PDB entry 6tpq

View 6tpq on RCSB PDB site
Description: rnase m5 bound to 50s ribosome with precursor 5s rrna
Deposited on 2019-12-13, released 2020-09-30
The last revision was dated 2020-10-28, with a file datestamp of 2020-10-23.
Experiment type: EM
Resolution: 3.07 Å
R-factor: N/A
AEROSPACI score: 0.18 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Ribonuclease M5
    Species: Geobacillus stearothermophilus [TaxId:1422]
    Gene: rnmV, B4109_0079, B4114_0027, D9548_05595, GT94_11730, TGS27_1231
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Ribonuclease M5
    Species: Geobacillus stearothermophilus [TaxId:1422]
    Gene: rnmV, B4109_0079, B4114_0027, D9548_05595, GT94_11730, TGS27_1231
    Database cross-references and differences (RAF-indexed):
  • Chain 'U':
    Compound: pre-23S rRNA
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
  • Chain 'V':
    Compound: pre-5S rRNA
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
  • Chain 'W':
    Compound: 50S ribosomal protein L2
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'X':
    Compound: 50S ribosomal protein L3
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'Y':
    Compound: 50S ribosomal protein L4
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'Z':
    Compound: 50S ribosomal protein L5
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'a':
    Compound: 50S ribosomal protein L6
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'b':
    Compound: 50s ribosomal protein l10
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'c':
    Compound: 50S ribosomal protein L13
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'd':
    Compound: 50S ribosomal protein L14
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'e':
    Compound: 50S ribosomal protein L15
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'f':
    Compound: 50S ribosomal protein L16
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'g':
    Compound: 50S ribosomal protein L17
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'h':
    Compound: 50S ribosomal protein L18
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'i':
    Compound: 50S ribosomal protein L19
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'j':
    Compound: 50S ribosomal protein L20
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'k':
    Compound: 50S ribosomal protein L21
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'l':
    Compound: 50S ribosomal protein L22
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'm':
    Compound: 50S ribosomal protein L23
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'n':
    Compound: 50S ribosomal protein L24
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'o':
    Compound: 50S ribosomal protein L27
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'p':
    Compound: 50S ribosomal protein L32
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'q':
    Compound: 50S ribosomal protein L33 1
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'r':
    Compound: 50S ribosomal protein L34
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 's':
    Compound: 50S ribosomal protein L35
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 't':
    Compound: 50S ribosomal protein L36
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'u':
    Compound: 50S ribosomal protein L28
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'v':
    Compound: 50S ribosomal protein L29
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Chain 'w':
    Compound: 50S ribosomal protein L30
    Species: BACILLUS SUBTILIS SUBSP. SUBTILIS STR. 168 [TaxId:224308]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: MG, ZN

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6tpqA (A:)
mkikevivvegkddtaairravdadtietngaavgaevieriklakerrgviiftdpafp
gekirrtiaeqvpgckhaflpreaakarsgkgigvehaspddirqalanvyeetadweee
itfaelieaglvggemarrrrqrlgeelkigyangrqfhkrlkvfrisrdafyaalaqvm
reeagda

    Sequence, based on observed residues (ATOM records):
    >6tpqA (A:)
eeeitfaelieaglvggemarrrrqrlgeelkigyangrqfhkrlkvfrisrdafyaala
qvmreeagd

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6tpqB (B:)
mkikevivvegkddtaairravdadtietngaavgaevieriklakerrgviiftdpafp
gekirrtiaeqvpgckhaflpreaakarsgkgigvehaspddirqalanvyeetadweee
itfaelieaglvggemarrrrqrlgeelkigyangrqfhkrlkvfrisrdafyaalaqvm
reeagda

    Sequence, based on observed residues (ATOM records):
    >6tpqB (B:)
kevivvegkddtaairravdadtietngaavgaevieriklakerrgviiftdpafpgek
irrtiaeqvpgckhaflpreaakarsgkgigvehaspddirqalanvyeetadweeeitf
aelieaglvggemarrrrqrlgeelkigyangrqfhkrlkvfrisrdafyaalaqvmree
agd

  • Chain 'U':
    No sequence available.

