› › Structure analysis

Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome

X-ray diffraction
2.7Å resolution
PDB entry 5hd1 coloured by chain, front view.
PDB entry 5hd1 coloured by chain, side view.
PDB entry 5hd1 coloured by chain, top view.
Source organisms:
Assembly composition:
hetero 55-mer (preferred)
Entry contents: 50 distinct polypeptide molecules
5 distinct RNA molecules

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Assemblies

Assembly 1
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Multimeric state: hetero 55-mer
PDBe Complex ID: PDB-CPX-147923
Assembly 2 (preferred)
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Multimeric state: hetero 55-mer
PDBe Complex ID: PDB-CPX-147923

Macromolecules

Large ribosomal subunit protein uL2
Chains: 1D, 2D
Length: 276 amino acids
Theoretical weight: 30.53 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60405 (Residues: 1-276; Coverage: 100%)
Gene names: TTHA1689, rplB
Pfam:
InterPro:
Large ribosomal subunit protein uL2 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL2 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL2 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL3
Chains: 1E, 2E
Length: 206 amino acids
Theoretical weight: 22.45 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHN8 (Residues: 1-206; Coverage: 100%)
Gene names: TTHA1692, rplC
Pfam: Ribosomal protein L3
InterPro:
Large ribosomal subunit protein uL3 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL3 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL3 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL4
Chains: 1F, 2F
Length: 210 amino acids
Theoretical weight: 23.27 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHN9 (Residues: 1-210; Coverage: 100%)
Gene names: TTHA1691, rplD
Pfam: Ribosomal protein L4/L1 family
InterPro:
Large ribosomal subunit protein uL4 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL4 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL4 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL5
Chains: 1G, 2G
Length: 182 amino acids
Theoretical weight: 21.06 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHQ0 (Residues: 1-182; Coverage: 100%)
Gene names: TTHA1680, rplE
Pfam:
InterPro:
Large ribosomal subunit protein uL5 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL5 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL5 in PDB entry 5hd1, assembly 2, top view.
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50S ribosomal protein L6
Chains: 1H, 2H
Length: 180 amino acids
Theoretical weight: 19.57 KDa
Source organism: Thermus thermophilus HB8
InterPro:
50S ribosomal protein L6 in PDB entry 5hd1, assembly 2, front view.
50S ribosomal protein L6 in PDB entry 5hd1, assembly 2, side view.
50S ribosomal protein L6 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein bL9
Chains: 1I, 2I
Length: 148 amino acids
Theoretical weight: 16.42 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SLQ1 (Residues: 1-148; Coverage: 100%)
Gene names: TTHA0242, rplI
Pfam:
InterPro:
Large ribosomal subunit protein bL9 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL9 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL9 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL13
Chains: 1N, 2N
Length: 140 amino acids
Theoretical weight: 15.93 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60488 (Residues: 1-140; Coverage: 100%)
Gene names: TTHA1465, rplM
Pfam: Ribosomal protein L13
InterPro:
Large ribosomal subunit protein uL13 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL13 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL13 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL14
Chains: 1O, 2O
Length: 122 amino acids
Theoretical weight: 13.32 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHP8 (Residues: 1-122; Coverage: 100%)
Gene names: TTHA1682, rplN
Pfam: Ribosomal protein L14p/L23e
InterPro:
Large ribosomal subunit protein uL14 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL14 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL14 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL15
Chains: 1P, 2P
Length: 150 amino acids
Theoretical weight: 16.32 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHQ7 (Residues: 1-150; Coverage: 100%)
Gene names: TTHA1673, rplO
Pfam: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
InterPro:
Large ribosomal subunit protein uL15 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL15 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL15 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL16
Chains: 1Q, 2Q
Length: 141 amino acids
Theoretical weight: 15.99 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60489 (Residues: 1-141; Coverage: 100%)
Gene names: TTHA1685, rplP
Pfam: Ribosomal protein L16p/L10e
InterPro:
Large ribosomal subunit protein uL16 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL16 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL16 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein bL17
Chains: 1R, 2R
Length: 118 amino acids
Theoretical weight: 13.75 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q9Z9H5 (Residues: 1-118; Coverage: 100%)
Gene names: TTHA1663, rpl17, rplQ
Pfam: Ribosomal protein L17
InterPro:
Large ribosomal subunit protein bL17 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL17 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL17 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL18
