 gi|313122740|ref|YP_004044666.1| - 0.036 13.5 0.0 0.06 12.8 0.0 1.3 1 0 0 1 1 1 0 PhoH-like protein IstB_IS21 PF01695.17 gi|313122740|ref|YP_004044666.1| - 0.075 12.8 0.0 0.13 12.0 0.0 1.3 1 0 0 1 1 1 0 IstB-like ATP binding protein AAA_25 PF13481.6 gi|313122740|ref|YP_004044666.1| - 0.089 12.4 0.0 0.17 11.4 0.0 1.5 1 0 0 1 1 1 0 AAA domain AAA_5 PF07728.14 gi|313122740|ref|YP_004044666.1| - 0.1 12.6 0.0 0.18 11.8 0.0 1.4 1 0 0 1 1 1 0 AAA domain (dynein-related subfamily) Mg_chelatase PF01078.21 gi|313122740|ref|YP_004044666.1| - 0.15 11.4 0.0 0.25 10.7 0.0 1.3 1 0 0 1 1 1 0 Magnesium chelatase, subunit ChlI RNA_helicase PF00910.22 gi|313122740|ref|YP_004044666.1| - 0.16 12.4 0.0 0.57 10.6 0.0 2.0 2 0 0 2 2 2 0 RNA helicase AAA_30 PF13604.6 gi|313122740|ref|YP_004044666.1| - 0.24 11.1 0.0 0.4 10.4 0.0 1.3 1 0 0 1 1 1 0 AAA domain Rnk_N PF14760.6 gi|313122743|ref|YP_004044669.1| - 1.9 9.0 6.9 16 6.1 1.7 2.9 2 0 0 2 2 2 0 Rnk N-terminus HTH_38 PF13936.6 gi|313122744|ref|YP_004044670.1| - 0.00059 19.5 0.0 0.0012 18.5 0.0 1.5 2 0 0 2 2 2 1 Helix-turn-helix domain HTH_23 PF13384.6 gi|313122744|ref|YP_004044670.1| - 0.057 13.2 0.2 0.14 12.0 0.1 1.8 1 1 0 1 1 1 0 Homeodomain-like domain HTH_28 PF13518.6 gi|313122744|ref|YP_004044670.1| - 0.072 13.2 0.3 0.13 12.5 0.1 1.6 2 0 0 2 2 2 0 Helix-turn-helix domain Ribosomal_L2_C PF03947.18 gi|313122745|ref|YP_004044671.1| - 0.06 13.5 0.0 0.074 13.3 0.0 1.1 1 0 0 1 1 1 0 Ribosomal Proteins L2, C-terminal domain Vfa1 PF08432.10 gi|313122746|ref|YP_004044672.1| - 3.7 7.8 6.0 7.4 6.9 6.0 1.4 1 0 0 1 1 1 0 AAA-ATPase Vps4-associated protein 1 AAA_19 PF13245.6 gi|313122747|ref|YP_004044673.1| - 1.1e-11 45.3 0.0 5.6e-11 43.0 0.0 2.0 2 0 0 2 2 2 1 AAA domain UvrD_C PF13361.6 gi|313122747|ref|YP_004044673.1| - 1.2e-09 38.0 0.0 2e-08 34.0 0.0 2.1 2 0 0 2 2 2 1 UvrD-like helicase C-terminal domain UvrD_C_2 PF13538.6 gi|313122747|ref|YP_004044673.1| - 4e-08 33.0 0.4 1.5e-07 31.2 0.4 2.0 1 1 0 1 1 1 1 UvrD-like helicase C-terminal domain Viral_helicase1 PF01443.18 gi|313122747|ref|YP_004044673.1| - 1e-06 28.7 0.0 0.05 13.3 0.0 2.9 3 0 0 3 3 3 2 Viral (Superfamily 1) RNA helicase UvrD-helicase PF00580.21 gi|313122747|ref|YP_004044673.1| - 1.9e-06 27.6 0.0 0.025 14.1 0.0 2.6 2 1 0 2 2 2 2 UvrD/REP helicase N-terminal domain AAA_30 PF13604.6 gi|313122747|ref|YP_004044673.1| - 2.3e-06 27.5 0.0 0.00076 19.2 0.0 2.5 2 0 0 2 2 2 2 AAA domain AAA_22 PF13401.6 gi|313122747|ref|YP_004044673.1| - 0.042 14.1 0.0 16 5.8 0.0 2.5 2 0 0 2 2 2 0 AAA domain RuvB_N PF05496.12 gi|313122747|ref|YP_004044673.1| - 0.078 12.7 0.1 2.6 7.8 0.0 2.3 2 0 0 2 2 2 0 Holliday junction DNA helicase RuvB P-loop domain