  • Chain 'V':
    No sequence available.

  • Chain 'W':
    Sequence, based on SEQRES records:
    >6tpqW (W:)
maikkykptsngrrgmttsdfaeittdkpeksllaplhkkggrnnqgkltvrhqggghkr
qyrvidfkrdkdgipgrvatveydpnrsanialinyadgekryilapkgiqvgteimsgp
eadikvgnalplinipvgtvvhnielkpgkggqlvrsagtsaqvlgkegkyvlvrlnsge
vrmilsacrasigqvgneqhelinigkagrsrwkgirptvrgsvmnpndhphgggegrap
igrkspmspwgkptlgfktrkkknksdkfivrrrknk

    Sequence, based on observed residues (ATOM records):
    >6tpqW (W:)
aikkykptsngrrgmttsdfaeittdkpeksllaplhkkggrnnqgkltvrhqggghkrq
yrvidfkrdkdgipgrvatveydpnrsanialinyadgekryilapkgiqvgteimsgpe
adikvgnalplinipvgtvvhnielkpgkggqlvrsagtsaqvlgkegkyvlvrlnsgev
rmilsacrasigqvgneqhelinigkagrsrwkgirptvrgsvmnpndhphgggegrapi
grkspmspwgkptlgfktrkkknksdkfivrrrkn

  • Chain 'X':
    Sequence, based on SEQRES records:
    >6tpqX (X:)
mtkgilgrkigmtqvfaengdlipvtvieaapnvvlqkktaendgyeaiqlgfddkrekl
snkpekghvakaetapkrfvkelrgvemdayevgqevkveifsageivdvtgvskgkgfq
gaikrhgqsrgpmshgsryhrrpgsmgpvdpnrvfkgkllpgrmggeqitvqnleivkvd
aernlllikgnvpgakkslitvksavksk

    Sequence, based on observed residues (ATOM records):
    >6tpqX (X:)
tkgilgrkigmtqvfaengdlipvtvieaapnvvlqkktaendgyeaiqlgfddkrekls
nkpekghvakaetapkrfvkelrgvemdayevgqevkveifsageivdvtgvskgkgfqg
aikrhgqsrgpmshgsryhrrpgsmgpvdpnrvfkgkllpgrmggeqitvqnleivkvda
ernlllikgnvpgakkslitvksavks

  • Chain 'Y':
    Sequence, based on SEQRES records:
    >6tpqY (Y:)
mpkvalynqngstagdielnasvfgiepnesvvfdailmqraslrqgthkvknrsevrgg
grkpwrqkgtgrarqgsirspqwrgggvvfgptprsysyklpkkvrrlaiksvlsskvid
nniivledltldtaktkemaailkglsvekkalivtadaneavalsarnipgvtvveang
invldvvnhekllitkaavekveevla

    Sequence, based on observed residues (ATOM records):
    >6tpqY (Y:)
pkvalynqngstagdielnasvfgiepnesvvfdailmqraslrqgthkvknrsevrggg
rkpwrqkgtgrarqgsirspqwrgggvvfgptprsysyklpkkvrrlaiksvlsskvidn
niivledltldtaktkemaailkglsvekkalivtadaneavalsarnipgvtvveangi
nvldvvnhekllitkaavekveevl

  • Chain 'Z':
    Sequence, based on SEQRES records:
    >6tpqZ (Z:)
mnrlkekynkeiapalmtkfnydsvmqvpkiekivinmgvgdavqnakaidsaveeltfi
agqkpvvtrakksiagfrlregmpigakvtlrgermydfldklisvslprvrdfrgvskk
sfdgrgnytlgikeqlifpeidydkvtkvrgmdivivttantdeearelltqvgmpfqk