Chains: 1S, 2S
Length: 112 amino acids
Theoretical weight: 12.64 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHQ4 (Residues: 1-112; Coverage: 100%)
Gene names: TTHA1676, rplR
Pfam: Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
InterPro:
Large ribosomal subunit protein uL18 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL18 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL18 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein bL19
Chains: 1T, 2T
Length: 146 amino acids
Theoretical weight: 17.19 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60490 (Residues: 1-146; Coverage: 100%)
Gene names: TTHA1031, rplS
Pfam: Ribosomal protein L19
InterPro:
Large ribosomal subunit protein bL19 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL19 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL19 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein bL20
Chains: 1U, 2U
Length: 118 amino acids
Theoretical weight: 13.78 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60491 (Residues: 1-118; Coverage: 100%)
Gene names: TTHA0553, rplT
Pfam: Ribosomal protein L20
InterPro:
Large ribosomal subunit protein bL20 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL20 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL20 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein bL21
Chains: 1V, 2V
Length: 101 amino acids
Theoretical weight: 11.07 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60492 (Residues: 1-101; Coverage: 100%)
Gene names: TTHA1783, rplU
Pfam: Ribosomal prokaryotic L21 protein
InterPro:
Large ribosomal subunit protein bL21 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL21 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL21 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL22
Chains: 1W, 2W
Length: 113 amino acids
Theoretical weight: 12.81 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHP3 (Residues: 1-113; Coverage: 100%)
Gene names: TTHA1687, rplV
Pfam: Ribosomal protein L22p/L17e
InterPro:
Large ribosomal subunit protein uL22 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL22 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL22 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL23
Chains: 1X, 2X
Length: 96 amino acids
Theoretical weight: 10.76 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHP0 (Residues: 1-96; Coverage: 100%)
Gene names: TTHA1690, rplW
Pfam: Ribosomal protein L23
InterPro:
Large ribosomal subunit protein uL23 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL23 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL23 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein uL24
Chains: 1Y, 2Y
Length: 110 amino acids
Theoretical weight: 12.09 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHP9 (Residues: 1-110; Coverage: 100%)
Gene names: TTHA1681, rplX
Pfam:
InterPro:
Large ribosomal subunit protein uL24 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL24 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL24 in PDB entry 5hd1, assembly 2, top view.
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Large ribosomal subunit protein bL25
Chains: 1Z, 2Z
Length: 206 amino acids
Theoretical weight: 23.24 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHZ1 (Residues: 1-206; Coverage: 100%)
Gene names: TTHA1589, rpl25, rplY, rptL5
Pfam:
InterPro:
Large ribosomal subunit protein bL25 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL25 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL25 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL27
Chains: 10, 20
Length: 85 amino acids
Theoretical weight: 9.53 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60493 (Residues: 1-85; Coverage: 100%)
Gene names: TTHA1782, rpmA
Pfam: Ribosomal L27 protein
InterPro:
Large ribosomal subunit protein bL27 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL27 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL27 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL28
Chains: 11, 21
Length: 98 amino acids
Theoretical weight: 11 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P60494 (Residues: 1-98; Coverage: 100%)
Gene names: TTHA0042, rpmB
Pfam: Ribosomal L28 family
InterPro:
Large ribosomal subunit protein bL28 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL28 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL28 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein uL29
Chains: 12, 22
Length: 72 amino acids
Theoretical weight: 8.67 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHP6 (Residues: 1-72; Coverage: 100%)
Gene names: TTHA1684, rpmC
Pfam: Ribosomal L29 protein
InterPro:
Large ribosomal subunit protein uL29 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL29 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL29 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein uL30
Chains: 13, 23
Length: 60 amino acids
Theoretical weight: 6.8 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHQ6 (Residues: 1-60; Coverage: 100%)
Gene names: TTHA1674, rpmD
Pfam: Ribosomal protein L30p/L7e
InterPro:
Large ribosomal subunit protein uL30 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein uL30 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein uL30 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL31
Chains: 14, 24
Length: 71 amino acids
