Serial femtosecond x-ray crystal structure of 30s ribosomal subunit from thermus thermophilus in complex with sisomicin
PDB DOI: 10.2210/pdb6car/pdb
Classification: RIBOSOME Organism(s): Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct
Deposited: 2018-01-31 Deposition Author(s): Demirci, H.
Serial femtosecond x-ray crystal structure of 30s ribosomal subunit from thermus thermophilus in complex with sisomicin
Primary Citation of Related Structures: 6CAR
Nucleic Acids / Hybrid | ||||
---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Sequence |
16S Ribosomal RNA rRNA | a | 1517 | NA | UGGAGAGUCUGAUCCUGGCUCAGGGUGAACGCUGGCGGCGUGCCUAAGACAUGCAAGUCGUGCGGGCCGCGGGGUUUUACUCCGUGGUCAGCGGCGGACGGGUGAGUAACGCGUGGGUGACCUACCCGGAAGAGGGGGACAACCCGGGGAAACUCGGGCUAAUCCCCCAUGUGGACCCGCCCCUUGGGGUGUGUCCAAAGGGCUUUGCCCGCUUCCGGAUGGGCCCGCGUCCCAUCAGCUAGUUGGUGGGGUAAUGGCCCACCAAGGCGACGACGGGUAGCCGGUCUGAGAGGAUGGCCGGCCACAGGGGCACUGAGACACGGGCCCCACUCCUACGGGAGGCAGCAGUUAGGAAUCUUCCGCAAUGGGCGCAAGCCUGACGGAGCGACGCCGCUUGGAGGAAGAAGCCCUUCGGGGUGUAAACUCCUGAACCCGGGACGAAACCCCCGACGAGGGGACUGACGGUACCGGGGUAAUAGCGCCGGCCAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGCGCGAGCGUUACCCGGAUUCACUGGGCGUAAAGGGCGUGUAGGCGGCCUGGGGCGUCCCAUGUGAAAGACCACGGCUCAACCGUGGGGGAGCGUGGGAUACGCUCAGGCUAGACGGUGGGAGAGGGUGGUGGAAUUCCCGGAGUAGCGGUGAAAUGCGCAGAUACCGGGAGGAACGCCGAUGGCGAAGGCAGCCACCUGGUCCACCCGUGACGCUGAGGCGCGAAAGCGUGGGGAGCAAACCGGAUUAGAUACCCGGGUAGUCCACGCCCUAAACGAUGCGCGCUAGGUCUCUGGGUCUCCUGGGGGCCGAAGCUAACGCGUUAAGCGCGCCGCCUGGGGAGUACGGCCGCAAGGCUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAAGCAACGCGAAGAACCUUACCAGGCCUUGACAUGCUAGGGAACCCGGGUGAAAGCCUGGGGUGCCCCGCGAGGGGAGCCCUAGCACAGGUGCUGCAUGGCCGUCGUCAGCUCGUGCCGUGAGGUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCCCGCCGUUAGUUGCCAGCGGUUCGGCCGGGCACUCUAACGGGACUGCCCGCGAAAGCGGGAGGAAGGAGGGGACGACGUCUGGUCAGCAUGGCCCUUACGGCCUGGGCGACACACGUGCUACAAUGCCCACUACAAAGCGAUGCCACCCGGCAACGGGGAGCUAAUCGCAAAAAGGUGGGCCCAGUUCGGAUUGGGGUCUGCAACCCGACCCCAUGAAGCCGGAAUCGCUAGUAAUCGCGGAUCAGCCAUGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACGCCAUGGGAGCGGGCUCUACCCGAAGUCGCCGGGAGCCUACGGGCAGGCGCCGAGGGUAGGGCCCGUGACUGGGGCGAAGUCGUAACAAGGUAGCUGUACCGGAAGGUGCGGCUGGAUCACCUCCUUUCU |
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 | ||||
---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Sequence |
30S ribosomal protein S10 | J | 104 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PKIRIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSREHFELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKTVGGGR |
30S ribosomal protein S11 | K | 128 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | AKKPSKKKVKRQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQASGLQVKSIVDDTPVPHNGCRPKKKFRKAS |
30S ribosomal protein S12 | L | 131 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PTINQLVRKGREKVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKXLPGVRYHIVRGVYDAAGVKDRKKSRSKYGTKKPKEAAKTAAKK |
30S ribosomal protein S13 | M | 125 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | ARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVENTWKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQRTRTNARTRKGPRKTVAGKKKAPRK |