    Sequence, based on observed residues (ATOM records):
    >6tpqZ (Z:)
nrlkekynkeiapalmtkfnydsvmqvpkiekivinmgvgdavqnakaidsaveeltfia
gqkpvvtrakksiagfrlregmpigakvtlrgermydfldklisvslprvrdfrgvskks
fdgrgnytlgikeqlifpeidydkvtkvrgmdivivttantdeearelltqvgmpfqk

  • Chain 'a':
    Sequence, based on SEQRES records:
    >6tpqa (a:)
msrvgkklleipsdvtvtlndnntvavkgpkgeltrtfhpdmeikvednvltvarpsdqk
ehralhgttrsllgnmvegvskgferglelvgvgyrasksgnklvlnvgyshpveivpee
gieievpsqtkvvvkgtdkervgaiaaniravrspepykgkgiryegevvrrkegksak

    Sequence, based on observed residues (ATOM records):
    >6tpqa (a:)
srvgkklleipsdvtvtlndnntvavkgpkgeltrtfhpdmeikvednvltvarpsdqke
hralhgttrsllgnmvegvskgferglelvgvgyrasksgnklvlnvgyshpveivpeeg
ieievpsqtkvvvkgtdkervgaiaaniravrspepykgkgiryegevvrrkegk

  • Chain 'b':
    Sequence, based on SEQRES records:
    >6tpqb (b:)
mssaietkkvvveeiasklkeskstiivdyrglnvsevtelrkqlreanvefkvykntmt
rraveqaelnglndfltgpnaiafstedvvapakvlndfaknhealeikagviegkvstv
eevkalaelpsregllsmllsvlqapvrnlalaakavaeqkeeqga

    Sequence, based on observed residues (ATOM records):
    >6tpqb (b:)
aietkkvvveeiasklkeskstiivdyrglnvsevtelrkqlreanvefkvykntmtrra
veqaelnglndfltgpnaiafstedvvapakvlndfaknhealeikagviegkvstveev
kal

  • Chain 'c':
    Sequence, based on SEQRES records:
    >6tpqc (c:)
mrttpmanastierkwlvvdaagktlgrlssevaailrgkhkptytphvdtgdhviiina
ekieltgkkltdkiyyrhtqhpgglksrtalemrtnypekmlelaikgmlpkgslgrqmf
kklnvyrgsehpheaqkpevyelrg

    Sequence, based on observed residues (ATOM records):
    >6tpqc (c:)
tpmanastierkwlvvdaagktlgrlssevaailrgkhkptytphvdtgdhviiinaeki
eltgkkltdkiyyrhtqhpgglksrtalemrtnypekmlelaikgmlpkgslgrqmfkkl
nvyrgsehpheaqkpevyelrg

  • Chain 'd':
    Sequence; same for both SEQRES and ATOM records:
    >6tpqd (d:)
miqqetrlkvadnsgarevltikvlggsgrktanigdvivctvkqatpggvvkkgevvka
vivrtksgarrsdgsyisfdenacviirddksprgtrifgpvarelrennfmkivslape
vi

  • Chain 'e':
    Sequence; same for both SEQRES and ATOM records:
    >6tpqe (e:)
mklhelkpsegsrktrnrvgrgigsgngktagkghkgqnarsgggvrpgfeggqmplfqr
lpkrgftninrkeyavvnldklngfaegtevtpellletgvisklnagvkilgngklekk
ltvkankfsasakeaveaaggtaevi

  • Chain 'f':
    Sequence, based on SEQRES records:
    >6tpqf (f:)
mllpkrvkyrrehrgkmrgrakggtevhfgefgiqaleaswitnrqieaariamtrymkr
ggkvwikifpskpytakplevrmgsgkgapegwvavvkpgkvlfeisgvseevarealrl
ashklpiktkfvkreeiggesnes

    Sequence, based on observed residues (ATOM records):
    >6tpqf (f:)
mllpkrvkyrrehrgkmrgrakggtevhfgefgiqaleaswitnrqieaariamtrymkr
ggkvwikifpskpytakplevrmgsgkgapegwvavvkpgkvlfeisgvseevarealrl
ashklpiktkfvkreeig

