PDB entry 6gh6

View 6gh6 on RCSB PDB site
Description: cryo-em structure of bacterial rna polymerase-sigma54 holoenzyme intermediate partially loaded complex
Deposited on 2018-05-04, released 2018-07-04
The last revision was dated 2019-12-11, with a file datestamp of 2019-12-06.
Experiment type: EM
Resolution: 4.1 Å
R-factor: N/A
AEROSPACI score: 0.06 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA-directed RNA polymerase subunit alpha
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: rpoA, pez, phs, sez, b3295, JW3257
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: DNA-directed RNA polymerase subunit alpha
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: rpoA, pez, phs, sez, b3295, JW3257
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: DNA-directed RNA polymerase subunit beta
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: rpoB, groN, nitB, rif, ron, stl, stv, tabD, b3987, JW3950
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: DNA-directed RNA polymerase subunit beta'
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: rpoC, tabB, b3988, JW3951
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: DNA-directed RNA polymerase subunit omega
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: rpoZ, b3649, JW3624
    Database cross-references and differences (RAF-indexed):
  • Chain 'M':
    Compound: RNA polymerase sigma-54 factor,RNA polymerase sigma-54 factor,RNA polymerase sigma-54 factor,RNA polymerase sigma-54 factor,RNA polymerase sigma-54 factor
    Species: Klebsiella pneumoniae [TaxId:573]
    Gene: SM87_03359
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: nifH promoter non-tmeplate DNA
    Species: Klebsiella pneumoniae, synthetic [TaxId:573]
  • Chain 'T':
    Compound: nifH promoter template DNA
    Species: Klebsiella pneumoniae, synthetic [TaxId:573]

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:
    >6gh6A (A:)
mqgsvteflkprlvdieqvssthakvtleplergfghtlgnalrrillssmpgcavteve
idgvlheystkegvqedileillnlkglavrvqgkdeviltlnksgigpvtaadithdgd
veivkpqhvichltdenasismrikvqrgrgyvpastrihseederpigrllvdacyspv
eriaynveaarveqrtdldklviemetngtidpeeairraatilaeqleafvdlrdvrqp
evkeekpefdpillrpvddleltvrsanclkaeaihyigdlvqrtevellktpnlgkksl
teikdvlasrglslgmrlenwppasiade

    Sequence, based on observed residues (ATOM records):
    >6gh6A (A:)
vteflkprlvdieqvssthakvtleplergfghtlgnalrrillssmpgcavteveidgv
lheystkegvqedileillnlkglavrvqgkdeviltlnksgigpvtaadithdgdveiv
kpqhvichltdenasismrikvqrgrgyvpastrihseederpigrllvdacyspveria
ynveaarveqrtdldklviemetngtidpeeairraatilaeqleafvdlrdv

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6gh6B (B:)
mqgsvteflkprlvdieqvssthakvtleplergfghtlgnalrrillssmpgcavteve
idgvlheystkegvqedileillnlkglavrvqgkdeviltlnksgigpvtaadithdgd
veivkpqhvichltdenasismrikvqrgrgyvpastrihseederpigrllvdacyspv
eriaynveaarveqrtdldklviemetngtidpeeairraatilaeqleafvdlrdvrqp
evkeekpefdpillrpvddleltvrsanclkaeaihyigdlvqrtevellktpnlgkksl
teikdvlasrglslgmrlenwppasiade

    Sequence, based on observed residues (ATOM records):
    >6gh6B (B:)
svteflkprlvdieqvssthakvtleplergfghtlgnalrrillssmpgcavteveidg
vlheystkegvqedileillnlkglavrvqgkdeviltlnksgigpvtaadithdgdvei
vkpqhvichltdenasismrikvqrgrgyvpastrihseederpigrllvdacyspveri
aynveaarveqrtdldklviemetngtidpeeairraatilaeqleafvdlrdvr

