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LOCUS KX216922 4734 bp RNA linear VRL 09-MAY-2017
DEFINITION HIV-1 isolate CH0848.3.d0017.210.52 from Malawi pol protein (pol)
gene, partial cds; and vif protein (vif), vpr protein (vpr), tat
protein (tat), rev protein (rev), vpu protein (vpu), envelope
glycoprotein (env), and nef protein (nef) genes, complete cds
ACCESSION KX216922
VERSION KX216922.1 GI:1187515169
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 4734)
Show all sequences for reference 1
AUTHORS Bonsignori,M., Kreider,E.F., Fera,D., Meyerhoff,R.R., Bradley,T.,
Wiehe,K., Alam,S.M., Aussedat,B., Walkowicz,W.E., Hwang,K.-K.,
Saunders,K.O., Zhang,R., Gladden,M.A., Monroe,A., Kumar,A.,
Xia,S.-M., Cooper,M., Louder,M.K., McKee,K., Bailer,R.T.,
Pier,B.W., Jette,C.A., Kelsoe,G., Williams,W.B., Morris,L.,
Kappes,J., Wagh,K., Kamanga,G., Cohen,M.S., Hraber,P.T.,
Montefiori,D.C., Trama,A., Liao,H.-X., Kepler,T.B., Moody,M.A.,
Gao,F., Danishefsky,S.J., Mascola,J.R., Shaw,G.M., Hahn,B.H.,
Harrison,S.C., Korber,B.T. and Haynes,B.F.
TITLE Staged induction of HIV-1 glycan-dependent broadly neutralizing
antibodies.
JOURNAL Sci Transl Med. 2017 Mar 15;9(381). pii: eaai7514. doi:
10.1126/scitranslmed.aai7514.
PUBMED 28298420
REFERENCE 2 (bases 1 to 4734)
Show all sequences for reference 2
AUTHORS Bonsignori,M., Kreider,E., Fera,D., Meyerhoff,R., Bradley,T.,
Wiehe,K., Alam,S., Hwang,K.-K., Saunders,K., Xia,S.-M., Zhang,R.,
Gladden,M., Monroe,A., Pier,B., Jette,C., Kelsoe,G., Louder,M.,
Morris,L., Kappes,J., Wagh,K., Kamanga,G., Cohen,M., Hraber,P.,
Montefiori,D., Trama,A., Liao,H.-X., Kepler,T., Moody,M., Gao,F.,
Mascola,J., Shaw,G., Hahn,B., HARRISON,S., Korber,B. and Haynes,B.
TITLE Direct Submission
JOURNAL Submitted (06-MAY-2016) Theoretical Biology and Biophysics, Los
Alamos National Laboratory, PO Box 1663, Los Alamos, NM 87545, USA
COMMENT Annotation information was provided by the author. Some of the
information does not have GenBank feature identifiers and is being
provided in the comment section. Information in this section is
searchable in HIV Database at Los Alamos (hiv.lanl.gov).;
##HIVDataBaseData-START## Patient code 703010848 Days
post-infection 17 Viral load 442749 CD4 count NA Culture method
uncultured Sample tissue plasma HLA type A*0205/08 A*3002/10/12
B*4501/03 B*5801 Cw*07 Cw*04 Patient sex M ##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..4734
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="CH0848.3.d0017.210.52"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="Malawi"
/collection_date="2008"
/subtype="C"
gene <1..173
/gene="pol"
CDS <1..173
/gene="pol"
/codon_start="3"
/transl_table="1"
/product="pol protein"
/protein_id="ARM43713.1"
/translation="PIWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKVKIIKDYGKQMA
GADCVAGRQDED"
