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- EMDB-47578: Cryo-EM structure of the Pyrobaculum calidifontis 50S ribosomal s... -

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Basic information

Entry
Database: EMDB / ID: EMD-47578
TitleCryo-EM structure of the Pyrobaculum calidifontis 50S ribosomal subunit in complex with Dri
Map dataPyrobaculum caldidifontis 50S ribosomal subunit bound to Dri
Sample
  • Complex: 50S ribosomal subunit
    • RNA: x 2 types
    • Protein or peptide: x 37 types
  • Ligand: x 4 types
KeywordsRibosome / Translation / Hibernation / RNA
Function / homology
Function and homology information


ribonuclease P activity / tRNA 5'-leader removal / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosome biogenesis / large ribosomal subunit / 5S rRNA binding / ribosomal large subunit assembly / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation ...ribonuclease P activity / tRNA 5'-leader removal / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosome biogenesis / large ribosomal subunit / 5S rRNA binding / ribosomal large subunit assembly / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / tRNA binding / negative regulation of translation / rRNA binding / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / mRNA binding / RNA binding / zinc ion binding / cytoplasm
Similarity search - Function
: / : / Ribosomal protein L40e, archaeal / Ribosomal protein L19e, archaeal / Ribosomal protein L30, archaeal / Ribosomal protein L6P, archaea / Ribosomal protein L14P, archaeal / Ribosomal protein L21e, archaeal / Ribosomal protein L18e, archaea / Ribosomal protein L10e, archaea ...: / : / Ribosomal protein L40e, archaeal / Ribosomal protein L19e, archaeal / Ribosomal protein L30, archaeal / Ribosomal protein L6P, archaea / Ribosomal protein L14P, archaeal / Ribosomal protein L21e, archaeal / Ribosomal protein L18e, archaea / Ribosomal protein L10e, archaea / Ribosomal protein L32e, archaeal / Ribosomal protein L3, archaeal / Ribosomal protein L4, archaea / Ribosomal protein L5, archaeal / : / : / DJ-1/PfpI / DJ-1/PfpI family / Ribosomal protein L7Ae, archaea / Domain in cystathionine beta-synthase and other proteins. / CBS domain superfamily / Ribosomal protein L30e / Ribosomal protein L2, archaeal-type / CBS domain / CBS domain / Ribosomal L15/L27a, N-terminal / CBS domain profile. / Ribosomal protein L23 / : / Class I glutamine amidotransferase-like / metallochaperone-like domain / TRASH domain / Ribosomal protein L13e, conserved site / Ribosomal protein L13e signature. / Ribosomal protein L10e, conserved site / Ribosomal protein L10e signature. / Ribosomal protein L10e / Ribosomal protein L38e / Ribosomal protein L38e superfamily / Ribosomal L38e protein family / Ribosomal protein L24e, conserved site / Ribosomal protein L24e signature. / Ribosomal protein L13e / Ribosomal protein L13e / : / Ribosomal protein L34e, conserved site / Ribosomal protein L34e signature. / 50S ribosomal protein L18Ae/60S ribosomal protein L20 and L18a / Ribosomal L40e family / Ribosomal protein 50S-L18Ae/60S-L20/60S-L18A / Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A / Ribosomal_L40e / Ribosomal protein L40e / Ribosomal protein L40e superfamily / Ribosomal protein 60S L18 and 50S L18e / Ribosomal protein L30e signature 2. / Ribosomal protein L30e, conserved site / Ribosomal protein L39e, conserved site / Ribosomal protein L39e signature. / : / Ribosomal protein L34Ae / Ribosomal protein L34e / 60S ribosomal protein L19 / Ribosomal protein L30/YlxQ / Ribosomal protein L13, eukaryotic/archaeal / Ribosomal protein L18e / Ribosomal protein L31e, conserved site / Ribosomal protein L31e signature. / Ribosomal protein L37ae / Ribosomal L37ae protein family / Ribosomal_L19e / Ribosomal protein L19/L19e / Ribosomal protein L19/L19e, domain 1 / Ribosomal protein L19/L19e superfamily / Ribosomal protein L19e, N-terminal domain / Ribosomal protein L39e / Ribosomal protein L39e domain superfamily / Ribosomal L39 protein / Ribosomal protein L5 eukaryotic/L18 archaeal / Ribosomal large subunit proteins 60S L5, and 50S L18 / Ribosomal protein L4/L1e, eukaryotic/archaeal, conserved site / Ribosomal protein L1e signature. / Ribosomal protein L15e, conserved site / Ribosomal protein L15e signature. / Ribosomal protein L31e / Ribosomal protein L31e domain superfamily / Ribosomal protein L31e / Ribosomal_L31e / Ribosomal protein L21e / Ribosomal protein L21e, conserved site / Ribosomal protein L21 superfamily / Ribosomal protein L21e / Ribosomal protein L21e signature. / Ribosomal protein L24e-related / Ribosomal protein L24e/L24 superfamily / Ribosomal protein L24e / Ribosomal protein L22/L17, eukaryotic/archaeal / Ribosomal protein L37e, conserved site / Ribosomal protein L37e signature. / Ribosomal protein L37e
Similarity search - Domain/homology
Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL18 / Large ribosomal subunit protein eL19 / Large ribosomal subunit protein eL32 / Large ribosomal subunit protein eL24 / Large ribosomal subunit protein eL8 / Large ribosomal subunit protein uL29 / Large ribosomal subunit protein uL22 / DJ-1/PfpI domain-containing protein / Large ribosomal subunit protein eL13 ...Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL18 / Large ribosomal subunit protein eL19 / Large ribosomal subunit protein eL32 / Large ribosomal subunit protein eL24 / Large ribosomal subunit protein eL8 / Large ribosomal subunit protein uL29 / Large ribosomal subunit protein uL22 / DJ-1/PfpI domain-containing protein / Large ribosomal subunit protein eL13 / LSU ribosomal protein L38E / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein eL43 / Large ribosomal subunit protein eL39 / Large ribosomal subunit protein uL15 / Large ribosomal subunit protein eL34 / Large ribosomal subunit protein uL3 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein uL23 / 50S ribosomal protein L15e / PaREP1 domain containing protein / Large ribosomal subunit protein uL6 / Large ribosomal subunit protein eL21 / Large ribosomal subunit protein uL24 / Large ribosomal subunit protein uL14 / Putative signal-transduction protein with CBS domains / Large ribosomal subunit protein eL31 / Large ribosomal subunit protein eL20 / Large ribosomal subunit protein eL40 / Large ribosomal subunit protein uL16 / Large ribosomal subunit protein uL5 / Large ribosomal subunit protein eL30 / Large ribosomal subunit protein eL18 / Large ribosomal subunit protein uL13 / Large ribosomal subunit protein eL37
Similarity search - Component
Biological speciesPyrobaculum calidifontis JCM 11548 (archaea)
Methodsingle particle reconstruction / cryo EM / Resolution: 1.95 Å
AuthorsNissley AJ / Cate JHD
Funding support United States, 1 items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States)CHE-2002182 United States
CitationJournal: To Be Published
Title: Structure of an Archaeal Ribosome with a Divergent Active Site
Authors: Nissley AJ / Shulgina Y / Kivimae RW / Downing BE / Penev PI / Banfield JF / Nayak DD / Cate JHD
History
DepositionOct 30, 2024-
Header (metadata) releaseNov 20, 2024-
Map releaseNov 20, 2024-
UpdateNov 20, 2024-
Current statusNov 20, 2024Processing site: RCSB / Status: Released