30S ribosomal protein S14 type Z | N | 60 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | ARKALIEKAKRTPKFKVRAYTRCVRCGRARSVYRFFGLCRICLRELAHKGQLPGVRKASW |
30S ribosomal protein S15 | O | 88 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PITKEEKQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQREDPERYRALIEKLGIRG |
30S ribosomal protein S16 | P | 88 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | MVKIRLARFGSKHNPHYRIVVTDARRKRDGKYIEKIGYYDPRKTTPDWLKVDVERARYWLSVGAQPTDTARRLLRQAGVFRQEAREGA |
30S ribosomal protein S17 | Q | 104 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PKKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRMDLVEKYLIRRQNYQSLSKRGGKA |
30S ribosomal protein S18 | R | 87 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | STKNAKPKKEAQRRPSRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTEKLVRK |
30S ribosomal protein S19 | S | 92 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PRSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPVYITENMVGHKLGEFAPTRTYRGHGKEAKATKKK |
30S ribosomal protein S2 | B | 255 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PVEITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVVEPSPSYALVQEAEATETPEGESEVEA |
30S ribosomal protein S20 | T | 105 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | AQKKPKRNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMRKAESLIDKAAKGSTLHKNAAARRKSRLMRKVRQLLEAAGAPLIGGGLSA |
30S ribosomal protein Thx | U | 26 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | GKGDRRTRRGKIWRGTYGKYRPRKKK |
30S ribosomal protein S3 | C | 238 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | GNKIHPIGFRLGITRDWESRWYAGKKQYRHLLLEDQRIRGLLEKELYSAGLARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTGKNVALNVQEVQNPNLSAPLVAQRVAEQIERRFAVRRAIKQAVQRVMESGAKGAKVIVSGRIGGAEQARTEWAAQGRVPLHTLRANIDYGFALARTTYGVLGVKAYIFLGEVIGGQKPKARPELPKAEERPRRRRPAVRVKKEE |
30S ribosomal protein S4 | D | 208 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQLVIEFYSR |
30S ribosomal protein S5 | E | 161 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | PETDFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYARRNMVEVPLQNGTIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTKELGSRNPINIAYATMEALRQLRTKADVERLRKGEAHAQAQG |
30S ribosomal protein S6 | F | 101 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAKDPQGYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQEPFLANA |
30S ribosomal protein S7 | G | 155 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | ARRRRAEVRQLQPDLVYGDVLVTAFINKIMRDGKKNLAARIFYDACKIIQEKTGQEPLKVFKQAVENVKPRMEVRSRRVGGANYQVPMEVSPRRQQSLALRWLVQAANQRPERRAAVRIAHELMDAAEGKGGAVKKKEDVERMAEANRAYAHYRW |
30S ribosomal protein S8 | H | 138 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | MLTDPIADMLTRIRNATRVYKESTDVPASRFKEEILRILAREGFIKGYERVDVDGKPYLRVYLKYGPRRQGPDPRPEQVIHHIRRISKPGRRVYVGVKEIPRVRRGLGIAILSTSKGVLTDREARKLGVGGELICEVW |
30S ribosomal protein S9 | I | 127 | Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Thermus Thermophilus Hb8 , Synthetic Construct | EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALEPLRAVDALGHFDAYITVRGGGKSGQIDAIKLGIARALVQYNPDYRAKLKPLGFLTRDARVVERKKYGKHKARRAPQYSKR |
Method: X-RAY DIFFRACTION
Deposited Date: 2018-01-31 Deposition Author(s): Demirci, H.