gene 118..696
/gene="vif"
CDS 118..696
/gene="vif"
/codon_start="1"
/transl_table="1"
/product="vif protein"
/protein_id="ARM43714.1"
/translation="MENRWQVLIVWQVDRMRIRTWNSLVKHHMYVSRRASGWFYRHHF
ESRHPKTSSEVHIPLGEARLIIKTHWGLQTGERDWHLGHGVSIEWRLRRYSTQVDPSL
ADQLIHIHYFDCFAESAIRKAILGHIVSPRCDYQAGHNKVGSLQYLALTALIKPKRIK
PPLPSVSKLVEDRWNNPQRTRGRRGNHTMNGH"
gene 636..926
/gene="vpr"
CDS 636..926
/gene="vpr"
/codon_start="1"
/transl_table="1"
/product="vpr protein"
/protein_id="ARM43715.1"
/translation="MEQPPEDQGPQREPYNEWTLELLEELKQEAVRHFPRTWLHGLGQ
HIYETYGDTWMGVQAIIRILQQLLFVHFRIGCQHSRIGIMPRRRARNGTSRS"
gene 907..3576
/gene="tat"
CDS join(907..1121,3486..3576)
/gene="tat"
/codon_start="1"
/transl_table="1"
/product="tat protein"
/protein_id="ARM43716.1"
/translation="MEPVDPNLEPWNHPGSQPKTPCNNCYCKHCSYHCLVCFQTKGLG
ISYGRKKRRQRRSAPPSSEDHQNPLSKQPLPQTRGNPTGSEESKKKVESKTETDPFD"
gene 1046..3733
/gene="rev"
CDS join(1046..1121,3486..3733)
/gene="rev"
/codon_start="1"
/transl_table="1"
/product="rev protein"
/protein_id="ARM43717.1"
/translation="MAGRSGDSDEALLRAVRIIKILYQSNPYPKPEGTRQAQRNRRRR
WRARQRQIHSISERILANCLGRPAEPVPLQLPPIERLSIAGSESGGTSGTQQSQGTAE
GVGSP"
gene 1145..1405
/gene="vpu"
CDS 1145..1405
/gene="vpu"
/codon_start="1"
/transl_table="1"
/product="vpu protein"
/protein_id="ARM43718.1"
/translation="MFDLYAKVDYRLGVGALIVALIIAIIVWTIVYIEYRKLLRQRKI
DWLIKRIRERAEDSGNESDGDTEELSTMVDMGHLRLLDANDL"
gene 1323..3923
/gene="env"
CDS 1323..3923
/gene="env"
/codon_start="1"
/transl_table="1"
/product="envelope glycoprotein"
/protein_id="ARM43719.1"
/translation="MRVMGILKNYPQWWIWGILGFWMLMICNGKGNLWVTVYYGVPVW
KEAKTTLFCASDAKAYEKEVHNVWATHACVPTDPSPQELVLENVTENFNMWKNDMVDQ
MHEDIISLWDQSLKPCVKLTPLCVTLNCSNATVDSSKVYDTRSNVNVTSINNTIMGEM
KNCSFNTTTEIRDKEKKEYALFYRPDVVPLDETSNTSEYRLINCNTSAVTQACPKVTF
EPIPIHYCAPAGYAILKCNNKTFNGTGPCSNVSTVQCTHGIRPVVSTQLLLNGSLAEK
EIVIRSENLTNNAKIIIVHLNTSVEIVCTRPGNNTRKSVRIGPGQTFYATGDIIGDIR
QAHCNISERQWNKTLQEVGKELQKHFPNKTIKYERSAGGDMEIATHSFNCGGEFFYCN
TSNLFNGTYNGTYISTNSTSNITLQCRIKQIINMWQGVGRAMYAPPIAGNITCKSNIT
GLLLTRDGGTKNNSNETEETFRPAGGDMRDNWRSELYKYKVVEIQPLGIAPTGAKRRV
VEREKRAAGLGALFLGFLGAAGSTMGAASITLTVQARQLLSGIVQQQSNLLRAIEAQQ
HMLQLTVWGIKQLQARVLALERYLKDQQLLGMWGCSGKLICTTAVPWNTSWSNKSEKD
IWDNMTWMQWEREISNYTETIYMLLEDSQHQQERNEKDLLALDSWNSLWNWFNITNWL
WYIRIFIMIVGGLIGLRIVFAVLSIVNRVRQGYSPLSLQTLTPNPREPDRLRGIEEEG
GEQDRDRSIRLVSGFLPIVWDDLRSLCLFSYHRLRDFLLLAARVVELLGRSSLRGLQR
GWEVLKYLGSLVQYWGLELKKSAISLFDTIAIAVAEGTDRIIEVIQRFCRAIRNIPTR
IRQGFEASLL"
gene 3925..4548
/gene="nef"
CDS 3925..4548
/gene="nef"
/codon_start="1"
/transl_table="1"
/product="nef protein"
/protein_id="ARM43720.1"
/translation="MGSKWSKSSVVGWPAVRERIRRTEPAAEGVGAASRDLEEHGALT
TSNTASNNADCAWLEAQEEGEEVGFPVRPQVPLRPMTYKSAFDLSFFLKEKGGLEGLI
YSKQRQDILDLWVYNTQGFFPDWQNYTPGPGVRYPLTFGWCFKLVPVDPREVEEANKG
ENNCLLHPMSLQGMEDEHGEVLRWKFDSSLARRHMARELHPEYYKDC"
BASE COUNT 1615 a 835 c 1177 g 1107 t