Theoretical weight: 8.3 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SJE1 (Residues: 1-71; Coverage: 100%)
Gene names: TTHA1073, rpmE
Pfam: Ribosomal protein L31
InterPro:
Large ribosomal subunit protein bL31 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL31 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL31 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL32
Chains: 15, 25
Length: 60 amino acids
Theoretical weight: 6.72 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80339 (Residues: 1-60; Coverage: 100%)
Gene names: TTHA0418, rpl32, rpmF
Pfam: Ribosomal L32p protein family
InterPro:
Large ribosomal subunit protein bL32 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL32 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL32 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL33
Chains: 16, 26
Length: 54 amino acids
Theoretical weight: 6.63 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P35871 (Residues: 1-54; Coverage: 100%)
Gene names: TTHA0250, rpl33, rpmG
Pfam: Ribosomal protein L33
InterPro:
Large ribosomal subunit protein bL33 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL33 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL33 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL34
Chains: 17, 27
Length: 49 amino acids
Theoretical weight: 6.13 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80340 (Residues: 1-49; Coverage: 100%)
Gene names: TTHA0446, rpl34, rpmH
Pfam: Ribosomal protein L34
InterPro:
Large ribosomal subunit protein bL34 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL34 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL34 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL35
Chains: 18, 28
Length: 65 amino acids
Theoretical weight: 7.51 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SKU1 (Residues: 1-65; Coverage: 100%)
Gene names: TTHA0552, rpmI
Pfam: Ribosomal protein L35
InterPro:
Large ribosomal subunit protein bL35 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL35 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL35 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Large ribosomal subunit protein bL36
Chains: 19, 29
Length: 37 amino acids
Theoretical weight: 4.44 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHR2 (Residues: 1-37; Coverage: 100%)
Gene names: TTHA1668, rpmJ
Pfam: Ribosomal protein L36
InterPro:
Large ribosomal subunit protein bL36 in PDB entry 5hd1, assembly 2, front view.
Large ribosomal subunit protein bL36 in PDB entry 5hd1, assembly 2, side view.
Large ribosomal subunit protein bL36 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS2
Chains: 1b, 2b
Length: 256 amino acids
Theoretical weight: 29.32 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80371 (Residues: 1-256; Coverage: 100%)
Gene names: TTHA0861, rps2, rpsB
Pfam: Ribosomal protein S2
InterPro:
Small ribosomal subunit protein uS2 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS2 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS2 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS3
Chains: 1c, 2c
Length: 239 amino acids
Theoretical weight: 26.75 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80372 (Residues: 1-239; Coverage: 100%)
Gene names: TTHA1686, rps3, rpsC
Pfam:
InterPro:
Small ribosomal subunit protein uS3 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS3 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS3 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS4
Chains: 1d, 2d
Length: 209 amino acids
Theoretical weight: 24.37 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80373 (Residues: 1-209; Coverage: 100%)
Gene names: TTHA1665, rps4, rpsD
Pfam:
InterPro:
Small ribosomal subunit protein uS4 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS4 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS4 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS5
Chains: 1e, 2e
Length: 162 amino acids
Theoretical weight: 17.58 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHQ5 (Residues: 1-162; Coverage: 100%)
Gene names: TTHA1675, rpsE
Pfam:
InterPro:
Small ribosomal subunit protein uS5 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS5 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS5 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein bS6
Chains: 1f, 2f
Length: 101 amino acids
Theoretical weight: 11.99 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SLP8 (Residues: 1-101; Coverage: 100%)
Gene names: TTHA0245, rpsF
Pfam: Ribosomal protein S6
InterPro:
Small ribosomal subunit protein bS6 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein bS6 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein bS6 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS7
Chains: 1g, 2g
Length: 156 amino acids
Theoretical weight: 18.05 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P17291 (Residues: 1-156; Coverage: 100%)
Gene names: TTHA1696, rps7, rpsG
Pfam: Ribosomal protein S7p/S5e
InterPro:
Small ribosomal subunit protein uS7 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS7 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS7 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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30S ribosomal protein S8
Chains: 1h, 2h
Length: 138 amino acids
Theoretical weight: 15.87 KDa
Source organism: Thermus thermophilus HB8
InterPro:
30S ribosomal protein S8 in PDB entry 5hd1, assembly 2, front view.
