PDB entry 2b8k

View 2b8k on RCSB PDB site
Description: 12-subunit RNA Polymerase II
Class: Transferase
Keywords: DNA-directed RNA polymerase, DNA-dependent RNA polymerase, cellular RNA polymerase, metal-binding, nuclear protein, transcription, zinc
Deposited on 2005-10-07, released 2006-06-20
The last revision prior to the SCOP 1.75 freeze date was dated 2006-06-27, with a file datestamp of 2007-06-04.
Experiment type: XRAY
Resolution: 4.15 Å
R-factor: N/A
AEROSPACI score: 0.07 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA-directed RNA polymerase II largest subunit
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8ka1
  • Chain 'B':
    Compound: DNA-directed RNA polymerase II 140 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kb1
  • Chain 'C':
    Compound: DNA-directed RNA polymerase II 45 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kc1, d2b8kc2
  • Chain 'D':
    Compound: DNA-directed RNA polymerase II 32 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kd1
  • Chain 'E':
    Compound: DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8ke1, d2b8ke2
  • Chain 'F':
    Compound: DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kf1
  • Chain 'G':
    Compound: DNA-directed RNA polymerase II 19 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kg1, d2b8kg2
  • Chain 'H':
    Compound: DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kh1
  • Chain 'I':
    Compound: DNA-directed RNA polymerase II subunit 9
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8ki1, d2b8ki2
  • Chain 'J':
    Compound: DNA-directed RNA polymerases I/II/III subunit 10
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kj1
  • Chain 'K':
    Compound: DNA-directed RNA polymerase II 13.6 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kk1
  • Chain 'L':
    Compound: DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide
    Species: Saccharomyces cerevisiae
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2b8kl1
  • Heterogens: ZN

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2b8kA (A:)
mvgqqyssaplrtvkevqfglfspeevraisvakirfpetmdetqtrakigglndprlgs
idrnlkcqtcqegmnecpghfghidlakpvfhvgfiakikkvcecvcmhcgkllldehne
lmrqalaikdskkrfaaiwtlcktkmvcetdvpseddptqlvsrggcgntqptirkdglk
lvgswkkdratgdadepelrvlsteeilnifkhisvkdftslgfnevfsrpewmiltclp
vppppvrpsisfnesqrgeddltfkladilkanisletlehngaphhaieeaesllqfhv
atymdndiagqpqalqksgrpvksirarlkgkegrirgnlmgkrvdfsartvisgdpnle
ldqvgvpksiaktltypevvtpynidrltqlvrngpnehpgakyvirdsgdridlryskr
agdiqlqygwkverhimdndpvlfnrqpslhkmsmmahrvkvipystfrlnlsvtspyna
dfdgdemnlhvpqseetraelsqlcavplqivspqsnkpcmgivqdtlcgirkltlrdtf
ieldqvlnmlywvpdwdgviptpaiikpkplwsgkqilsvaipngihlqrfdegttllsp
kdngmliidgqiifgvvekktvgssngglihvvtrekgpqvcaklfgniqkvvnfwllhn
gfstgigdtiadgptmreitetiaeakkkvldvtkeaqanlltakhgmtlresfednvvr
flneardkagrlaevnlkdlnnvkqmvmagskgsfiniaqmsacvgqqsvegkriafgfv
drtlphfskddyspeskgfvensylrgltpqefffhamggreglidtavktaetgyiqrr
lvkaledimvhydnttrnslgnviqfiygedgmdaahiekqsldtiggsdaafekryrvd
llntdhtldpsllesgseilgdlklqvlldeeykqlvkdrkflrevfvdgeanwplpvni
rriiqnaqqtfhidhtkpsdltikdivlgvkdlqenllvlrgkneiiqnaqrdavtlfcc
llrsrlatrrvlqeyrltkqafdwvlsnieaqflrsvvhpgemvgvlaaqsigepatqmt
lntfhfagvaskkvtsgvprlkeilnvaknmktpsltvylepghaadqeqaklirsaieh
ttlksvtiaseiyydpdprstvipedeeiiqlhfslldeeaeqsfdqqspwllrleldra
amndkdltmgqvgerikqtfkndlfviwsedndekliircrvvrpksldaeteaeedhml
kkientmlenitlrgveniervvmmkydrkvpsptgeyvkepewvletdgvnlsevmtvp
gidptriytnsfidimevlgieagraalykevynviasdgsyvnyrhmallvdvmttqgg
ltsvtrhgfnrsntgalmrcsfeetveilfeagasaelddcrgvsenvilgqmapigtga
fdvmideeslvkympeqkiteiedgqdggvtpysnesglvnadldvkdelmfsplvdsgs
ndamaggftayggadygeatspfgaygeaptspgfgvsspgfsptsptysptspayspts
psysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsys
ptspsysptspsysptspsysptspsysptspsysptspaysptspsysptspsysptsp
sysptspsysptspnysptspsysptspgyspgspayspkqdeqkhnenensr