ORIGIN
1 atcctatttg gaaaggacca gccaaactac tctggaaagg tgaaggggca gtagtaatac
61 aagataacag tgacataaag gtagtaccaa ggaggaaagt aaaaatcatt aaggactatg
121 gaaaacagat ggcaggtgct gattgtgtgg caggtagaca ggatgaggat tagaacatgg
181 aatagtttag taaagcacca tatgtatgtt tcaaggagag ctagtgggtg gttttacaga
241 catcattttg aaagcagaca tccaaaaaca agttcagaag tacatatacc attaggagaa
301 gctagattga taataaaaac acattggggt ttgcaaacag gagaaagaga ctggcatttg
361 ggtcatggag tctccataga atggagactg agaagatata gcacacaagt agaccctagc
421 ctggcagacc agctaattca tattcattat tttgattgtt ttgcagaatc tgccataagg
481 aaagccatat taggacacat agttagtcct aggtgtgact atcaagcagg acataataag
541 gtaggatctc tacaatactt ggccctgaca gcattgataa aaccaaaaag gataaagcca
601 cctctgccta gtgttagcaa gttagtagag gatagatgga acaaccccca gaggaccagg
661 ggccgcagag ggaaccatac aatgaatgga cactagagct tttagaagaa ctcaagcagg
721 aagctgtcag acactttcct agaacgtggc tccatggctt gggacaacac atctatgaaa
781 cctatgggga tacttggatg ggagtccaag ctataataag aattttgcaa caactactgt
841 ttgttcattt cagaattggg tgccagcaca gcagaatagg cattatgcca cgtagaagag
901 caagaaatgg aaccagtaga tcctaaccta gagccctgga accatccagg aagtcagcca
961 aaaacccctt gtaataattg ttattgtaaa cactgtagct accattgttt agtttgcttt
1021 cagacaaaag gcttaggcat ttcctatggc aggaagaagc ggagacagcg acgaagcgct
1081 cctccgagca gtgaggatca tcaaaatcct ctatcaaagc agtaagtaac caatagtaga
1141 tgtaatgttt gatttatatg caaaagtaga ttatagacta ggagtaggag cattgatagt
1201 agcactaatc atagcaataa ttgtgtggac catagtatat atagaatata ggaaactgtt
1261 aagacaaagg aaaatagact ggttaattaa aagaattagg gaaagagctg aagatagtgg
1321 caatgagagt gatggggata ctgaagaatt atccacaatg gtggatatgg ggcatcttag
1381 gcttttggat gctaatgatt tgtaatggga aaggaaactt gtgggtcaca gtctattatg
1441 gggtaccagt atggaaagaa gcaaaaacta ctctgttttg tgcatcagat gccaaagcat
1501 atgagaaaga agtgcataat gtctgggcta cacatgcctg tgtacccaca gaccccagcc
1561 cacaagaatt ggttttggaa aatgtaacag aaaattttaa catgtggaaa aatgatatgg
1621 tagatcagat gcatgaggat ataatcagtc tatgggatca aagcctaaag ccatgtgtaa
1681 agttgacccc actctgtgtc actttaaatt gtagtaatgc tactgttgac agtagtaaag
1741 tttatgatac taggagtaat gttaatgtta ccagtatcaa taataccata atgggagaaa
1801 tgaaaaattg ctctttcaat acaaccacag aaataagaga taaggaaaag aaggaatatg
1861 cactttttta tagacctgat gtagtaccac ttgatgaaac aagcaatacc agtgagtata
1921 gattaataaa ttgtaatacc tcagccgtaa cacaagcctg tccaaaggtc acttttgaac
1981 caattcctat acattattgt gctccagctg gttatgcgat tctaaagtgt aataataaga
2041 cattcaatgg aacaggacca tgcagtaatg tcagcacagt acaatgtaca catggaatta
2101 ggccagtggt atcaacccaa ctactgttaa atggtagtct ggcagaaaaa gagatagtaa
2161 ttagatctga aaacctgaca aacaatgcca aaataataat agtccatctt aacacctctg
2221 tagaaattgt gtgtacaagg cccggcaata atacaaggaa aagtgtgaga ataggaccag
2281 gacaaacatt ctatgcaaca ggagacataa taggagatat aagacaagca cattgtaaca
2341 ttagtgaaag gcaatggaat aaaactttac aagaggtagg taaagaattg caaaaacact
