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LOCUS	    JX446708		    3762 bp    RNA     linear	VRL 12-OCT-2012
DEFINITION  HIV-1 isolate AA003b06R from Thailand vpr protein (vpr) gene,
	    partial cds; and vpu protein (vpu), envelope glycoprotein (env),
	    and nef protein (nef) genes, complete cds
ACCESSION   JX446708
VERSION     JX446708.1 GI:407732093
KEYWORDS    .
SOURCE	    Human immunodeficiency virus 1 (HIV-1)
  ORGANISM  Human immunodeficiency virus 1 Viruses; Retro-transcribing viruses;
	    Retroviridae; Orthoretrovirinae; Lentivirus; Primate lentivirus
	    group
REFERENCE   1 (bases 1 to 3762)
            Show all sequences for reference 1
  AUTHORS   Rolland,M., Edlefsen,P.T., Larsen,B.B., Tovanabutra,S.,
	    Sanders-Buell,E., Hertz,T., deCamp,A.C., Carrico,C., Menis,S.,
	    Magaret,C.A., Ahmed,H., Juraska,M., Chen,L., Konopa,P., Nariya,S.,
	    Stoddard,J.N., Wong,K., Zhao,H., Deng,W., Maust,B.S., Bose,M.,
	    Howell,S., Bates,A., Lazzaro,M., O'Sullivan,A., Lei,E.,
	    Bradfield,A., Ibitamuno,G., Assawadarachai,V., O'Connell,R.J.,
	    deSouza,M.S., Nitayaphan,S., RERKS-NGARM,S., Robb,M.L.,
	    McLellan,J.S., Georgiev,I., Kwong,P.D., Carlson,J.M., Michael,N.L.,
	    Schief,W.R., Gilbert,P.B., Mullins,J.I. and Kim,J.H.
  TITLE     Increased HIV-1 vaccine efficacy against viruses with genetic
	    signatures in Env V2.
  JOURNAL   Nature.. 490(7420); 417-20 (2012)
  PUBMED    22960785
REFERENCE   2 (bases 1 to 3762)
            Show all sequences for reference 2
  AUTHORS   Rolland,M., Edlefsen,P.T., Larsen,B.B., Tovanabutra,S.,
	    Sanders-Buell,E., Hertz,T., de Camp,A.C., Carrico,C., Menis,S.,
	    Magaret,C.A., Ahmed,H., Juraska,M., Chen,L., Konopa,P., Nariya,S.,
	    Stoddard,J.N., Wong,K., Zhao,H., Deng,W., Maust,B.S., Bose,M.,
	    Howell,S., Bates,A., Lazzaro,M., O'Sullivan,A., Lei,E.,
	    Bradfield,A., Ibitamuno,G., Assawadarachai,V., O'Connell,R.J., de
	    Souza,M.S., Nitayaphan,S., RERKS-NGARM,S., Robb,M.L.,
	    McLellan,J.S., Georgiev,I., Kwong,P.D., Carlson,J.M., Michael,N.L.,
	    Schief,W.R., Gilbert,P.B., Mullins,J.I. and Kim,J.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-AUG-2012) US Military HIV Research Program, 503
	    Robert Grant Ave, Silver Spring, MD 20910, USA
COMMENT     ##Assembly-Data-START## Sequencing Technology Sanger dideoxy
	    sequencing ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source	     1..3762
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="AA003b06R"
		     /isolation_source="plasma AA003b"
		     /host="Homo sapiens; RV144 trial participant AA003"
		     /db_xref="taxon:11676"
		     /country="Thailand"
		     /collection_date="2006"
		     /note="subtype: CRF01_AE"
     gene	     <1..60