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kA (A:)
vgqqyssaplrtvkevqfglfspeevraisvakirfpetmdetqtrakigglndprlgsi
drnlkcqtcqegmnecpghfghidlakpvfhvgfiakikkvcecvcmhcgkllldehnel
mrqalaikdskkrfaaiwtlcktkmvcetdvpseddptqlvsrggcgntqptirkdglkl
vgswkdepelrvlsteeilnifkhisvkdftslgfnevfsrpewmiltclpvppppvrps
isfnesqrgeddltfkladilkanisletlehngaphhaieeaesllqfhvatymdndia
gqpqalqksgrpvksirarlkgkegrirgnlmgkrvdfsartvisgdpnleldqvgvpks
iaktltypevvtpynidrltqlvrngpnehpgakyvirdsgdridlryskragdiqlqyg
wkverhimdndpvlfnrqpslhkmsmmahrvkvipystfrlnlsvtspynadfdgdemnl
hvpqseetraelsqlcavplqivspqsnkpcmgivqdtlcgirkltlrdtfieldqvlnm
lywvpdwdgviptpaiikpkplwsgkqilsvaipngihlqrfdegttllspkdngmliid
gqiifgvvekktvgssngglihvvtrekgpqvcaklfgniqkvvnfwllhngfstgigdt
iadgptmreitetiaeakkkvldvtkeaqanlltakhgmtlresfednvvrflneardka
grlaevnlkdlnnvkqmvmagskgsfiniaqmsacvgqqsvegkriafgfvdrtlphfsk
ddyspeskgfvensylrgltpqefffhamggreglidtavktaetgyiqrrlvkaledim
vhydnttrnslgnviqfiygedgmdaahiekqsldtiggsdaafekryrvdllntdhtld
psllesgseilgdlklqvlldeeykqlvkdrkflrevfvdgeanwplpvnirriiqnaqq
tfhidhtkpsdltikdivlgvkdlqenllvlrgkneiiqnaqrdavtlfccllrsrlatr
rvlqeyrltkqafdwvlsnieaqflrsvvhpgemvgvlaaqsigepatqmtlkkvtsgvp
rlkeilnvaknmktpsltvylepghaadqeqaklirsaiehttlksvtiaseiyydpdpr
stvipedeeiiqlhfslqqspwllrleldraamndkdltmgqvgerikqtfkndlfviws
edndekliircrvvaeedhmlkkientmlenitlrgveniervvmmkydrkvpsptgeyv
kepewvletdgvnlsevmtvpgidptriytnsfidimevlgieagraalykevynviasd
gsyvnyrhmallvdvmttqggltsvtrhgfnrsntgalmrcsfeetveilfeagasaeld
dcrgvsenvilgqmapigtgafdvmideeslvkymp

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2b8kB (B:)
msdlansekyydedpygfedesapitaedswavisaffrekglvsqqldsfnqfvdytlq
diicedstlileqlaqhttesdnisrkyeisfgkiyvtkpmvnesdgvthalypqearlr
nltyssglfvdvkkrtyeaidvpgrelkyeliaeeseddsesgkvfigrlpimlrskncy
lseatesdlyklkecpfdmggyfiingsekvliaqersagnivqvfkkaapspishvaei
rsalekgsrfistlqvklygregssartikatlpyikqdipiviifralgiipdgeileh
icydvndwqmlemlkpcvedgfviqdretaldfigrrgtalgikkekriqyakdilqkef
lphitqlegfesrkafflgyminrlllcaldrkdqddrdhfgkkrldlagpllaqlfktl
fkkltkdifrymqrtveeahdfnmklainaktitsglkyalatgnwgeqkkamssragvs
qvlnrytysstlshlrrtntpigrdgklakprqlhnthwglvcpaetpegqacglvknls
lmscisvgtdpmpiitflsewgmepledyvphqspdatrvfvngvwhgvhrnparlmetl
rtlrrkgdinpevsmirdirekelkiftdagrvyrplfiveddeslghkelkvrkghiak
lmateyqdieggfedveeytwssllneglveyidaeeeesiliamqpedlepaeaneend
ldvdpakrirvshhattfthceihpsmilgvaasiipfpdhnqsprntyqsamgkqamgv
fltnynvrmdtmanilyypqkplgttrameylkfrelpagqnaivaiacysgynqedsmi
mnqssidrglfrslffrsymdqekkygmsitetfekpqrtntlrmkhgtydkldddglia
pgvrvsgedviigkttpispdeeelgqrtayhskrdastplrstengivdqvlvttnqdg
lkfvkvrvrttkipqigdkfasrhgqkgtigityrredmpftaegivpdliinphaipsr
mtvahliecllskvaalsgnegdaspftditvegiskllrehgyqsrgfevmynghtgkk
lmaqiffgptyyqrlrhmvddkiharargpmqvltrqpvegrsrdgglrfgemerdcmia
hgaasflkerlmeasdafrvhicgicglmtviaklnhnqfeckgcdnkidiyqihipyaa
kllfqelmamnitprlytdrsrdf