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6gh6C (C:)
mvysytekkrirkdfgkrpqvldvpyllsiqldsfqkfieqdpegqygleaafrsvfpiq
sysgnselqyvsyrlgepvfdvqecqirgvtysaplrvklrlviyereapegtvkdikeq
evymgeiplmtdngtfvingtervivsqlhrspgvffdsdkgkthssgkvlynariipyr
gswldfefdpkdnlfvridrrrklpatiilralnytteqildlffekvifeirdnklqme
lvperlrgetasfdieangkvyvekgrritarhirqlekddvklievpveyiagkvvakd
yidestgelicaanmelsldllaklsqsghkrietlftndldhgpyisetlrvdptndrl
salveiyrmmrpgepptreaaeslfenlffsedrydlsavgrmkfnrsllreeiegsgil
skddiidvmkklidirngkgevddidhlgnrrirsvgemaenqfrvglvrveravkerls
lgdldtlmpqdminakpisaavkeffgssqlsqfmdqnnplseithkrrisalgpggltr
eragfevrdvhpthygrvcpietpegpniglinslsvyaqtneygfletpyrkvtdgvvt
deihylsaieegnyviaqansnldeeghfvedlvtcrskgesslfsrdqvdymdvstqqv
vsvgaslipflehddanralmganmqrqavptlradkplvgtgmeravavdsgvtavakr
ggvvqyvdasrivikvnedemypgeagidiynltkytrsnqntcinqmpcvslgepverg
dvladgpstdlgelalgqnmrvafmpwngynfedsilvservvqedrfttihiqelacvs
rdtklgpeeitadipnvgeaalskldesgivyigaevtggdilvgkvtpkgetqltpeek
llraifgekasdvkdsslrvpngvsgtvidvqvftrdgvekdkraleieemqlkqakkdl
seelqileaglfsriravlvaggveaekldklprdrwlelgltdeekqnqleqlaeqyde
lkhefekkleakrrkitqgddlapgvlkivkvylavkrriqpgdkmagrhgnkgviskin
piedmpydengtpvdivlnplgvpsrmnigqilethlgmaakgigdkinamlkqqqevak
lrefiqraydlgadvrqkvdlstfsdeevmrlaenlrkgmpiatpvfdgakeaeikellk
lgdlptsgqirlydgrtgeqferpvtvgymymlklnhlvddkmharstgsyslvtqqplg
gkaqfggqrfgemevwaleaygaaytlqemltvksddvngrtkmyknivdgnhqmepgmp
esfnvllkeirslginielede

    Sequence, based on observed residues (ATOM records):
    >6gh6C (C:)
mvysytekkrirkdfgkrpqvldvpyllsiqldsfqkfieqdpegqygleaafrsvfpiq
sysgnselqyvsyrlgepvfdvqecqirgvtysaplrvklrlviyereapegtvkdikeq
evymgeiplmtdngtfvingtervivsqlhrspgvffdsdkgkthssgkvlynariipyr
gswldfefdpkdnlfvridrrrklpatiilralnytteqildlffekvifeirdnklqme
lvperlrgetasfdieangkvyvekgrritarhirqlekddvklievpveyiagkvvakd
yidestgelicaanmelsldllaklsqsghkrietlftndldhgpyisetlrvdptndrl
salveiyrmmrpgepptreaaeslfenlffsedrydlsavgrmkfnrsllreeiegsgil
skddiidvmkklidirngkgevddidhlgnrrirsvgemaenqfrvglvrveravkerls
lgdldtlmpqdminakpisaavkeffgssqlsqfmdqnnplseithkrrisalgpggltr
eragfevrdvhpthygrvcpietpegpniglinslsvyaqtneygfletpyrkvtdgvvt
deihylsaieegnyviaqansnldeeghfvedlvtcrskgesslfsrdqvdymdvstqqv
vsvgaslipflehddanralmganmqrqavptlradkplvgtgmeravavdsgvtavakr
ggvvqyvdasrivikvnedemypgeagidiynltkytrsnqntcinqmpcvslgepverg
dvladgpstdlgelalgqnmrvafmpwngynfedsilvservvqedrfttihiqelacvs
rdtklgpeeitadipnvgeaalskldesgivyigaevtggdilvgkvtpkgetqltpeek
llraifgekasdvkdsslrvpngvsgtvidvqvftrdgvekdkraleieemqlkqakkdl
seelqileaglfsriravlvaggveaekldklprdrwlelgltdeekqnqleqlaeqyde
lkhefekkleakrrkitqgddlapgvlkivkvylavkrriqpgdkmagrhgnkgviskin
piedmpydengtpvdivlnplgvpsrmnigqilethlgmaakgigdkinamlkqqqevak
lrefiqraydlgadvrqkvdlstfsdeevmrlaenlrkgmpiatpvfdgakeaeikellk
lgdlptsgqirlydgrtgeqferpvtvgymymlklnhlvddkmharstgsyslvtqqplg
gkaqfggqrfgemevwaleaygaaytlqemltvksddvngrtkmyknivdgnhqmepgmp
esfnvllkeirslginieled