		     /gene="vpr"
     CDS	     <1..60
		     /gene="vpr"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpr protein"
		     /protein_id="AFU26050.1"
		     /db_xref="GI:407732094"
		     /translation="HSRIGIIPGRRGRNGASRS"
     gene	     276..521
		     /gene="vpu"
     CDS	     276..521
		     /gene="vpu"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="AFU26051.1"
		     /db_xref="GI:407732095"
		     /translation="MTPLQISAIVGLVVALILAIVVWTIVAIEARKILRQRKIDRLVK
		     RIREREEDSGNESEGDTDELAKLVEMGDFNPWVGDNV"
     misc_feature    <360..503
		     /gene="vpu"
		     /note="Vpu protein; Region: Vpu; pfam00558"
		     /db_xref="CDD:109608"
     gene	     439..3063
		     /gene="env"
     CDS	     439..3063
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="AFU26052.1"
		     /db_xref="GI:407732096"
		     /translation="MRVKETQMNWPNLWKWGTLILGLVIMCSASDNLWVTVYYGVPVW
		     RDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEMRLENVTENFNMWKNNMVEQ
		     MQEDVISLWDQSLQPCVKLTPLCVTLNCTEANFTKVNNDTDTIKIGNITDEVRNCSFK
		     MTTEIIDKKQKFYALFYKLDIIQIENGNNNNSNSTSREYRLINCNTSAIKQACPKISF
		     DPIPIHYCTPAGYALLKCNDKNFNGTGPCNNVSSVQCTHGIKPVVSTQLLLNGSLAED
		     EIVIRSENLTDNAKTIIVHLNKSVEINCTRPSNNTRKSIPMGPGRAFYQTGDIIGDIR
		     KAYCKIDATKWNETINQVTKKLKEHFNGSITFEPHSGGDLEITTHHFNCRGEFFYCNT
		     SRLFNSTCLKNHNTRECNDTITTDGNIILHCRIKQIINMWQGAGQAMYAPPISGRINC
		     VSNITGILLTRDGGNTGTNDTSDTRKEIFRPGGGNMKDNWRSKLYKYKVVQIEPLGIA
		     PTRAKRRVVEREKRAVGIGAMIFGFLGAAGSTMGAASITLTVQARQLLSGIVQQQSNL
		     LRAIEAQQHMLQLTVWGIKQLQARVLAVERYLKDQKFLGLWGCSGKIICTTAVPWNSS
		     WSNKTYEEIWGNMTWIQWEREISNYTHQIYEILAESQDQQDRNEKELLELDKWASLWS
		     WFDITKWLWYIRIFIMIVGGLIGLRIVFAVISIVNRVRQGYSPLSFQTPTLLQRVPDR
		     PEGIEEGGGEPGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFSLIVARTVELLGH
		     SSLKGLRRGWEGLKYLGNLLLYWGRELKISAISLFDASAIAVAGWTDRIIEVAQRVWR
		     AILHIPRRIRQGLERTLL"
     misc_feature    535..1968
		     /gene="env"
		     /note="Envelope glycoprotein GP120; Region: GP120;
		     pfam00516"
		     /db_xref="CDD:109567"
     misc_feature    2086..2466
		     /gene="env"
		     /note="heptad repeat 1-heptad repeat 2 region (ectodomain)
		     of the gp41 subunit of human immunodeficiency virus
		     (HIV-1), and related domains; Region: HIV-1-like_HR1-HR2;
		     cd09909"
		     /db_xref="CDD:197369"
     misc_feature    order(2086..2145,2152..2250)
		     /gene="env"
		     /note="HR1; other site"
		     /db_xref="CDD:197369"
     misc_feature    order(2092..2094,2098..2106,2110..2127,2131..2145,2152..21
		     69,2173..2190,2194..2202,2206..2211,2215..2220,2227..2232,
		     2236..2244,2248..2274,2287..2289,2293..2295,2299..2310,233
		     8..2343,2350..2355,2362..2364,2371..2376,2383..2388,2392..