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kB (B:)
desapitaedswavisaffrekglvsqqldsfnqfvdytlqdiicedstliisfgkiyvt
kpmvnesdgvthalypqearlrnltyssglfvdvkkkvfigrlpimlrskncylseates
dlyklkecpfdmggyfiingsekvliaqersagnivqvfkkaapspishvaeirsalekg
srfistlqvklygregssartikatlpyikqdipiviifralgiipdgeilehicydvnd
wqmlemlkpcvedgfviqdretaldfigkekriqyakdilqkeflphitqlegfesrkaf
flgyminrlllcaldrkdqddrdhfgkkrldlagpllaqlfktlfkkltkdifrymqrtv
eeahdfnmklainaktitsglkyalatgnwgeqkkamssragvsqvlnrytysstlshlr
rtntpiakprqlhnthwglvcpaetpegqacglvknlslmscisvgtdpmpiitflsewg
mepledyvphqspdatrvfvngvwhgvhrnparlmetlrtlrrkgdinpevsmirdirek
elkiftdagrvyrplfiveddeslghkelkvrkghiaklmateyqdeytwssllneglve
yidaeeeesiliamqpedlepaeadvdpakrirvshhattfthceihpsmilgvaasiip
fpdhnqsprntyqsamgkqamgvfltnynvrmdtmanilyypqkplgttrameylkfrel
pagqnaivaiacysgynqedsmimnqssidrglfrslffrsymdqekkygmsitetfekp
qrtntlrmkhgtydkldddgliapgvrvsgedviigkttpisskrdastplrstengivd
qvlvttnqdglkfvkvrvrttkipqigdkfasrhgqkgtigityrredmpftaegivpdl
iinphaipsrmtvahliecllskvaalsgnegdaspftditvegiskllrehgyqsrgfe
vmynghtgkklmaqiffgptyyqrlrhmvddkiharargpmqvltrqpvegrsrdgglrf
gemerdcmiahgaasflkerlmeasdafrvhicgicglmtviaklnhnqfeckgcdnkid
iyqihipyaakllfqelmamnitprlytdrsrdf

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >2b8kC (C:)
mseegpqvkireaskdnvdfilsnvdlamanslrrvmiaeiptlaidsvevetnttvlad
efiahrlgliplqsmdieqleysrdcfcedhcdkcsvvltlqafgesesttnvyskdlvi
vsnlmgrnighpiiqdkegngvlicklrkgqelkltcvakkgiakehakwgpaaaiefey
dpwnklkhtdywyeqdsakewpqsknceyedppnegdpfdykaqadtfymnvesvgsipv
dqvvvrgidtlqkkvasillaltqmdqdkvnfasgdnntasnmlgsnedvmmtgaeqdpy
snasqmgntgsggydnaw

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kC (C:)
eegpqvkireaskdnvdfilsnvdlamanslrrvmiaeiptlaidsvevetnttvladef
iahrlgliplqsmdieqleysrdcfcedhcdkcsvvltlqafgesesttnvyskdlvivs
nlmgrnighpiiqdkegngvlicklrkgqelkltcvakkgiakehakwgpaaaiefeydp
wnklkhtdywyeqdsakewpqsknceyedppnegdpfdykaqadtfymnvesvgsipvdq
vvvrgidtlqkkvasillaltqmdqd

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >2b8kD (D:)
mnvststfqtrrrrlkkveeeenaatlqlgqefqlkqinhqgeeeelialnlsearlvik
ealverrrafkrsqkkhkkkhlkhenandettavededddldeddvnaddddfmhsetre
kelesidvlleqttggnnkdlkntmqyltnfsrfrdqetvgaviqllkstglhpfevaql
gslacdtadeaktlipslnnkisddelerilkelsnletly