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Structure visualization

Supplemental images

emd_47578.png

Downloads & links

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Map

FileDownload / File: emd_47578.map.gz / Format: CCP4 / Size: 857.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationPyrobaculum caldidifontis 50S ribosomal subunit bound to Dri
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.83 Å/pix.
x 608 pix.
= 504.214 Å		0.83 Å/pix.
x 608 pix.
= 504.214 Å		0.83 Å/pix.
x 608 pix.
= 504.214 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.8293 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.152
Minimum - Maximum-0.5178891 - 1.3523083
Average (Standard dev.)-0.00023832911 (±0.03154009)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions608608608
Spacing608608608
CellA=B=C: 504.2144 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_47578_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Pyrobaculum caldidifontis 50S ribosomal subunit bound to Dri...

Fileemd_47578_half_map_1.map
AnnotationPyrobaculum caldidifontis 50S ribosomal subunit bound to Dri (Half Map)
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: Pyrobaculum caldidifontis 50S ribosomal subunit bound to Dri...

Fileemd_47578_half_map_2.map
AnnotationPyrobaculum caldidifontis 50S ribosomal subunit bound to Dri (Half Map)
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : 50S ribosomal subunit

EntireName: 50S ribosomal subunit
Components
  • Complex: 50S ribosomal subunit
    • RNA: 23S rRNA
    • RNA: 5S rRNA
    • Protein or peptide: Putative signal-transduction protein with CBS domains
    • Protein or peptide: Large ribosomal subunit protein uL2
    • Protein or peptide: Large ribosomal subunit protein uL3
    • Protein or peptide: Large ribosomal subunit protein uL4
    • Protein or peptide: Large ribosomal subunit protein uL5
    • Protein or peptide: Large ribosomal subunit protein uL6
    • Protein or peptide: Large ribosomal subunit protein eL8
    • Protein or peptide: Large ribosomal subunit protein uL13
    • Protein or peptide: Large ribosomal subunit protein eL13
    • Protein or peptide: Large ribosomal subunit protein uL14
    • Protein or peptide: eL14
    • Protein or peptide: Large ribosomal subunit protein uL15
    • Protein or peptide: 50S ribosomal protein L15e
    • Protein or peptide: Large ribosomal subunit protein uL16
    • Protein or peptide: Large ribosomal subunit protein uL18
    • Protein or peptide: Large ribosomal subunit protein eL18
    • Protein or peptide: Large ribosomal subunit protein eL19
    • Protein or peptide: Large ribosomal subunit protein eL20
    • Protein or peptide: Large ribosomal subunit protein eL21
    • Protein or peptide: Large ribosomal subunit protein uL22
    • Protein or peptide: Large ribosomal subunit protein uL23
    • Protein or peptide: Large ribosomal subunit protein uL24
    • Protein or peptide: Large ribosomal subunit protein eL24
    • Protein or peptide: Large ribosomal subunit protein uL29
    • Protein or peptide: Large ribosomal subunit protein uL30
    • Protein or peptide: Large ribosomal subunit protein eL30
    • Protein or peptide: Large ribosomal subunit protein eL31
    • Protein or peptide: Large ribosomal subunit protein eL32
    • Protein or peptide: Large ribosomal subunit protein eL34
    • Protein or peptide: Large ribosomal subunit protein eL37
    • Protein or peptide: LSU ribosomal protein L38E
    • Protein or peptide: Large ribosomal subunit protein eL39
    • Protein or peptide: Large ribosomal subunit protein eL40
    • Protein or peptide: eL42
    • Protein or peptide: Large ribosomal subunit protein eL43
    • Protein or peptide: DJ-1/PfpI domain-containing protein
    • Protein or peptide: PaREP1 domain containing protein
  • Ligand: SPERMINE
  • Ligand: MAGNESIUM ION
  • Ligand: ZINC ION
  • Ligand: water

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Supramolecule #1: 50S ribosomal subunit

SupramoleculeName: 50S ribosomal subunit / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#39
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)