		     2397,2404..2409,2413..2418,2425..2430,2446..2451,2458..246
		     0)
		     /gene="env"
		     /note="homotrimer interface [polypeptide binding]; other
		     site"
		     /db_xref="CDD:197369"
     misc_feature    order(2338..2397,2401..2436,2440..2466)
		     /gene="env"
		     /note="HR2; other site"
		     /db_xref="CDD:197369"
     gene	     3065..3679
		     /gene="nef"
     CDS	     3065..3679
		     /gene="nef"
		     /codon_start="1"
		     /transl_table="1"
		     /product="nef protein"
		     /protein_id="AFU26053.1"
		     /db_xref="GI:407732097"
		     /translation="MGGKWSKRSKVEWSQVREKIKQTPPAAAGVGAVSQDLAKHGAVT
		     SSNMNNADCAWLEAQEDEEVGFPVRPQVPLRPMTYKGALDLSFFLKEKGGLEGLIYSR
		     KRQEILDLWVYHTQGYFPDWHNYTPGPGVRYPLCFGWCFKLVPLDPIEVEEANKGENN
		     CLLHPMSLHGIEDEEGEVLIWKFDSSLARKHIARELRPEYYKDC"
     misc_feature    3068..3673
		     /gene="nef"
		     /note="Negative factor, (F-Protein) or Nef; Region:
		     F-protein; pfam00469"
		     /db_xref="CDD:109523"
BASE COUNT     1307 a	 664 c	  910 g    881 t
ORIGIN
       1 catagcagaa taggtattat accagggaga agaggcagga atggagccag tagatcctaa 
      61 cctagagccc tggaatcacc cgggaagtca gcctacaact ccgtgtagca catgttactg 
     121 taaaaattgt tgctggcatt gtcaaatatg ctttctgaaa aaaggcttag gcatctccta 
     181 tggcaggaag aagcggaagc accgacgagg aactcctcac agcagtaaag atcatcaaaa 
     241 tcctatacca gagcagtaag taccaagtaa atgtaatgac acctttacaa attagtgcaa 
     301 tagtaggact ggtagtagcg ctaatcttag caatagtagt gtggactata gtagctatag 
     361 aagctaggaa aatactaagg caaagaaaaa tagatagatt agttaagaga ataagagaaa 
     421 gagaagaaga cagtggaaat gagagtgaag gagacacaga tgaattggcc aaacttgtgg 
     481 aaatggggga ctttaatcct tgggttggtg ataatgtgta gtgcctcaga caacttgtgg 
     541 gttacagttt attatggggt ccctgtgtgg agagatgcag ataccacctt attctgtgca 
     601 tcagatgcca aagcacatga gacagaagtg cacaatgtct gggccacaca tgcctgtgta 
     661 cccacagacc ccaacccaca agaaatgcgc ctggaaaatg taacagaaaa ttttaacatg 
     721 tggaaaaata acatggtaga gcagatgcag gaggatgtaa tcagtttatg ggatcaaagt 
     781 ctacagccat gtgtaaagtt aactcctctc tgtgttactt taaattgtac cgaagctaac 
     841 tttactaaag taaacaatga cactgacacc attaaaatag gaaatataac agatgaagta 
     901 agaaactgtt cttttaaaat gaccacagaa ataatagata agaagcagaa gttctatgca 
     961 cttttttata agcttgatat aatacaaata gagaatggga ataataacaa tagtaatagt 
    1021 actagtagag agtataggtt aataaattgt aatacttcag ccattaagca ggcttgtcca 
    1081 aagatatcct ttgatccaat tcctatacat tattgtactc cagctggtta tgcgctttta 
    1141 aagtgtaatg ataagaattt caatgggaca gggccatgta acaatgtcag ttcagtacaa 
    1201 tgcacacatg gaattaagcc agtggtatca actcaattgc tgttgaatgg cagtctagca 
    1261 gaagatgaga tagtaatcag atctgaaaat cttacagaca atgctaaaac cataatagta 
    1321 caccttaata aatctgtaga aattaattgt accagaccct ccaacaatac aagaaaaagt 
    1381 atacctatgg gaccaggacg agcattctat cagacaggag acataatagg agatataaga 
    1441 aaagcatatt gtaagattga tgcaacaaaa tggaatgaaa ctataaatca ggtaactaaa 