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kD (D:)
ststfqtrrrrlkkveeeenaatlqlgqefqlkqinhqgeeeelialnlsearlvikeal
verrrafkrsqkkfmhsetrekelesidvlleqttggnnkdlkntmqyltnfsrfrdqet
vgaviqllkstglhpfevaqlgslacdtadeaktlipslnnkisddelerilkelsnlet
ly

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >2b8kE (E:)
mdqenernisrlwrafrtvkemvkdrgyfitqeevelpledfkakycdsmgrpqrkmmsf
qanpteesiskfpdmgslwvefcdepsvgvktmktfvihiqeknfqtgifvyqnnitpsa
mklvpsippatietfneaalvvnithhelvpkhirlssdekrellkryrlkesqlpriqr
adpvalylglkrgevvkiirksetsgryasyricm

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kE (E:)
dqenernisrlwrafrtvkemvkdrgyfitqeevelpledfkakycdsmgrpqrkmmsfq
anpteesiskfpdmgslwvefcdepsvgvktmktfvihiqeknfqtgifvyqnnitpsam
klvpsippatietfneaalvvnithhelvpkhirlssdekrellkryrlkesqlpriqra
dpvalylglkrgevvkiirksetsgryasyricm

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >2b8kF (F:)
msdyeeafndgnenfedfdvehfsdeetyeekpqfkdgettdangktivtggngpedfqq
heqirrktlkekaipkdqrattpymtkyerarilgtralqismnapvfvdlegetdplri
amkelaekkiplvirrylpdgsfedwsveelivdl

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kF (F:)
kaipkdqrattpymtkyerarilgtralqismnapvfvdlegetdplriamkelaekkip
lvirrylpdgsfedwsveelivdl

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >2b8kG (G:)
mffikdlslnitlhpsffgprmkqylktklleevegsctgkfgyilcvldydnidiqrgr
ilptdgsaefnvkyravvfkpfkgevvdgtvvscsqhgfevqvgpmkvfvtkhlmpqdlt
fnagsnppsyqssedvitiksrirvkiegcisqvssihaigsikedylgaishekrrwkk
nfiavsaanrfkkisssgaldydipttasenlyfq

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kG (G:)
mffikdlslnitlhpsffgprmkqylktklleevegsctgkfgyilcvldydnidiqrgr
ilptdgsaefnvkyravvfkpfkgevvdgtvvscsqhgfevqvgpmkvfvtkhlmpqdlt
fnagsnppsyqssedvitiksrirvkiegcisqvssihaigsikedylgai

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >2b8kH (H:)
msntlfddifqvsevdpgrynkvcrieaasttqdqckltldinvelfpvaaqdsltvtia
sslnledtpandssatrswrppqagdrsladdydyvmygtaykfeevskdliavyysfgg
llmrlegnyrnlnnlkqenayllirr

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kH (H:)
sntlfddifqvsevdpgrynkvcrieaasttqdqckltldinvelfpvaaqdsltvtias
sltrswrppqagdrsladdydyvmygtaykfeevskdliavyysfggllmrlegnyrnln
nlkqenayllirr

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >2b8kI (I:)
mttfrfcrdcnnmlypredkennrllfecrtcsyveeagsplvyrhelitnigetagvvq
digsdptlprsdrecpkchsrenvffqsqqrrkdtsmvlffvclscshiftsdqknkrtq
fs

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kI (I:)
ttfrfcrdcnnmlypredkennrllfecrtcsyveeagsplvyrhelitnigetagvvqd
igsdptlprsdrecpkchsrenvffqsqqrrkdtsmvlffvclscshiftsdqknkrtq

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >2b8kJ (J:)
mivpvrcfscgkvvgdkwesylnllqedeldegtalsrlglkryccrrmilthvdliekf
lrynplekrd

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kJ (J:)
mivpvrcfscgkvvgdkwesylnllqedeldegtalsrlglkryccrrmilthvdliekf
lrynp

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >2b8kK (K:)
mnapdrfelfllgegesklkidpdtkapnavvitfekedhtlgnliraellndrkvlfaa
ykvehpffarfklriqttegydpkdalknacnsiinklgalktnfetewnlqtlaaddaf

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kK (K:)
mnapdrfelfllgegesklkidpdtkapnavvitfekedhtlgnliraellndrkvlfaa
ykvehpffarfklriqttegydpkdalknacnsiinklgalktnfetewnlqtla

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >2b8kL (L:)
msregfqiptnldaaaagtsqartatlkyicaecssklslsrtdavrckdcghrillkar
tkrlvqfear

    Sequence, based on observed residues (ATOM records): (download) 
    >2b8kL (L:)
atlkyicaecssklslsrtdavrckdcghrillkartkrlvqfear