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Macromolecule #1: 23S rRNA

MacromoleculeName: 23S rRNA / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 984.007875 KDa
SequenceString: UAGGCAAAGC CGCCCGGUGG AUGGCUCGGC UCGGGCG(5MC)CG AAGAAGGGCG UGGCAAGCUG CGAUAAGCCC GGGGUA GC(B8T) GCAGGCAGGC UUAGAACCCG GGAUCCCCGA AUGGGGCUUC CUGCCGGGGC CGAAUAGGCC CCGGCGCCCC GUA AGGGGC ...String:
UAGGCAAAGC CGCCCGGUGG AUGGCUCGGC UCGGGCG(5MC)CG AAGAAGGGCG UGGCAAGCUG CGAUAAGCCC GGGGUA GC(B8T) GCAGGCAGGC UUAGAACCCG GGAUCCCCGA AUGGGGCUUC CUGCCGGGGC CGAAUAGGCC CCGGCGCCCC GUA AGGGGC GGGAACGCGG GGAAAGGAAA CAUCUUAGUA CCCGCAGGAA GGGAAGCCAA CAGGGACCCC CUGAGUAGGG GCGA CCGAA AGGGGGAUAG CCCAAACCAA AUCCUCGCGG GACAACCGUG GGGAGAUGUG GGGCUUGGGC CCGGGCAACC GCCGG CGGG CGGUAGCCGA AGUGGGCUGG AAUGCCCCGC CGUAGAGGGU GAUAGCCCCG UAGGCGAAAC CGCCCGUGGC GGAGUC CCG GGGUCCCGGA GUACCUCGGC UUAGUUUUGC CGGGGGAACG CGCCGGCCAC UGGCCGGCAA GGCUAAGCAC GUCCCGA GU CCGAUAGCGC ACUAGUA(OMC)(OMC)G UGAGGGAAAG CUGAAAAGAA CCCCGGAAGG GGGGUGAAAA GAGCCUGAAA CCGGGCGGC UACAGUGGGG CAGGCCCGAA AGGAUGCCCC CUCCCGAAGG AAACCCCGGU GACGGGGGAG UACGAGGGAG G GGGUCCAG GGUCUGCCCU UACGUCUAGA AACACGGGCC GGGGAGUUCA (OMC)GGCCGUGGC GAGCCUAAGG GGUUCAAC C CCGGAGGCGU AGGGAAACCG ACAGCCCGCA GCGGGGCAAC CCGCGAGGGG CGGGGUCUUA AAGGGCCCGU AGUCACGGC CGUGAGACCA GAAACCGGGC GAUCUAGCCC UGGGCAGGGU GAAGCGGGGC GAAAGCCCCG UGGAGGCCCG AAGGGGUUCU GAUGUGCAA AU(OMC)GU(OMU)CCCA UGACCUGGGG CUAGGGGCAA AA(OMG)ACCAA(OMU)C AAGCCCGGUG AUAGC UGGU UCCCCCCGAA GCGGGUCUCA GCCCGGCCUC CCCGGAGGCG GCCGGCGGGG UAGAGUACUG AUCGGGGGUG CGGGAG CCG AAAGGCUCCG GCCCCCGGUC AAACUCCGAA CCUGCCAGCG CCGUAGAAGG GGGGAGGCGG GGGCGGUGGG GUAAGCC UC CGCUCCGAGA CGGGAACAAC CGAGACCGGG GUUAAGGCCC CCAAGUGCGG GCUUAGUGUC AAUCUAAAAG GGCGUCCC C CGCCCAAGAC AGCGGGGCCG UGGGCCUAAC AGCAGCCAUC GGCUAAGCAA CGCGUAACAG CGGACCCGCC GAGGCGGGG GGCCCCGAAG AUGUACAGGG ACUAAGCCCG CCGCCGAGAC CCCGGCCCGC GGGCCGUUGG CCCGCGUGGG GUAGGGGGGC GCGGCCGUG GGGCAGAAGC CGGGCCGUGA GGUCCGGUGG ACCCGCGGCC GACGAAGAUC CCGGCGGUAG UAGCAGCGAA G AGGGGUGA GAAGCCCCUC CGCCGGAAAG GACCAGGGUU UCCUGGCAAC UUCAAUAGGC CAGGAGUUAG CCGGUCCUAA GG CGGGGCC UAAUAGGCAC CCGCCGAAAG GGAAACGGGU UAAUAUUCCC GUGCCGCGGG GGUAGGUUCU GCGGCAACGC AGG CCCCGU CCCCGACGCC UCGGGAUAGG GCGGGCGGGA CUGCCGUCCC GCUUAACCGU CGAAGGCCGG GGAGUGCCGU AAUG GCGAG AACCGGCCGA AGGCGGGAAU AGCCGGGGGU UUCCCCGGUC CGCCCGACUC CUGGGGCCCG UGAAAAGGGG ACGGG GAAC GAGCCCCCGC GCCCGUACCG AGAACCGACG CAGGUGCUCC UGGGUGAGAA GCCCAAGGCG GCUCGGGUGA CCCCGG GCC AGGGAACU(OMC)G GCAAAUUGGC CCCGUAACUU CGGGAGAAGG GGUGCCUGCG GUCUUGGGGU AUACCCCCGG GAC CGCAGG UCGCAGUGGC AAGGGGGACC UGAC(PSU)GUUUA ACAAAAACAU AGGUCCCCGC GAGCCCGUAA (OMG)G (OMG)UGUGUA C(OMG)GGGGCUGA AUCCU(OMG)GCCA (OMC)UGGCGGUAC G(PSU)GA(A2M)CCCCG GGUACAACC GGGCGA(A2M)GCG C(4AC)(OMG)(OMC)UGAAGG CCGGGGGUAA CUCUGACCC(PSU) CUUAAGGUAG C(5MC)AA (A2M)UGCC UU(OMG)CCGG(OMG)UA AGU(OMU)CCGGCG UGCA(OMU)GAAUG GAUCAACGA(OMG) (OMG)UCCCCA CU GU(OMC)(OMC)CGGCCC GGGGCCCGGC GAACCCACCU (OMC)CAGGUGCAC AG(OMU)CCUGGGA CCCCCGACGG GG C(OMG)AGAAG UCCCUAUGGA GCUUCACAGC AGCCUGUCGU UGCGGGGGGG CGGGGGGUGC AGAGCGUAGG UGGGAGCGA UGAAACGGGG UCUCCGGGCC CCGUGGAUGC GACCCUGGAA CACCACCCAC UCUCCGCCCC UCCGCUUACC CGCCGCAAGG CGGGGACAG CGGCAGGCGG GCUGUUCGGC UG(OMG)GGC(OMG)GCA CACCCCUGAA AAGAUAUC(OMG)G GGGUGCCCA AAGCUCGGC(OMU) CAGGCGGGUC AGAAAUCCGC CGUAGAGUGU AAGGGCAAAA GCCGGGCUGA CUGGGCCCUU GAACGC AAG GGGCCCAGGC GGGAAACCGG GGCCUAGAGA ACGCUCGUGC CCCCACCAGU GGGGGCCGG(OMG) (OMC)AUGACAGA AAAGUUAC(OMC)C UAGGAAUAAC CGGC(PSU)CG(OMU)CG CGGGUGAGAG UCCCCAUCGA CCCC(OMG)CGGUU (PSU)(OMG)G(PSU)ACCCA GACGUCG(OMU)(OMC)(PSU) CU(OMU)CCCAUCC UGGCGGUGCA GCAGCCGCCA AGG GUGGGG C(OMU)(OMG)CCCGCCC AUUAAAGGGG AACGUG(A2M)GAU GGG(UR3)UCAGA(OMC) CG(OMU)CGCGAGA CAGGU(OMC)GGU CUCUACCUGU CGGGGGCGCU GGCCGCCUGA GGGGAAGGUG CCCUCAGUAC GAGAGGAACG GGGCGCC GC GGCCUCUAGU GUACCGGUUG UCCGGCAGGG CACUGCCGGG CAGCCACGCC GUGGGGGA(OMU)A ACCGCUGAAA GCAU CUAAG CGGGAAGCCC UC(OMC)(OMC)CGAGAC GAGGCGGCCG UUGCCCUGGG GGCAACCCCG GGGCACGAGG GCUCC (B8T)GUA GAAGACGGGG UUGAUGGGGG GGCGGUGUAA CCCCCGAGGG UUUCCCGAGG GGAGAGCCGG CCCCUCCCAA UC GCCCGAG CGU(G7M)C