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6gh6D (D:)
mkdllkflkaqtkteefdaikialaspdmirswsfgevkkpetinyrtfkperdglfcar
ifgpvkdyeclcgkykrlkhrgvicekcgvevtqtkvrrermghielasptahiwflksl
psrigllldmplrdiervlyfesyvvieggmtnlerqqilteeqyldaleefgdefdakm
gaeaiqallksmdleqeceqlreelnetnsetkrkkltkriklleafvqsgnkpewmilt
vlpvlppdlrplvpldggrfatsdlndlyrrvinrnnrlkrlldlaapdiivrnekrmlq
eavdalldngrrgraitgsnkrplksladmikgkqgrfrqnllgkrvdysgrsvitvgpy
lrlhqcglpkkmalelfkpfiygklelrglattikaakkmvereeavvwdildevirehp
vllnraptlhrlgiqafepvliegkaiqlhplvcaaynadfdgdqmavhvpltleaqlea
ralmmstnnilspangepiivpsqdvvlglyymtrdcvnakgegmvltgpkeaerlyrsg
laslharvkvriteyekdangelvaktslkdttvgrailwmivpkglpysivnqalgkka
iskmlntcyrilglkptvifadqimytgfayaarsgasvgiddmvipekkheiiseaeae
vaeiqeqfqsglvtagerynkvidiwaaandrvskammdnlqtetvinrdgqeekqvsfn
siymmadsgargsaaqirqlagmrglmakpdgsiietpitanfreglnvlqyfisthgar
kgladtalktansgyltrrlvdvaqdlvvteddcgthegimmtpvieggdvkeplrdrvl
grvtaedvlkpgtadilvprntllheqwcdlleensvdavkvrsvvscdtdfgvcahcyg
rdlarghiinkgeaigviaaqsigepgtqltmrtfhiggaasraaaessiqvknkgsikl
snvksvvnssgklvitsrntelklidefgrtkesykvpygavlakgdgeqvaggetvanw
dphtmpvitevsgfvrftdmidgqtitrqtdeltglsslvvldsaertaggkdlrpalki
vdaqgndvlipgtdmpaqyflpgkaivqledgvqissgdtlaripqesggtkditgglpr
vadlfearrpkepailaeisgivsfgketkgkrrlvitpvdgsdpyeemipkwrqlnvfe
gervergdvisdgpeaphdilrlrgvhavtryivnevqdvyrlqgvkindkhievivrqm
lrkativnagssdflegeqveysrvkianreleangkvgatysrdllgitkaslatesfi
saasfqettrvlteaavagkrdelrglkenvivgrlipagtgyayhqdrmrrraageapa
apqvtaedasaslaellnaglggsdne