2401 tccctaataa gacaataaag tatgaacgat ccgcaggagg agacatggaa attgcaacac
2461 atagctttaa ttgtggagga gaatttttct attgcaatac atcaaatctg tttaatggta
2521 catacaatgg tacatacata agtacaaaca gtacttcaaa catcacgctt caatgcagaa
2581 taaaacaaat tataaacatg tggcaggggg taggaagagc aatgtatgct cctcccattg
2641 caggaaacat aacatgtaaa tcaaatatca cagggctact attgacacgt gatggaggga
2701 ccaaaaataa tagcaacgag acagaggaga cattcaggcc tgcaggagga gatatgaggg
2761 ataattggag aagtgaatta tataaatata aagtagtaga aattcagcca ttaggaatag
2821 caccaactgg tgcaaaaagg agagtggtgg agagagaaaa aagagcagca ggactaggag
2881 ctttgttcct tgggttcttg ggagcagcag gaagcactat gggcgcagca tcaataacgc
2941 tgacggtaca ggccagacaa ttgttgtctg gtatagtgca acagcaaagc aatttgctga
3001 gggctataga ggcgcaacag catatgttgc aactcacggt ctggggcatc aagcagctcc
3061 aggcaagagt cctggctctg gaaagatacc taaaggatca acagctccta gggatgtggg
3121 gctgctctgg aaaactcatc tgcaccactg ctgtgccttg gaacactagt tggagtaata
3181 aatctgaaaa ggatatttgg gataacatga catggatgca gtgggagaga gaaattagca
3241 attacacaga gacaatatac atgttgcttg aagactcgca acaccagcag gaaagaaatg
3301 aaaaagattt actagcattg gacagttgga acagtctgtg gaattggttt aacataacaa
3361 actggctgtg gtatataaga atattcataa tgatagtagg gggcttgata ggtttaagaa
3421 tagtttttgc tgtgctatct atagtgaata gagtcaggca gggatactca cctttgtcgt
3481 tgcagaccct taccccaaac ccgagggaac ccgacaggct cagaggaatc gaagaagaag
3541 gtggagagca agacagagac agatccattc gattagtgag cggattcttg ccaattgtct
3601 gggacgacct gcggagcctg tgcctcttca gttaccaccg attgagagac tttctattgc
3661 tggcagcgag agtggtggaa cttctgggac gcagcagtct caggggactg cagagggggt
3721 gggaagtcct taagtatctg ggaagtcttg tgcagtattg gggtctggaa ctaaaaaaga
3781 gtgctattag tctttttgat accatagcaa tagcagtagc tgaaggaaca gataggatta
3841 tagaagtaat acaaagattt tgtagagcta tccgcaacat acctacaaga ataagacaag
3901 gctttgaagc atctttgcta taaaatgggg agcaagtggt caaaaagcag tgtagttgga
3961 tggcctgctg tgagagaaag aataagaaga actgagccag cagcagaagg ggtaggagca
4021 gcatctcgag acttagagga acatggggca cttacaacca gtaacacagc cagcaacaat
4081 gctgattgtg cctggctgga ggcacaagag gagggagaag aagtaggctt tccagtcaga
4141 cctcaggtgc ctttaagacc aatgacttat aagtcagcat ttgatctcag cttcttttta
4201 aaagaaaagg ggggactgga agggttaatt tactctaagc aaaggcaaga catccttgat
4261 ttgtgggtct ataacacaca aggtttcttc cctgattggc aaaactacac accgggacca
4321 ggggtcagat acccactgac ctttgggtgg tgcttcaagc tagtgccagt cgacccaagg
4381 gaagtagaag aggccaataa aggagagaac aactgcttgc tacaccctat gagcctgcag
4441 ggaatggagg atgagcatgg agaagtatta agatggaagt ttgacagttc actagcacgg
4501 agacacatgg cccgcgagct acatccggag tattacaaag actgctgaca cagaagggac
4561 tttccactgg gactttccac tggggcgttc cagggggagt ggtctgggcg ggactgggag
4621 tggccagccc tcagatgctg catataagca gctgcttttc gcctgtactg ggtctctcta
4681 ggtagaccag atctgagcct gggagctctc tggcctccta gagaacccac tgct
//
last modified: Tue May 31 10:56 2022