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Macromolecule #2: 5S rRNA

MacromoleculeName: 5S rRNA / type: rna / ID: 2 / Number of copies: 1
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 41.803953 KDa
SequenceString:
GCCCCUAACC CGGCCAUAGG CGCCGGUGCU ACACCCGGUC UCAUCAGAAC CCGGAAGUUA AGGCCGGCGC CGCGCUCGGG AGUACUGGG CUCCGCGAGG GCCCGGGAAA CCGGCGUGCU GGGAGGGGGC

GENBANK: GENBANK: CP000561.1

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Macromolecule #3: Putative signal-transduction protein with CBS domains

MacromoleculeName: Putative signal-transduction protein with CBS domains / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 72.127695 KDa
SequenceString: MLTREELEKL AEKRVPQFVR DVVEHPPFRV TVNTTLETLA AYLRKFPVDV VPVFKSVFSD EVAGVVYPHT ALLLKSKKLD AKVGEFLNQ PLVVKESWRI ENVAEMLISE SKWGAVVVDE EGKFVGVVSL RGLLSALLLR EPKAKSVAAV YTSIDEKKPR V GFVKAIEK ...String:
MLTREELEKL AEKRVPQFVR DVVEHPPFRV TVNTTLETLA AYLRKFPVDV VPVFKSVFSD EVAGVVYPHT ALLLKSKKLD AKVGEFLNQ PLVVKESWRI ENVAEMLISE SKWGAVVVDE EGKFVGVVSL RGLLSALLLR EPKAKSVAAV YTSIDEKKPR V GFVKAIEK VSKIFHKLVG GEVDGYVVLN REGGAAGILT VWNFLKSRRW FRGSGEPRAI FGTRVTRGES KPRGVARVWR IM SRGVAVA NPDTPITDVA RYMATFGIYV VPVVDRNGKV IGAVTAWDVL HAYLYGPKEG REDVEVKTAV EVPVSKPSME AVI RLKPVK HVTGLRARDV MLSDVPMVNV RDPLSSIRKA FLRSKSGILA VVDDSGKVVG FITRRDFMSY IAEKSLGYWR RQKG KLLVL REEALPGEQA KLAVEEGTAG DLAKSEYPTV SESATLEEVA YKMLAAGTDY VVVIDSAGQP IGVVTKDELV KAYKE RGRS VKVGELMTPA DVAAVNPFSS LMSTTRKINA FELDGVVVVE GGNIMGVVTV DDLALRPVEE TLRGERVVYF TKSGVL RKA TTGLSRLRYS KVGTLTALDV SRPVDHVANV NADVKEVLDK LVEQGVVPVV DEQGRLVGVL NKMDIVKDLA RVYVTYA MP EKLAEVKQVE ERA

UniProtKB: Putative signal-transduction protein with CBS domains

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Macromolecule #4: Large ribosomal subunit protein uL2

MacromoleculeName: Large ribosomal subunit protein uL2 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 26.240348 KDa
SequenceString: MGKRILVQRR GRGGSQFRSP SWKRDGPVRY PPNISGRGIV VEILHEPGLN APVAKIRMEN GVEFFNYAAE GLYVGQVIQV GPDAPPAVG NVLPLGKIPE GTMVFNVEKR FGDGGKFARS GGTYALVIGQ RPEENKTIVR LPSGRVIEVD ARGRATIGIV A GGGRVEKP ...String:
MGKRILVQRR GRGGSQFRSP SWKRDGPVRY PPNISGRGIV VEILHEPGLN APVAKIRMEN GVEFFNYAAE GLYVGQVIQV GPDAPPAVG NVLPLGKIPE GTMVFNVEKR FGDGGKFARS GGTYALVIGQ RPEENKTIVR LPSGRVIEVD ARGRATIGIV A GGGRVEKP FVKAGKKYHR ARAKSWKYPT VRGKAMSPYA HPHGGGSHQK GGTPVPKTAP PGQKVGFIGS RCTGRGCVRA RA QQKQ

