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{"id":7259,"date":"2021-12-03T13:23:22","date_gmt":"2021-12-03T18:23:22","guid":{"rendered":"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/?p=7259"},"modified":"2021-12-03T13:23:22","modified_gmt":"2021-12-03T18:23:22","slug":"hmm-release-7","status":"publish","type":"post","link":"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/","title":{"rendered":"New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0"},"content":{"rendered":"<p>Release 7.0 of the NCBI Hidden Markov models (HMM), used by the Prokaryotic Genome Annotation Pipeline (<a href=\"https:\/\/www.ncbi.nlm.nih.gov\/genome\/annotation_prok\/?utm_source=blog&utm_medium=referral&utm_campaign=genome-annotation&utm_term=hmm7&utm_content=20211203link1\">PGAP<\/a>), is now available for <a href=\"https:\/\/ftp.ncbi.nlm.nih.gov\/hmm\/7.0\">download<\/a>. You can search this collection against your favorite prokaryotic proteins to identify their function using the <a href=\"http:\/\/eddylab.org\/software\/hmmer\/Userguide.pdf\">HMMER<\/a> sequence analysis package.<img data-recalc-dims=\"1\" loading=\"lazy\" decoding=\"async\" data-attachment-id=\"7263\" data-permalink=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/hmm6\/\" data-orig-file=\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?fit=1364%2C851&ssl=1\" data-orig-size=\"1364,851\" data-comments-opened=\"1\" data-image-meta=\"{"aperture":"0","credit":"","camera":"","caption":"","created_timestamp":"0","copyright":"","focal_length":"0","iso":"0","shutter_speed":"0","title":"","orientation":"0"}\" data-image-title=\"HMM6\" data-image-description=\"<p>Figure 1. Recently added Protein Family Model for the histidine-histamine antiporter family, with GO terms (framed in red).<\/p>\n\" data-image-caption=\"\" data-medium-file=\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?fit=300%2C187&ssl=1\" data-large-file=\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?fit=1024%2C639&ssl=1\" class=\"alignnone size-large wp-image-7263\" src=\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=1024%2C639&ssl=1\" alt=\"\" width=\"1024\" height=\"639\" srcset=\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=1024%2C639&ssl=1 1024w, https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=300%2C187&ssl=1 300w, https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=150%2C94&ssl=1 150w, https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=768%2C479&ssl=1 768w, https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=1200%2C749&ssl=1 1200w, https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?resize=270%2C168&ssl=1 270w, https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6.png?w=1364&ssl=1 1364w\" sizes=\"auto, (max-width: 1024px) 100vw, 1024px\" \/><\/p>\n<p><em>Figure 1. Recently added HMM-based Protein Family Model for the histidine-histamine antiporter family (<a href=\"https:\/\/www.ncbi.nlm.nih.gov\/genome\/annotation_prok\/evidence\/NF040512\/?utm_source=blog&utm_medium=referral&utm_campaign=genome-annotation&utm_term=hmm7&utm_content=20211203link2\">NF040512<\/a>), with GO terms (framed in red).<\/em><\/p>\n<p><!--more--><\/p>\n<p>Release 7.0 contains 15,346 models, including 111 that are new since 6.0. We have added better names, EC numbers, GO terms or gene symbols to over 2,500 existing HMMs. You can search and view the details for these in the <a href=\"https:\/\/www.ncbi.nlm.nih.gov\/protfam\/?utm_source=blog&utm_medium=referral&utm_campaign=genome-annotation&utm_term=hmm7&utm_content=20211203link3\">Protein Family Model collection<\/a> (Figure 1).\u00a0 Each record in the Protein Family Model collection, which also includes conserved domain architectures and BlastRules models in addition to HMMs, shows the RefSeq proteins that are named by the model.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Release 7.0 of the NCBI Hidden Markov models (HMM), used by the Prokaryotic Genome Annotation Pipeline (PGAP), is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. Figure 1. Recently added HMM-based Protein Family Model for the histidine-histamine antiporter family … <a href=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0<\/span> <span class=\"meta-nav\">→<\/span><\/a><\/p>\n","protected":false},"author":42204617,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_coblocks_attr":"","_coblocks_dimensions":"","_coblocks_responsive_height":"","_coblocks_accordion_ie_support":"","jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_publicize_message":"New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0","jetpack_publicize_feature_enabled":true,"jetpack_social_post_already_shared":true,"jetpack_social_options":{"image_generator_settings":{"template":"highway","enabled":false},"version":2}},"categories":[2248],"tags":[693060700,693060701,15779425,576953096],"table_tags":[],"class_list":["post-7259","post","type-post","status-publish","format-standard","hentry","category-whats-new","tag-hidden-markov-models-hmm","tag-hmmer","tag-pgap","tag-prokaryotic-genome-annotation"],"jetpack_publicize_connections":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v24.6 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0 - NCBI Insights<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0 - NCBI Insights\" \/>\n<meta property=\"og:description\" content=\"Release 7.0 of the NCBI Hidden Markov models (HMM), used by the Prokaryotic Genome Annotation Pipeline (PGAP), is now available for download. 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Recently added HMM-based Protein Family Model for the histidine-histamine antiporter family … Continue reading New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0 →\" \/>\n<meta property=\"og:url\" content=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\" \/>\n<meta property=\"og:site_name\" content=\"NCBI Insights\" \/>\n<meta property=\"article:publisher\" content=\"https:\/\/www.facebook.com\/ncbi.nlm\" \/>\n<meta property=\"article:published_time\" content=\"2021-12-03T18:23:22+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6-1024x639.png\" \/>\n<meta name=\"author\" content=\"NCBI Staff\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@NCBI\" \/>\n<meta name=\"twitter:site\" content=\"@NCBI\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"NCBI Staff\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"1 minute\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"Article\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/#article\",\"isPartOf\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\"},\"author\":{\"name\":\"NCBI Staff\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/#\/schema\/person\/4f41ea6a31cea38a9a1b1419c048e50b\"},\"headline\":\"New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0\",\"datePublished\":\"2021-12-03T18:23:22+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\"},\"wordCount\":144,\"commentCount\":0,\"publisher\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/#organization\"},\"image\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2021\/12\/HMM6-1024x639.png\",\"keywords\":[\"Hidden Markov Models (HMM)\",\"HMMER\",\"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)\",\"Prokaryotic genome annotation\"],\"articleSection\":[\"What's New\"],\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"CommentAction\",\"name\":\"Comment\",\"target\":[\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/#respond\"]}]},{\"@type\":\"WebPage\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\",\"url\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2021\/12\/03\/hmm-release-7\/\",\"name\":\"New models added to the NCBI Hidden Markov models (HMM) collection with release 7.0 - 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