AAA_16 PF13191.6 gi|313122747|ref|YP_004044673.1| - 0.17 12.2 0.1 1.7 9.0 0.0 2.6 2 1 0 2 2 2 0 AAA ATPase domain AAA PF00004.29 gi|313122747|ref|YP_004044673.1| - 0.19 12.2 0.0 1.5 9.3 0.0 2.2 2 0 0 2 2 2 0 ATPase family associated with various cellular activities (AAA) Phage_integrase PF00589.22 gi|313122749|ref|YP_004044675.1| - 1.2e-12 48.0 0.2 1.3e-11 44.6 0.2 2.1 1 1 0 1 1 1 1 Phage integrase family Phage_integrase PF00589.22 gi|313122750|ref|YP_004044676.1| - 2.4e-09 37.2 0.0 1.1e-08 35.0 0.0 2.0 1 1 0 1 1 1 1 Phage integrase family zf-primase PF09329.11 gi|313122750|ref|YP_004044676.1| - 1.2e-05 25.0 2.4 0.0048 16.7 0.4 2.5 1 1 1 2 2 2 2 Primase zinc finger Malate_DH PF12434.8 gi|313122750|ref|YP_004044676.1| - 0.5 10.4 2.0 1.8 8.7 2.0 1.9 1 0 0 1 1 1 0 Malate dehydrogenase enzyme Phage_integrase PF00589.22 gi|313122755|ref|YP_004044681.1| - 1.9e-25 89.6 0.0 2.3e-25 89.4 0.0 1.1 1 0 0 1 1 1 1 Phage integrase family RHH_1 PF01402.21 gi|313122756|ref|YP_004044682.1| - 0.00079 19.3 0.0 0.0013 18.6 0.0 1.3 1 0 0 1 1 1 1 Ribbon-helix-helix protein, copG family ParE_toxin PF05016.15 gi|313122757|ref|YP_004044683.1| - 5.1e-06 27.0 0.1 6.7e-06 26.6 0.1 1.2 1 0 0 1 1 1 1 ParE toxin of type II toxin-antitoxin system, parDE VAPB_antitox PF02697.14 gi|313122758|ref|YP_004044684.1| - 5.4e-06 27.1 0.1 1.7e-05 25.5 0.0 1.9 2 0 0 2 2 2 1 Putative antitoxin RHH_1 PF01402.21 gi|313122758|ref|YP_004044684.1| - 0.11 12.5 0.3 0.31 11.0 0.3 1.9 1 1 0 1 1 1 0 Ribbon-helix-helix protein, copG family ACOX PF01756.19 gi|313122759|ref|YP_004044685.1| - 0.17 11.4 0.0 0.22 11.0 0.0 1.2 1 0 0 1 1 1 0 Acyl-CoA oxidase MazE_antitoxin PF04014.18 gi|313122761|ref|YP_004044687.1| - 0.00022 21.0 0.0 0.0003 20.7 0.0 1.2 1 0 0 1 1 1 1 Antidote-toxin recognition MazE, bacterial antitoxin TOBE PF03459.17 gi|313122761|ref|YP_004044687.1| - 0.025 14.9 0.0 0.028 14.7 0.0 1.1 1 0 0 1 1 1 0 TOBE domain # # Program: hmmscan # Version: 3.2.1 (June 2018) # Pipeline mode: SCAN # Query file: /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.faa # Target file: /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm # Option settings: /oak/stanford/groups/akundaje/marinovg/programs/hmmer-3.2.1/bin/hmmscan -o /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.PFam32-A --tblout /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.PFam32-A.tblout --cpu 20 /oak/stanford/groups/akundaje/marinovg/genomes/PFam/PFam32.0/Pfam-A.hmm /oak/stanford/groups/akundaje/marinovg/genomes/Archaea/Euryarchaeota/Halogeometricum_borinquense_DSM_11551_uid54919/NC_014737.faa # Current dir: /oak/stanford/groups/akundaje/marinovg/genomes # Date: Mon Mar 25 12:32:18 2019 # [ok]