UniProtKB: Large ribosomal subunit protein uL2

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Macromolecule #5: Large ribosomal subunit protein uL3

MacromoleculeName: Large ribosomal subunit protein uL3 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 37.240543 KDa
SequenceString: MGLKINRPRR GSMGVYPRKR AADIVPRVRT WPEVNLGKPT LLGFAAYKAG MLHAVVVDDR PTSPLYGKEV VKAVTVLDAP PLYVAAVRL YTLDPTNGYK VAVGEAWVSE PPADLRRVLT LPEKFDTEKQ LKALEEYRDV AVDVRVLVAT QPRLSGIGKK T PEVLEIPV ...String:
MGLKINRPRR GSMGVYPRKR AADIVPRVRT WPEVNLGKPT LLGFAAYKAG MLHAVVVDDR PTSPLYGKEV VKAVTVLDAP PLYVAAVRL YTLDPTNGYK VAVGEAWVSE PPADLRRVLT LPEKFDTEKQ LKALEEYRDV AVDVRVLVAT QPRLSGIGKK T PEVLEIPV GGVPSIDERI NFAISLLGKT VSPKDVFTPG QLVDVIAVTK GKGYQGVVKR FGVTILPRWH KHRKGHRRTG TI GPQAPAL MFTQPRPGQM GFHQRTEYNK RILKIGDNGA EITPKSGFPH YGVIKGPYIL LQGSVPGARK RLVVLRYPVR PPK KAPPAA EPQVVWVSSQ SI

UniProtKB: Large ribosomal subunit protein uL3

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Macromolecule #6: Large ribosomal subunit protein uL4

MacromoleculeName: Large ribosomal subunit protein uL4 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 31.602059 KDa
SequenceString: MGAVVKELLK FKLLDLSPYI KPAEERPPEA LKVYDVNGQY MADIETPIHF YEPVRPDLIR RAYLSALSAR FQPKGVYEGA GKEHSCESF GVGLGIARIP RYKGHLWPRG CFAPNTRGGR RAHPPRPEKK LHEEINWKEK NLAIRSAIAA TAYKSWVAAR G HMVEKVPS ...String:
MGAVVKELLK FKLLDLSPYI KPAEERPPEA LKVYDVNGQY MADIETPIHF YEPVRPDLIR RAYLSALSAR FQPKGVYEGA GKEHSCESF GVGLGIARIP RYKGHLWPRG CFAPNTRGGR RAHPPRPEKK LHEEINWKEK NLAIRSAIAA TAYKSWVAAR G HMVEKVPS LPLVVSGDAE KIAKAKEAKK LFEVLGLWPD VERAAEGVKI RAGKGKMRGR RYKEPKSVLV VVSELDVPLI GA VRNFPGV DVVPVSHLNM LVLAPGGVPG RLTLWTATAV ERLKGLFL

UniProtKB: Large ribosomal subunit protein uL4

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Macromolecule #7: Large ribosomal subunit protein uL5

MacromoleculeName: Large ribosomal subunit protein uL5 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 20.156908 KDa
SequenceString:
MKWKELVLVK DHPMKRVYIE KVVVNIGVGT GGERLEKAAN LLRELTGAEP SLRRAKRSIK DFGIRKGEPI GVAVTLRRDK AVEFLMRAL QAVGNRIKRS SFDERGNVCF GIKEHIMLPG VKYDPAVGIW GMDVCVRLAK PGLRVQLRRR RRSKVGKGQL V TREEAVEF FQKVLGVQVD

UniProtKB: Large ribosomal subunit protein uL5

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Macromolecule #8: Large ribosomal subunit protein uL6

MacromoleculeName: Large ribosomal subunit protein uL6 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 21.663471 KDa
SequenceString: MHVVYAVEEV PIPDGVKVAI EKTGPFDYVV KVKGPLGELV KEFKNTPVIM SLSDGKVVLE VLNAKKREYA LLGTYKGILK NMFLGVTKG WRYKLKVIYT HFPMLVKVQG NQLTIENFLG RKSKIVLEIP KGVKVEVKGK EDIVVEGIDR ELVSQFAAAI Q AATELRGE ...String:
MHVVYAVEEV PIPDGVKVAI EKTGPFDYVV KVKGPLGELV KEFKNTPVIM SLSDGKVVLE VLNAKKREYA LLGTYKGILK NMFLGVTKG WRYKLKVIYT HFPMLVKVQG NQLTIENFLG RKSKIVLEIP KGVKVEVKGK EDIVVEGIDR ELVSQFAAAI Q AATELRGE EKPSPHGREG GLGVVDGIYV VGYEHVKA

UniProtKB: Large ribosomal subunit protein uL6

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Macromolecule #9: Large ribosomal subunit protein eL8

MacromoleculeName: Large ribosomal subunit protein eL8 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 16.013695 KDa
SequenceString:
MAVTIDPKTF YANPLPGKPF YVRFEVPSDV AEKALEILSI ARQTGKIKKG TNETTKAVER GLAKLVLIAE DVDPPEVVAH LPLLCEEKK VPYVYVPSKE KLGKAAGINV AAAAAVVIEA GQAAGELEAL VNKINEIRAK HGLNAIPVRR

UniProtKB: Large ribosomal subunit protein eL8

+
Macromolecule #10: Large ribosomal subunit protein uL13

MacromoleculeName: Large ribosomal subunit protein uL13 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 21.736996 KDa
SequenceString:
MIVKKVLDLS QIPEKGEIVI DAEGHIMGRL ASYVAKILLS KPELRVVVVN AEKLVVTGDR KMVVEWFMRK ISEWRTHYNP EKAGPKIPR RPDRVFKRVV RGMLPKKVES GRDALKRLRV YMSIPLDFIQ RRRLVLYEVP AAKLRVRPLM QFVTLEEVWR S IDPAAWEK WNKAKEVWAK KIKQATSG