30S ribosomal protein S8 in PDB entry 5hd1, assembly 2, side view.
30S ribosomal protein S8 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS9
Chains: 1i, 2i
Length: 128 amino acids
Theoretical weight: 14.41 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80374 (Residues: 1-128; Coverage: 100%)
Gene names: TTHA1464, rps9, rpsI
Pfam: Ribosomal protein S9/S16
InterPro:
Small ribosomal subunit protein uS9 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS9 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS9 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS10
Chains: 1j, 2j
Length: 105 amino acids
Theoretical weight: 11.95 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHN7 (Residues: 1-105; Coverage: 100%)
Gene names: TTHA1693, rpsJ
Pfam: Ribosomal protein S10p/S20e
InterPro:
Small ribosomal subunit protein uS10 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS10 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS10 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS11
Chains: 1k, 2k
Length: 129 amino acids
Theoretical weight: 13.74 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80376 (Residues: 1-129; Coverage: 100%)
Gene names: TTHA1666, rps11, rpsK
Pfam: Ribosomal protein S11
InterPro:
Small ribosomal subunit protein uS11 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS11 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS11 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS12
Chains: 1l, 2l
Length: 132 amino acids
Theoretical weight: 14.64 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHN3 (Residues: 1-132; Coverage: 100%)
Gene names: TTHA1697, rpsL
Pfam: Ribosomal protein S12/S23
InterPro:
Small ribosomal subunit protein uS12 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS12 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS12 in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS13
Chains: 1m, 2m
Length: 126 amino acids
Theoretical weight: 14.34 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80377 (Residues: 1-126; Coverage: 100%)
Gene names: TTHA1667, rps13, rpsM
Pfam: Ribosomal protein S13/S18
InterPro:
Small ribosomal subunit protein uS13 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS13 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS13 in PDB entry 5hd1, assembly 2, top view.
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30S ribosomal protein S14 type Z
Chains: 1n, 2n
Length: 61 amino acids
Theoretical weight: 7.16 KDa
Source organism: Thermus thermophilus HB8
InterPro:
30S ribosomal protein S14 type Z in PDB entry 5hd1, assembly 2, front view.
30S ribosomal protein S14 type Z in PDB entry 5hd1, assembly 2, side view.
30S ribosomal protein S14 type Z in PDB entry 5hd1, assembly 2, top view.
Molecule details ›

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Small ribosomal subunit protein uS15
Chains: 1o, 2o
Length: 89 amino acids
Theoretical weight: 10.58 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SJ76 (Residues: 1-89; Coverage: 100%)
Gene names: TTHA1138, rpsO
Pfam: Ribosomal protein S15
InterPro:
Small ribosomal subunit protein uS15 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS15 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS15 in PDB entry 5hd1, assembly 2, top view.
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Small ribosomal subunit protein bS16
Chains: 1p, 2p
Length: 88 amino acids
Theoretical weight: 10.41 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SJH3 (Residues: 1-88; Coverage: 100%)
Gene names: TTHA1035, rpsP
Pfam: Ribosomal protein S16
InterPro:
Small ribosomal subunit protein bS16 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein bS16 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein bS16 in PDB entry 5hd1, assembly 2, top view.
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30S ribosomal protein S17
Chains: 1q, 2q
Length: 105 amino acids
Theoretical weight: 12.33 KDa
Source organism: Thermus thermophilus HB8
InterPro:
30S ribosomal protein S17 in PDB entry 5hd1, assembly 2, front view.
30S ribosomal protein S17 in PDB entry 5hd1, assembly 2, side view.
30S ribosomal protein S17 in PDB entry 5hd1, assembly 2, top view.
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Small ribosomal subunit protein bS18
Chains: 1r, 2r
Length: 88 amino acids
Theoretical weight: 10.26 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SLQ0 (Residues: 1-88; Coverage: 100%)
Gene names: TTHA0243, rpsR
Pfam: Ribosomal protein S18
InterPro:
Small ribosomal subunit protein bS18 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein bS18 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein bS18 in PDB entry 5hd1, assembly 2, top view.