  • Chain 'g':
    Sequence, based on SEQRES records:
    >6tpqg (g:)
msyrklgrtsaqrkamlrdlttdliineriettetrakelrsvvekmitlgkrgdlharr
qaaayirnevaneennqdalqklfsdiatryeerqggytrimklgprrgdgapmaiielv

    Sequence, based on observed residues (ATOM records):
    >6tpqg (g:)
syrklgrtsaqrkamlrdlttdliineriettetrakelrsvvekmitlgkrgdlharrq
aaayirnevaneennqdalqklfsdiatryeerqggytrimklgprrgdgapmaiielv

  • Chain 'h':
    Sequence; same for both SEQRES and ATOM records:
    >6tpqh (h:)
mitktsknaarlkrharvraklsgtaerprlnvfrsnkhiyaqiiddvngvtlasastld
kdlnvestgdtsaatkvgelvakraaekgisdvvfdrggylyhgrvkaladaareaglkf

  • Chain 'i':
    Sequence, based on SEQRES records:
    >6tpqi (i:)
mqklieditkeqlrtdlpafrpgdtlrvhvkvvegnreriqifegvvikrrgggisetft
vrkisygvgvertfpvhtpkiakievvrygkvrraklyylrelrgkaarikeirr

    Sequence, based on observed residues (ATOM records):
    >6tpqi (i:)
qklieditkeqlrtdlpafrpgdtlrvhvkvvegnreriqifegvvikrrgggisetftv
rkisygvgvertfpvhtpkiakievvrygkvrraklyylrelrgkaarikeirr

  • Chain 'j':
    Sequence, based on SEQRES records:
    >6tpqj (j:)
mprvkggtvtrkrrkkvlklakgyfgskhtlykvanqqvmksgnyafrdrrqkkrdfrkl
witrinaaarmnglsysrlmhglklsgievnrkmladlavndltafnqladaakaqlnk

    Sequence, based on observed residues (ATOM records):
    >6tpqj (j:)
prvkggtvtrkrrkkvlklakgyfgskhtlykvanqqvmksgnyafrdrrqkkrdfrklw
itrinaaarmnglsysrlmhglklsgievnrkmladlavndltafnqladaakaqln

  • Chain 'k':
    Sequence, based on SEQRES records:
    >6tpqk (k:)
myaiiktggkqikveegqtvyieklaaeagetvtfedvlfvggdnvkvgnptvegatvta
kvekqgrakkitvfrykpkknvhkkqghrqpytkvtiekina

    Sequence, based on observed residues (ATOM records):
    >6tpqk (k:)
yaiiktggkqikveegqtvyieklaaeagetvtfedvlfvggdnvkvgnptvegatvtak
vekqgrakkitvfrykpkknvhkkqghrqpytkvtiekina

  • Chain 'l':
    Sequence, based on SEQRES records:
    >6tpql (l:)
mqakavartvriaprkarlvmdlirgkqvgeavsilnltpraaspiiekvlksaianaeh
nyemdannlvisqafvdegptlkrfrpramgrasqinkrtshitivvsekkeg

    Sequence, based on observed residues (ATOM records):
    >6tpql (l:)
qakavartvriaprkarlvmdlirgkqvgeavsilnltpraaspiiekvlksaianaehn
yemdannlvisqafvdegptlkrfrpramgrasqinkrtshitivvsek

  • Chain 'm':
    Sequence, based on SEQRES records:
    >6tpqm (m:)
mkdprdvlkrpvitersadlmtekkytfevdvranktevkdavesifgvkvdkvnimnyk
gkskrvgrytgmtsrrrkaivkltadskeieifea

    Sequence, based on observed residues (ATOM records):
    >6tpqm (m:)
mkdprdvlkrpvitersadlmtekkytfevdvranktevkdavesifgvkvdkvnimnyk
gkskrvgrytgmtsrrrkaivkltadskeieif