UniProtKB: Large ribosomal subunit protein uL13

+
Macromolecule #11: Large ribosomal subunit protein eL13

MacromoleculeName: Large ribosomal subunit protein eL13 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 17.939125 KDa
SequenceString:
MIPKPVVQVP RSIKSGGVTK WKEGRGFSLG ELKEVGLNAE QARLLGLPVD TRRDSVWPQN VEALRKWLIE VLEGKATPPE PTLPKVVKV KRKRGRAFRG LTSAGRRSRG LISTRFRETH NYKFKKKAKE RRLKKRHEAT KGLGNVLRIS RIINESKE

UniProtKB: Large ribosomal subunit protein eL13

+
Macromolecule #12: Large ribosomal subunit protein uL14

MacromoleculeName: Large ribosomal subunit protein uL14 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 15.768449 KDa
SequenceString:
MAKRGGKRTV GVPYRFHVTP GIFMNSLVPV ADNSGAKLVR VIGVVGHYSK SVHRRIPGAG VGDMVVVVVR EGKPELRKQI FRAIVVRQR RPYRRPDGTW VAFEDNAVVI VTPEGDPKGS EIHGPVAMEA TLRWPTIANL ASIVV

UniProtKB: Large ribosomal subunit protein uL14

+
Macromolecule #13: eL14

MacromoleculeName: eL14 / type: protein_or_peptide / ID: 13 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 11.470542 KDa
SequenceString:
MVKVIDVGRV VVKVLGREAG RKAVVVDIVD ENYVVITGPK SLSGVRRRRV NINHIEPTDK KIEIKKGASD EEVLKALEAA GLVEYMKER VKPKLFEITP ADVK

+
Macromolecule #14: Large ribosomal subunit protein uL15

MacromoleculeName: Large ribosomal subunit protein uL15 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 17.52543 KDa
SequenceString:
MVRRFKRATK YRRGSRTHGW GRVGQHRKSG GSGGKGMVGF HKHKWSLVMK YGESGTGWPF YGKHGFKQPE TISVEWRPIN VGRLAELVK ELRERGEVRE EEGRLVVDLL KLGYNKLLGG GHMDVPLVVY TPVASKAAVE KIAKAGGEVR IVSLVHR

UniProtKB: Large ribosomal subunit protein uL15

+
Macromolecule #15: 50S ribosomal protein L15e

MacromoleculeName: 50S ribosomal protein L15e / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 22.623768 KDa
SequenceString:
MPSAYQYMAM WYRKVGREVH ERLMRSVLIK WRKEPAIVRV ERPFRLERAR KLGYKPKQGV VVARVRLIRG PFNRRRPDSG RRPKRMGVY GITAWKSWRQ VAEERAARKF PGLEVLNSYW VADDGIYRYF EVILIDCNQP TIQRDPLYSG ICGREVPRRR L ARRLRERQ RKLIEHLKKT LLPKLKGTST A

UniProtKB: 50S ribosomal protein L15e

+
Macromolecule #16: Large ribosomal subunit protein uL16

MacromoleculeName: Large ribosomal subunit protein uL16 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 19.89323 KDa
SequenceString:
MPARPARCYR RIKGPPYTRE EYIHGAPMIQ IPKFDMGTTS AAARAAFTMV AKLVAEERGQ IRMQALEAAR QISSKYLTKY VGDANYYLR LNVVPHHVLR ENRMLAMAGA DRLQEGMRLA FGSPAGRAAR VEPGQVIFYV EFKPEHLAHV KEALRRAASK L PIPTRIVV EPKGDGKTAS

UniProtKB: Large ribosomal subunit protein uL16

+
Macromolecule #17: Large ribosomal subunit protein uL18

MacromoleculeName: Large ribosomal subunit protein uL18 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 23.424332 KDa
SequenceString: MARGARYKVP FRRRREGVTN YRKRRKLLLS RKPRLVVRKT NKHLIAQIVI ARPHGDETVV GLDTRVLSKF GWKGDENNTS AAYLLGLIV GYKARAKGIK EAILDIGLHR PTPGARVFAV MKGVIDAGVE VPHGEEVVPS EERIRGEHVA EYAKRLKEEA P EAYKARFS ...String:
MARGARYKVP FRRRREGVTN YRKRRKLLLS RKPRLVVRKT NKHLIAQIVI ARPHGDETVV GLDTRVLSKF GWKGDENNTS AAYLLGLIV GYKARAKGIK EAILDIGLHR PTPGARVFAV MKGVIDAGVE VPHGEEVVPS EERIRGEHVA EYAKRLKEEA P EAYKARFS RYLQRGLPPE ELPSHFEEVK KKIVEYYEQK LAKAVAR

UniProtKB: Large ribosomal subunit protein uL18

+
Macromolecule #18: Large ribosomal subunit protein eL18

MacromoleculeName: Large ribosomal subunit protein eL18 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 13.224723 KDa
SequenceString:
MPPNPTGPTN RQLRMLIRFL RKAATANSAN IWRAIAELVE RPRRSRVVVN VGKLNRVAND GDVVVIPGKL LGGGELKKRV VVAAVSVTP KAWKKVVEAG GEVLTIPELV RRNPKGSGVK IVI

UniProtKB: Large ribosomal subunit protein eL18

+
Macromolecule #19: Large ribosomal subunit protein eL19

MacromoleculeName: Large ribosomal subunit protein eL19 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 17.414342 KDa
SequenceString:
MVDVKRLAAE ILGVGVSRVK ISPEAVGRLE EVVTKDDVRA LIDEGLIWAE PEKGNSRGRW RELHEKKKKG RRRGQGSRKG RRLDEEEAW VNKMRVMRRF LNTLKRQGKL DPATWRQLYR MVKGNYFRDL RHLKTYINEH KLTKEPVK

