Crystal structure of 30s ribosomal subunit from thermus thermophilus in complex with sisomicin
PDB DOI: 10.2210/pdb6cap/pdb
Classification: RIBOSOME Organism(s): Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct
Deposited: 2018-01-31 Deposition Author(s): Demirci, H.
Crystal structure of 30s ribosomal subunit from thermus thermophilus in complex with sisomicin
Primary Citation of Related Structures: 6CAP
Nucleic Acids / Hybrid | ||||
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Molecule | Chains | Sequence Length | Organism | Sequence |
16S Ribosomal RNA rRNA | a | 1522 | NA | UUUGUUGGAGAGUCUGAUCCUGGCUCAGGGUGAACGCUGGCGGCGUGCCUAAGACAUGCAAGUCGUGCGGGCCGCGGGGUUUUACUCCGUGGUCAGCGGCGGACGGGUGAGUAACGCGUGGGUGACCUACCCGGAAGAGGGGGACAACCCGGGGAAACUCGGGCUAAUCCCCCAUGUGGACCCGCCCCUUGGGGUGUGUCCAAAGGGCUUUGCCCGCUUCCGGAUGGGCCCGCGUCCCAUCAGCUAGUUGGUGGGGUAAUGGCCCACCAAGGCGACGACGGGUAGCCGGUCUGAGAGGAUGGCCGGCCACAGGGGCACUGAGACACGGGCCCCACUCCUACGGGAGGCAGCAGUUAGGAAUCUUCCGCAAUGGGCGCAAGCCUGACGGAGCGACGCCGCUUGGAGGAAGAAGCCCUUCGGGGUGUAAACUCCUGAACCCGGGACGAAACCCCCGACGAGGGGACUGACGGUACCGGGGUAAUAGCGCCGGCCAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGCGCGAGCGUUACCCGGAUUCACUGGGCGUAAAGGGCGUGUAGGCGGCCUGGGGCGUCCCAUGUGAAAGACCACGGCUCAACCGUGGGGGAGCGUGGGAUACGCUCAGGCUAGACGGUGGGAGAGGGUGGUGGAAUUCCCGGAGUAGCGGUGAAAUGCGCAGAUACCGGGAGGAACGCCGAUGGCGAAGGCAGCCACCUGGUCCACCCGUGACGCUGAGGCGCGAAAGCGUGGGGAGCAAACCGGAUUAGAUACCCGGGUAGUCCACGCCCUAAACGAUGCGCGCUAGGUCUCUGGGUCUCCUGGGGGCCGAAGCUAACGCGUUAAGCGCGCCGCCUGGGGAGUACGGCCGCAAGGCUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAAGCAACGCGAAGAACCUUACCAGGCCUUGACAUGCUAGGGAACCCGGGUGAAAGCCUGGGGUGCCCCGCGAGGGGAGCCCUAGCACAGGUGCUGCAUGGCCGUCGUCAGCUCGUGCCGUGAGGUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCCCGCCGUUAGUUGCCAGCGGUUCGGCCGGGCACUCUAACGGGACUGCCCGCGAAAGCGGGAGGAAGGAGGGGACGACGUCUGGUCAGCAUGGCCCUUACGGCCUGGGCGACACACGUGCUACAAUGCCCACUACAAAGCGAUGCCACCCGGCAACGGGGAGCUAAUCGCAAAAAGGUGGGCCCAGUUCGGAUUGGGGUCUGCAACCCGACCCCAUGAAGCCGGAAUCGCUAGUAAUCGCGGAUCAGCCAUGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACGCCAUGGGAGCGGGCUCUACCCGAAGUCGCCGGGAGCCUACGGGCAGGCGCCGAGGGUAGGGCCCGUGACUGGGGCGAAGUCGUAACAAGGUAGCUGUACCGGAAGGUGCGGCUGGAUCACCUCCUUUCU |
RNA (5'-R(*UP*UP*UP*UP*UP*U)-3') | y | 6 | NA | UUUUUU |
RNA (5'-R(*GP*GP*GP*AP*UP*UP*GP*AP*AP*AP*AP*UP*CP*CP*C)-3') | w | 15 | NA | GGGAUUGAAAAUCCC |
Proteins | ||||
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Molecule | Chains | Sequence Length | Organism | Sequence |
30S ribosomal protein S10 | J | 98 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | KIRIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSREHFELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKT |
30S ribosomal protein S11 | K | 116 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | KRQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQASGLQVKSIVDDTPVPHNGCRPKKKFR |
30S ribosomal protein S12 | L | 124 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PTINQLVRKGREKVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKXLPGVRYHIVRGVYDAAGVKDRKKSRSKYGTKKPKEA |