  • Chain 'n':
    Sequence, based on SEQRES records:
    >6tpqn (n:)
mhvkkgdkvmvisgkdkgkqgtilaafpkkdrvlvegvnmvkkhskptqanpqggisnqe
apihvsnvmpldpktgevtrvgykvedgkkvrvakksgqvldk

    Sequence, based on observed residues (ATOM records):
    >6tpqn (n:)
mhvkkgdkvmvisgkdkgkqgtilaafpkkdrvlvegvnmvkkhskptqanpqggisnqe
apihvsnvmpldpktgevtrvgykvedgkkvrvakksgqvl

  • Chain 'o':
    Sequence, based on SEQRES records:
    >6tpqo (o:)
mlrldlqffaskkgvgstkngrdseakrlgakradgqfvtggsilyrqrgtkiypgenvg
rggddtlfakidgtvkferfgrdrkkvsvypvaq

    Sequence, based on observed residues (ATOM records):
    >6tpqo (o:)
skkgvgstkngrdseakrlgakradgqfvtggsilyrqrgtkiypgenvgrggddtlfak
idgtvkferfgrdrkkvsvypv

  • Chain 'p':
    Sequence, based on SEQRES records:
    >6tpqp (p:)
mavpfrrtskmkkrlrrthfklnvpgmtecpscgemklshrvckacgsyngkdinvksn

    Sequence, based on observed residues (ATOM records):
    >6tpqp (p:)
avpfrrtskmkkrlrrthfklnvpgmtecpscgemklshrvckacgsyngkdin

  • Chain 'q':
    Sequence, based on SEQRES records:
    >6tpqq (q:)
mrvnitlactecgernyiskknkrnnpdrvefkkycprdkkstlhretk

    Sequence, based on observed residues (ATOM records):
    >6tpqq (q:)
mrvnitlactecgernyiskknkrnnpdrvefkkycprdkkstlhret

  • Chain 'r':
    Sequence; same for both SEQRES and ATOM records:
    >6tpqr (r:)
mkrtfqpnnrkrskvhgfrsrmsskngrlvlarrrrkgrkvlsa

  • Chain 's':
    Sequence, based on SEQRES records:
    >6tpqs (s:)
mpkmkthrgsakrfkktgsgklkrshaytshlfanksqkqkrklrksavvsagdfkrikq
mlanik

    Sequence, based on observed residues (ATOM records):
    >6tpqs (s:)
pkmkthrgsakrfkktgsgklkrshaytshlfanksqkqkrklrksavvsagdfkrikqm
lani

  • Chain 't':
    Sequence, based on SEQRES records:
    >6tpqt (t:)
mkvrpsvkpicekckvirrkgkvmvicenpkhkqkqg

    Sequence, based on observed residues (ATOM records):
    >6tpqt (t:)
kvrpsvkpicekckvirrkgkvmvicenpkhkqkqg

  • Chain 'u':
    Sequence, based on SEQRES records:
    >6tpqu (u:)
markcvitgkkttagnnrshamnaskrtwganlqkvrilvngkpkkvyvsaralksgkve
rv

    Sequence, based on observed residues (ATOM records):
    >6tpqu (u:)
rkcvitgkkttagnnrshamnaskrtwganlqkvrilvngkpkkvyvsaralksgkve

  • Chain 'v':
    Sequence, based on SEQRES records:
    >6tpqv (v:)
mkaneirdlttaeieqkvkslkeelfnlrfqlatgqlentarirevrkaiarmktvirer
eiaank

    Sequence, based on observed residues (ATOM records):
    >6tpqv (v:)
mkaneirdlttaeieqkvkslkeelfnlrfqlatgqlentarirevrkaiarmktvirer
eiaan

  • Chain 'w':
    Sequence, based on SEQRES records:
    >6tpqw (w:)
makleitlkrsvigrpedqrvtvrtlglkktnqtvvhednaairgminkvshlvsvkeq

    Sequence, based on observed residues (ATOM records):
    >6tpqw (w:)
akleitlkrsvigrpedqrvtvrtlglkktnqtvvhednaairgminkvshlvsvkeq