UniProtKB: Large ribosomal subunit protein eL19

+
Macromolecule #20: Large ribosomal subunit protein eL20

MacromoleculeName: Large ribosomal subunit protein eL20 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 8.929547 KDa
SequenceString:
MPKIYRVVGD TSTGMKFVVE VVGERPYDAL EKVYSVLGSR HKLKRTQIRI REVSVVEPSS AKSNEAKMLM VLEKVVRY

UniProtKB: Large ribosomal subunit protein eL20

+
Macromolecule #21: Large ribosomal subunit protein eL21

MacromoleculeName: Large ribosomal subunit protein eL21 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 11.319301 KDa
SequenceString:
MVKRTHGYRY KSRKLLSKAP RERGMSGLSR LLYEYKPGDK VVIDIDPTFI STAPHRRYQG KVGVVIGTRG RAYVIETYIG DKKKIIITT PEHLRPHLGG

UniProtKB: Large ribosomal subunit protein eL21

+
Macromolecule #22: Large ribosomal subunit protein uL22

MacromoleculeName: Large ribosomal subunit protein uL22 / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 21.309219 KDa
SequenceString:
MPHFHYSLTD EQAAELVFKK YGVRITPEQI AKAYAPEQRM SWKKSVEVAR FIKGMTLKQA KAWLEDVVKL KRPIPIKTFK KKQAHHATP WEGWPVAKWP VKVAKRYLQL LENLENNAKF KGLDVERLVI IHAAAHKGIK IPNIMPRAFG RATPFNEETV N VEIVAAEL PKEVVPKRYK LNLVKR

UniProtKB: Large ribosomal subunit protein uL22

+
Macromolecule #23: Large ribosomal subunit protein uL23

MacromoleculeName: Large ribosomal subunit protein uL23 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 9.307085 KDa
SequenceString:
MIKRFVITEK ALRLAERENK ITIIVERTAT KKQIADEVQR LYNVKVEKVN TLITPRGEKK AYVKLAEGYS AMDLLTKLGV L

UniProtKB: Large ribosomal subunit protein uL23

+
Macromolecule #24: Large ribosomal subunit protein uL24

MacromoleculeName: Large ribosomal subunit protein uL24 / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 14.588312 KDa
SequenceString:
MPFTASAQPR KQRLSLYAAP LHLRRKLLNA KLSPELQKKL GVKRLPVRRG DTVLIMRGDF KGVTGKVVKV DLKRVRIFVE GATRTNSRG QTVYYPIHPS KVMIVDVDLS DKARQKLIER RKRGQHGSS

UniProtKB: Large ribosomal subunit protein uL24

+
Macromolecule #25: Large ribosomal subunit protein eL24

MacromoleculeName: Large ribosomal subunit protein eL24 / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 7.10254 KDa
SequenceString:
MKIHKCSFCG ADIPPGYGIM YVRSDGTVQR FCSRKCFVSA VKYGRNPRKL AWVRKKKAKT SK

UniProtKB: Large ribosomal subunit protein eL24

+
Macromolecule #26: Large ribosomal subunit protein uL29

MacromoleculeName: Large ribosomal subunit protein uL29 / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 9.15887 KDa
SequenceString:
MSERKLKPKA LREMSPEERR ELLNQLRAEL VKLQTQRSRG FVEKPGRIRQ VRRMIARILT IERELAKAGA RAEKGGAKA

UniProtKB: Large ribosomal subunit protein uL29

+
Macromolecule #27: Large ribosomal subunit protein uL30

MacromoleculeName: Large ribosomal subunit protein uL30 / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 20.287805 KDa
SequenceString:
MMAATEQKTV YPRYAVIRLR GIPTTPGDIA ATLDLLRLRR KFTMVVVVGS PSVMGMIERV NDWVTWGEID ADTLAEVLRK RGRIVGDKP LTLEYLQKWG WNSFEEVALA YISGEIETLA CKKDFKAREG QRPPCIPYLK PFFRLHPPRG GLNSVKLHFS V GGDLGYRG PLINDLIKRM L

UniProtKB: Large ribosomal subunit protein uL30

+
Macromolecule #28: Large ribosomal subunit protein eL30

MacromoleculeName: Large ribosomal subunit protein eL30 / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 10.886839 KDa
SequenceString:
MIDIGRELQV AINTGKVIIG LRETKKSLLT GAPKLVIIAA NAPRWAREDI EYYAKLAGVP IFTFPGSSIE LGAAAKRPHK IMALAVVDP GQSEILKLVE HA

UniProtKB: Large ribosomal subunit protein eL30

+
Macromolecule #29: Large ribosomal subunit protein eL31

MacromoleculeName: Large ribosomal subunit protein eL31 / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 10.668632 KDa
SequenceString:
MSEEKKVVLT REYVINLRRT REVSRTKRAK YAVGLIRRFV ARHLKVEPKA VKLGQALNEA LWARSIEKPP RRVHVVVEKL DDGTVRVEL KQ

UniProtKB: Large ribosomal subunit protein eL31

+
Macromolecule #30: Large ribosomal subunit protein eL32

MacromoleculeName: Large ribosomal subunit protein eL32 / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 18.172572 KDa
SequenceString:
MVVVPRRELP QPLKRLLRLR LQMKRRKPEF VRIDQWRYKR IEDSGWRNQR TLDNKIRRKW KGWPKPVEVG YRKPAAVRGL HPSGFVEVL VHRPEDLAGL DPKVHAVRIG RTVGLRKRLE IVKKARELGF YVLNPGKEVV ELLKKELNTA QPQQ

UniProtKB: Large ribosomal subunit protein eL32

+
Macromolecule #31: Large ribosomal subunit protein eL34

MacromoleculeName: Large ribosomal subunit protein eL34 / type: protein_or_peptide / ID: 31 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 9.373127 KDa
SequenceString:
MPRPAYRSRS LRRVKVKTPG GRTVVHYEKR AKGVPKCAVT GQPLGGMNSK VYRFGISTRA PSRPYGGVVS HKVLARAIRY AVRR