    Sequence, based on observed residues (ATOM records):
    >6gh6D (D:)
teefdaikialaspdmirswsfgevkkpetinyrtfkperdglfcarifgpvkdyeclcg
kykrlkhrgvicekcgvevtqtkvrrermghielasptahiwflkslpsrigllldmplr
diervlyfesyvvieggmtnlerqqilteeqyldaleefgdefdakmgaeaiqallksmd
leqeceqlreelnetnsetkrkkltkriklleafvqsgnkpewmiltvlpvlppdlrplv
pldggrfatsdlndlyrrvinrnnrlkrlldlaapdiivrnekrmlqeavdalldngrrg
raitgsnkrplksladmikgkqgrfrqnllgkrvdysgrsvitvgpylrlhqcglpkkma
lelfkpfiygklelrglattikaakkmvereeavvwdildevirehpvllnraptlhrlg
iqafepvliegkaiqlhplvcaaynadfdgdqmavhvpltleaqlearalmmstnnilsp
angepiivpsqdvvlglyymtrdcvnakgegmvltgpkeaerlyrsglaslharvkvrit
eyekdangelvaktslkdttvgrailwmivpkglpysivnqalgkkaiskmlntcyrilg
lkptvifadqimytgfayaarsgasvgiddmvipekkheiiseaeaevaeiqeqfqsglv
tagerynkvidiwaaandrvskammdnlqtetvinrdgqeekqvsfnsiymmadsgargs
aaqirqlagmrglmakpdgsiietpitanfreglnvlqyfisthgarkgladtalktans
gyltrrlvdvaqdlvvteddcgthegimmtpvieggdvkeplrdrvlgrvtaedvlkpgt
adilvprntllheqwcdlleensvdavkvrsvvscdtdfgvcahcygrdlarghiinkge
aigviaaqsigepgtqltmrtfhiggaasraaaessiqvknkgsiklsnvksvvnssgkl
vitsrntelklidefgrtkesykvpygavlakgdgeqvaggetvanwdphtmpvitevsg
fvrftdmidgqtitrqslvvldsaerrpalkivdaqgndvaqyflpgkaivqledgvqis
sgdtlaripqditgglprvadlfearrpkepailaeisgivsfgketkgkrrlvitpvdg
sdpyeemipkwrqlnvfegervergdvisdgpeaphdilrlrgvhavtryivnevqdvyr
lqgvkindkhievivrqmlrkativnagssdflegeqveysrvkianreleangkvgaty
srdllgitkaslatesfisaasfqettrvlteaavagkrdelrglkenvivgrlipagtg
yayhqdrmrrraag

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6gh6E (E:)
marvtvqdavekignrfdlvlvaarrarqmqvggkdplvpeendkttvialreieeglin
nqildvrerqeqqeqeaaelqavtaiaegrr

    Sequence, based on observed residues (ATOM records):
    >6gh6E (E:)
marvtvqdavekignrfdlvlvaarrarqmqvggkdplvpeendkttvialreieeglin
nqildvrerqeqqeq

  • Chain 'M':
    Sequence, based on SEQRES records:
    >6gh6M (M:)
mgsshhhhhhssglvprgshmkqglqlrlsqqlamtpqlqqairllqlstlelqqelqqa
lesnplleqtdlhdeveakevedresldtvdaleqkempdelpldaswdeiytagtpsgn
gvdyqddelpvyqgettqtlqdylmwqveltpftdtdraiatsivdavddtgyltiqied
ivdsigddeigleeveavlkriqrfdpvgvaakdlrdclliqlsqfaketpwleearlii
sdhldllanhdfrtlmrvtrlkeevlkeavnliqsldpxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxiprlkinqqyaamgnsarndadgqfirsnlqearwlikslesandtl
lrvsrciveqqqaffeqgeeymkpmvladiaqavemhestisrvttqkylhsprgifxxx
xxxxxxxxxxxxxeasstairalvkkliaaenpakplsdskltsmlseqgimvarrtvak
yreslsippsnqrkqlv

    Sequence, based on observed residues (ATOM records):
    >6gh6M (M:)
ettqtlqdylmwqveltpftdtdraiatsivdavddtgyltiqiedivdsigddeiglee
veavlkriqrfdpvgvaakdlrdclliqlsqfaketpwleearliisdhldllanhdfrt
lmrvtrlkeevlkeavnliqsldxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxsa
ndtllrvsrciveqqqaffeqgeeymkpmvladiaqavemhestisrvttqkylhsprgi
xxxxxxxxxxxxxxxxasstairalvkkliaaenpakplsdskltsmlseqgimvarrtv
akyreslsippsnqr

  • Chain 'N':
    No sequence available.

  • Chain 'T':
    No sequence available.