    1501 aaattaaaag agcactttaa tgggagcata acttttgaac cacactcagg aggagatcta 
    1561 gaaattacaa cacatcattt taattgtaga ggggaatttt tctattgcaa tacatcaaga 
    1621 ctgtttaata gcacttgctt aaaaaatcat aacaccaggg agtgtaatga cactatcaca 
    1681 acagatggca atatcatact tcactgcagg ataaagcaaa ttataaacat gtggcaggga 
    1741 gcaggacaag caatgtatgc tcctcccatc agtggaagaa ttaattgtgt atcaaacatt 
    1801 acaggaatac tattgacaag agatggtggt aatactggta caaatgatac aagtgatacc 
    1861 aggaaagaga tcttcagacc tggaggagga aatatgaagg acaattggag aagtaaatta 
    1921 tataaatata aagtagtaca aattgaacca ctaggaatag cacccaccag ggcaaagaga 
    1981 agagtggtgg agagagaaaa aagagcagtg ggaataggag ctatgatctt tgggttctta 
    2041 ggagcagccg gaagcactat gggcgcagcg tcaataacgc tgacggtaca agccagacaa 
    2101 ttattgtctg gtatagtgca acagcaaagc aatttgctga gggctataga ggcgcagcag 
    2161 catatgttgc aactcacagt ctggggcatt aaacagctcc aggcaagagt cctggctgtg 
    2221 gaaagatacc taaaggatca aaagttccta ggcctttggg gctgctctgg aaaaatcatc 
    2281 tgcaccactg ctgtgccctg gaactcctct tggagtaata aaacttatga agagatttgg 
    2341 ggtaacatga catggataca atgggagaga gaaattagca attacacaca ccaaatatat 
    2401 gaaatacttg cagaatcaca agaccagcag gacagaaatg aaaaggagtt attagaattg 
    2461 gacaaatggg caagcctgtg gagttggttt gacataacaa aatggctgtg gtatataaga 
    2521 atctttataa tgatagtagg aggtttaata ggtttaagaa tagtttttgc tgtaatttct 
    2581 atagtaaata gagttaggca gggatactca cctttgtctt tccagacccc tacccttctc 
    2641 cagagggtac ccgacagacc cgaaggaatc gaagaaggag gtggagagcc aggcagagac 
    2701 agatccgtgc gattagtgag cggattctta gcacttgcct gggacgatct acggagcctg 
    2761 tgcctcttca gctaccaccg cttgagagac ttcagcttga ttgtagcgag gactgtggaa 
    2821 cttctgggac acagcagtct caagggactg agacgggggt gggaaggcct caaatatctg 
    2881 gggaaccttc tgttatactg gggtcgggag ctgaaaatta gtgctatttc tttgtttgat 
    2941 gcttcagcaa tagcagtagc agggtggaca gataggatta tagaagtagc acaaagagtt 
    3001 tggagagcca tcctccacat acccagaaga atcagacaag gcttagaaag gactttgcta 
    3061 taaaatgggg ggcaagtggt caaaaagaag caaagtggaa tggtctcagg tcagggaaaa 
    3121 aataaagcaa actcctccag cagcagcagg agtaggagca gtatctcaag atctagctaa 
    3181 acatggagca gtaacaagta gtaatatgaa taatgctgat tgtgcctggc tggaagcaca 
    3241 agaggatgag gaggtaggct ttccagtcag accacaggta cctctaagac caatgactta 
    3301 taagggagct cttgatctta gcttcttttt aaaagaaaag gggggactgg aagggctaat 
    3361 ttactccagg aaaagacaag agatccttga cttatgggtt taccatacgc aaggctactt 
    3421 ccctgattgg cacaactaca caccaggacc aggggtcaga tacccactgt gctttggatg 
    3481 gtgcttcaag ctggtaccac ttgacccaat agaagtagag gaggccaaca aaggagaaaa 
    3541 caactgcctg ttacacccca tgagcctgca tggaatagag gatgaagaag gagaagtgct 
    3601 gatatggaag tttgacagct cactagcacg aaaacacata gcccgagaac tgcgtccaga 
    3661 gtactataaa gactgctgac aaagaagttt ctaactggga ctttccgctg gggactttcc 
    3721 aggggaggtg tggccggggc ggagttgggg agtggtttac cc
//
last modified: Tue May 31 10:56 2022


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