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Small ribosomal subunit protein uS19
Chains: 1s, 2s
Length: 93 amino acids
Theoretical weight: 10.61 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHP2 (Residues: 1-93; Coverage: 100%)
Gene names: TTHA1688, rpsS
Pfam: Ribosomal protein S19
InterPro:
Small ribosomal subunit protein uS19 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein uS19 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein uS19 in PDB entry 5hd1, assembly 2, top view.
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Small ribosomal subunit protein bS20
Chains: 1t, 2t
Length: 106 amino acids
Theoretical weight: 11.74 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: P80380 (Residues: 1-106; Coverage: 100%)
Gene names: TTHA1397, rps20, rpsT
Pfam: Ribosomal protein S20
InterPro:
Small ribosomal subunit protein bS20 in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein bS20 in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein bS20 in PDB entry 5hd1, assembly 2, top view.
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Small ribosomal subunit protein bTHX
Chains: 1u, 2u
Length: 27 amino acids
Theoretical weight: 3.35 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SIH3 (Residues: 1-27; Coverage: 100%)
Gene names: TTHA1396, rpsU
Pfam: 30S ribosomal protein Thx
InterPro:
Small ribosomal subunit protein bTHX in PDB entry 5hd1, assembly 2, front view.
Small ribosomal subunit protein bTHX in PDB entry 5hd1, assembly 2, side view.
Small ribosomal subunit protein bTHX in PDB entry 5hd1, assembly 2, top view.
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Pyrrhocoricin
Chains: 1z, 2z
Length: 20 amino acids
Theoretical weight: 2.34 KDa
Source organism: Pyrrhocoris apterus
Expression system: Not provided
UniProt:
  • Canonical: P37362 (Residues: 1-20; Coverage: 100%)
Pyrrhocoricin in PDB entry 5hd1, assembly 2, front view.
Pyrrhocoricin in PDB entry 5hd1, assembly 2, side view.
Pyrrhocoricin in PDB entry 5hd1, assembly 2, top view.
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RNA chains 1A, 2A
Name: 23S ribosomal RNA
Representative chains: 1A, 2A
Length: 2915 nucleotides
Theoretical weight: 947.9 KDa
Rfam: Bacterial large subunit ribosomal RNA
23S ribosomal RNA in PDB entry 5hd1, assembly 2, front view.
23S ribosomal RNA in PDB entry 5hd1, assembly 2, side view.
23S ribosomal RNA in PDB entry 5hd1, assembly 2, top view.
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RNA chains 1B, 2B
Name: 5S ribosomal RNA
Representative chains: 1B, 2B
Length: 121 nucleotides
Theoretical weight: 39.19 KDa
Rfam: 5S ribosomal RNA
5S ribosomal RNA in PDB entry 5hd1, assembly 2, front view.
5S ribosomal RNA in PDB entry 5hd1, assembly 2, side view.
5S ribosomal RNA in PDB entry 5hd1, assembly 2, top view.
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RNA chains 1a, 2a
Name: 16S ribosomal RNA
Representative chains: 1a, 2a
Length: 1521 nucleotides
Theoretical weight: 493.65 KDa
Rfam: Bacterial small subunit ribosomal RNA
16S ribosomal RNA in PDB entry 5hd1, assembly 2, front view.
16S ribosomal RNA in PDB entry 5hd1, assembly 2, side view.
16S ribosomal RNA in PDB entry 5hd1, assembly 2, top view.
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RNA chains 1v, 2v
Name: Messenger RNA
Representative chains: 1v, 2v
Length: 24 nucleotides
Theoretical weight: 7.8 KDa
Messenger RNA in PDB entry 5hd1, assembly 2, front view.
Messenger RNA in PDB entry 5hd1, assembly 2, side view.
Messenger RNA in PDB entry 5hd1, assembly 2, top view.
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RNA chains 1x, 2x
Name: P-site tRNA
Representative chains: 1x, 2x
Length: 77 nucleotides
Theoretical weight: 24.85 KDa
Rfam: tRNA
P-site tRNA in PDB entry 5hd1, assembly 2, front view.
P-site tRNA in PDB entry 5hd1, assembly 2, side view.
P-site tRNA in PDB entry 5hd1, assembly 2, top view.
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