UniProtKB: Large ribosomal subunit protein eL34

+
Macromolecule #32: Large ribosomal subunit protein eL37

MacromoleculeName: Large ribosomal subunit protein eL37 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 6.174278 KDa
SequenceString:
MKGTPSMGKH NKGKTHIRCP RCGRHSYNVT KKYCASCGWG RSKRWRRYNW AK

UniProtKB: Large ribosomal subunit protein eL37

+
Macromolecule #33: LSU ribosomal protein L38E

MacromoleculeName: LSU ribosomal protein L38E / type: protein_or_peptide / ID: 33 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 7.954435 KDa
SequenceString:
MPKEIFLVEL WKKYGEKAQV VRVKRYEDFV KLKARLSGYL YTIRVPPDKA EQLISELKAK NVKVEEV

UniProtKB: LSU ribosomal protein L38E

+
Macromolecule #34: Large ribosomal subunit protein eL39

MacromoleculeName: Large ribosomal subunit protein eL39 / type: protein_or_peptide / ID: 34 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 6.030298 KDa
SequenceString:
MARNKPLGKK LRLAAALNSN RNPPLWVIAK TKRRVTRSPA RRHWRRQKLK A

UniProtKB: Large ribosomal subunit protein eL39

+
Macromolecule #35: Large ribosomal subunit protein eL40

MacromoleculeName: Large ribosomal subunit protein eL40 / type: protein_or_peptide / ID: 35 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 6.356657 KDa
SequenceString:
MPITLDPEKL AIVLQHRFNY KICRNCGARN PPDAEKCRRC RSRNLRPKKF KKK

UniProtKB: Large ribosomal subunit protein eL40

+
Macromolecule #36: eL42

MacromoleculeName: eL42 / type: protein_or_peptide / ID: 36 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 10.60361 KDa
SequenceString:
MKFPKSVNMY CPRCNTYTQH SVSNYHGGQR RSLAEGQRRY ERKLKGYGST PKPKQKRFAK VNKKVTLVFT CTKCGYKIVK SLGRMKKVE LV

+
Macromolecule #37: Large ribosomal subunit protein eL43

MacromoleculeName: Large ribosomal subunit protein eL43 / type: protein_or_peptide / ID: 37 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 11.387464 KDa
SequenceString:
MPFSHTKIVG PAGRYGARYG MGIRRKVTTI EVKQRGKHRC PSCRSLVRLE RLAFGIWHCP KCGHTFAGGA YVPQTILGKT IAPEELKGV EAEKAKWKEA AKR

UniProtKB: Large ribosomal subunit protein eL43

+
Macromolecule #38: DJ-1/PfpI domain-containing protein

MacromoleculeName: DJ-1/PfpI domain-containing protein / type: protein_or_peptide / ID: 38 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 20.956449 KDa
SequenceString:
MPKALLYVID TAKRDEYPTL KNFLVKGGYE VDVAVGSRDV NVNYTVDLMT LPSDKLPTLF EEYDAFALAG GFKIYYHVLQ KKPPLKIWD LNIDKERLAQ LVVEFNRRRK LLIAPMAVPA YVAQLGLLSG RHATVYPVTE LIKILRDNKV NFVNKQVVRS E NIITVKDI TTTSEKEFLA ALREKG

UniProtKB: DJ-1/PfpI domain-containing protein

+
Macromolecule #39: PaREP1 domain containing protein

MacromoleculeName: PaREP1 domain containing protein / type: protein_or_peptide / ID: 39 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Pyrobaculum calidifontis JCM 11548 (archaea)
Molecular weightTheoretical: 10.938797 KDa
SequenceString:
MPLCSKWESL ITWAEKGGNS YKALEFREKL VECIVYTATE KVKKKKLDEA EELLKYGKEV AKKFNIEELN FHIALLEKEI SKIRQRRAQ AQTK

UniProtKB: PaREP1 domain containing protein

+
Macromolecule #40: SPERMINE

MacromoleculeName: SPERMINE / type: ligand / ID: 40 / Number of copies: 46 / Formula: SPM
Molecular weightTheoretical: 202.34 Da
Chemical component information

ChemComp-SPM:
SPERMINE

+
Macromolecule #41: MAGNESIUM ION

MacromoleculeName: MAGNESIUM ION / type: ligand / ID: 41 / Number of copies: 173 / Formula: MG
Molecular weightTheoretical: 24.305 Da

+
Macromolecule #42: ZINC ION

MacromoleculeName: ZINC ION / type: ligand / ID: 42 / Number of copies: 5 / Formula: ZN
Molecular weightTheoretical: 65.409 Da

+
Macromolecule #43: water

MacromoleculeName: water / type: ligand / ID: 43 / Number of copies: 7994 / Formula: HOH
Molecular weightTheoretical: 18.015 Da
Chemical component information

ChemComp-HOH:
WATER

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

Concentration0.12 mg/mL
BufferpH: 7
Component:
ConcentrationFormulaName
20.0 mMC8H18N2O4SHEPES
10.0 mMKClPotassium Chloride
20.0 mMMg(CH3COO)2Magnesium Acetate
3.0 mMC10H26N4Spermine
2.0 mMC4H10O2S2DTT
GridModel: UltrAuFoil / Material: GOLD / Mesh: 300 / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Pretreatment - Type: GLOW DISCHARGE
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV

-
Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Number grids imaged: 1 / Number real images: 7318 / Average electron dose: 40.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.5 µm / Nominal defocus min: 0.5 µm / Nominal magnification: 105000
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

+
Image processing

Particle selectionNumber selected: 2360632
Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 1.95 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 183467
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
FSC plot (resolution estimation)

-
Atomic model buiding 1

RefinementProtocol: AB INITIO MODEL
Output model

PDB-9e6q:
Cryo-EM structure of the Pyrobaculum calidifontis 50S ribosomal subunit in complex with Dri

+
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