30S ribosomal protein S13 | M | 118 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | ARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVENTWKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQRTRTNARTRKGPRKTVAG |
30S ribosomal protein S14 type Z | N | 60 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | ARKALIEKAKRTPKFKVRAYTRCVRCGRARSVYRFFGLCRICLRELAHKGQLPGVRKASW |
30S ribosomal protein S15 | O | 87 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PITKEEKQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQREDPERYRALIEKLGIR |
30S ribosomal protein S16 | P | 83 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MVKIRLARFGSKHNPHYRIVVTDARRKRDGKYIEKIGYYDPRKTTPDWLKVDVERARYWLSVGAQPTDTARRLLRQAGVFRQE |
30S ribosomal protein S17 | Q | 99 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PKKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRMDLVEKYLIRRQNYQSLSK |
30S ribosomal protein S18 | R | 70 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | KAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTEKLVRK |
30S ribosomal protein S19 | S | 80 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PRSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPVYITENMVGHKLGEFAPTRTYR |
30S ribosomal protein S2 | B | 234 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVVEPSPSYALVQ |
30S ribosomal protein S20 | T | 99 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | RNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMRKAESLIDKAAKGSTLHKNAAARRKSRLMRKVRQLLEAAGAPLIGGGLSA |
30S ribosomal protein Thx | U | 24 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | GKGDRRTRRGKIWRGTYGKYRPRK |
30S ribosomal protein S3 | C | 206 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | GNKIHPIGFRLGITRDWESRWYAGKKQYRHLLLEDQRIRGLLEKELYSAGLARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTGKNVALNVQEVQNPNLSAPLVAQRVAEQIERRFAVRRAIKQAVQRVMESGAKGAKVIVSGRIGGAEQARTEWAAQGRVPLHTLRANIDYGFALARTTYGVLGVKAYIFLGEV |
30S ribosomal protein S4 | D | 208 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQLVIEFYSR |
RIBOSOMAL PROTEIN S5 | E | 150 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | DFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYARRNMVEVPLQNGTIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTKELGSRNPINIAYATMEALRQLRTKADVERLRKG |
30S ribosomal protein S6 | F | 101 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAKDPQGYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQEPFLANA |
30S ribosomal protein S7 | G | 155 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | ARRRRAEVRQLQPDLVYGDVLVTAFINKIMRDGKKNLAARIFYDACKIIQEKTGQEPLKVFKQAVENVKPRMEVRSRRVGGANYQVPMEVSPRRQQSLALRWLVQAANQRPERRAAVRIAHELMDAAEGKGGAVKKKEDVERMAEANRAYAHYRW |
30S ribosomal protein S8 | H | 138 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MLTDPIADMLTRIRNATRVYKESTDVPASRFKEEILRILAREGFIKGYERVDVDGKPYLRVYLKYGPRRQGPDPRPEQVIHHIRRISKPGRRVYVGVKEIPRVRRGLGIAILSTSKGVLTDREARKLGVGGELICEVW |
30S ribosomal protein S9 | I | 127 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALEPLRAVDALGHFDAYITVRGGGKSGQIDAIKLGIARALVQYNPDYRAKLKPLGFLTRDARVVERKKYGKHKARRAPQYSKR |
Method: X-RAY DIFFRACTION
Deposited Date: 2018-01-31 Deposition Author(s): Demirci, H.