PDB entry 3fki

View 3fki on RCSB PDB site
Description: 12-Subunit RNA Polymerase II Refined with Zn-SAD data
Deposited on 2008-12-16, released 2009-03-10
The last revision was dated 2009-05-26, with a file datestamp of 2009-05-22.
Experiment type: XRAY
Resolution: 3.88 Å
R-factor: 0.283
AEROSPACI score: 0.06 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA-directed RNA polymerase II subunit RPB1
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: DNA-directed RNA polymerase II subunit RPB2
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: DNA-directed RNA polymerase II subunit RPB3
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: DNA-directed RNA polymerase II subunit RPB4
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC2
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: DNA-directed RNA polymerase II subunit RPB7
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC3
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: DNA-directed RNA polymerase II subunit RPB9
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC5
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'K':
    Compound: DNA-directed RNA polymerase II subunit RPB11
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC4
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: ZN, MG

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:
    >3fkiA (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):
    >3fkiA (A:)
vgqqyssaplrtvkevqfglfspeevraisvakirfpetmdetqtrakigglndprlgsi
drnlkcqtcqegmnecpghfghidlakpvfhvgfiakikkvcecvcmhcgkllldehnel
mrqalaikdskkrfaaiwtlcktkmvcetdvpseddptqlvsrggcgntqptirkdglkl
vgswkkdratgdadepelrvlsteeilnifkhisvkdftslgfnevfsrpewmiltclpv
ppppvrpsisfnesqrgeddltfkladilkanisletlehngaphhaieeaesllqfhva
tymdndiagqpqalqksgrpvksirarlkgkegrirgnlmgkrvdfsartvisgdpnlel
dqvgvpksiaktltypevvtpynidrltqlvrngpnehpgakyvirdsgdridlryskra
gdiqlqygwkverhimdndpvlfnrqpslhkmsmmahrvkvipystfrlnlsvtspynad
fdgdemnlhvpqseetraelsqlcavplqivspqsnkpcmgivqdtlcgirkltlrdtfi
eldqvlnmlywvpdwdgviptpaiikpkplwsgkqilsvaipngihlqrfdegttllspk
dngmliidgqiifgvvekktvgssngglihvvtrekgpqvcaklfgniqkvvnfwllhng
fstgigdtiadgptmreitetiaeakkkvldvtkeaqanlltakhgmtlresfednvvrf
lneardkagrlaevnlkdlnnvkqmvmagskgsfiniaqmsacvgqqsvegkriafgfvd
rtlphfskddyspeskgfvensylrgltpqefffhamggreglidtavktaetgyiqrrl
vkaledimvhydnttrnslgnviqfiygedgmdaahiekqsldtiggsdaafekryrvdl
lntdhtldpsllesgseilgdlklqvlldeeykqlvkdrkflrevfvdgeanwplpvnir
riiqnaqqtfhidhtkpsdltikdivlgvkdlqenllvlrgkneiiqnaqrdavtlfccl
lrsrlatrrvlqeyrltkqafdwvlsnieaqflrsvvhpgemvgvlaaqsigepatqmtl
skkvtsgvprlkeilnvaknmktpsltvylepghaadqeqaklirsaiehttlksvtias
eiyydpdprstvipedeeiiqlhfsfdqqspwllrleldraamndkdltmgqvgerikqt
fkndlfviwsedndekliircrvvrpaeedhmlkkientmlenitlrgveniervvmmky
drkvpsptgeyvkepewvletdgvnlsevmtvpgidptriytnsfidimevlgieagraa
lykevynviasdgsyvnyrhmallvdvmttqggltsvtrhgfnrsntgalmrcsfeetve
ilfeagasaelddcrgvsenvilgqmapigtgafdvmideeslvkym

  • Chain 'B':
    Sequence, based on SEQRES records:
    >3fkiB (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):
    >3fkiB (B:)
desapitaedswavisaffrekglvsqqldsfnqfvdytlqdiicedstlilisfgkiyv
tkpmvnesdgvthalypqearlrnltyssglfvdvkkkvfigrlpimlrskncylseate
sdlyklkecpfdmggyfiingsekvliaqersagnivqvfkkaapspishvaeirsalek
gsrfistlqvklygregssartikatlpyikqdipiviifralgiipdgeilehicydvn
dwqmlemlkpcvedgfviqdretaldfigrekriqyakdilqkeflphitqlegfesrka
fflgyminrlllcaldrkdqddrdhfgkkrldlagpllaqlfktlfkkltkdifrymqrt
veeahdfnmklainaktitsglkyalatgnwgeqkkamssragvsqvlnrytysstlshl
rrtntpigrdgklakprqlhnthwglvcpaetpegqacglvknlslmscisvgtdpmpii
tflsewgmepledyvphqspdatrvfvngvwhgvhrnparlmetlrtlrrkgdinpevsm
irdirekelkiftdagrvyrplfiveddeslghkelkvrkghiaklmateyqdieytwss
llneglveyidaeeeesiliamqpedlepaeandldvdpakrirvshhattfthceihps
milgvaasiipfpdhnqsprntyqsamgkqamgvfltnynvrmdtmanilyypqkplgtt
rameylkfrelpagqnaivaiacysgynqedsmimnqssidrglfrslffrsymdqekky
gmsitetfekpqrtntlrmkhgtydkldddgliapgvrvsgedviigkttpisskrdast
plrstengivdqvlvttnqdglkfvkvrvrttkipqigdkfasrhgqkgtigityrredm
pftaegivpdliinphaipsrmtvahliecllskvaalsgnegdaspftditvegiskll
rehgyqsrgfevmynghtgkklmaqiffgptyyqrlrhmvddkiharargpmqvltrqpv
egrsrdgglrfgemerdcmiahgaasflkerlmeasdafrvhicgicglmtviaklnhnq
feckgcdnkidiyqihipyaakllfqelmamnitprlytdrsrdf

  • Chain 'C':
    Sequence, based on SEQRES records:
    >3fkiC (C:)
mseegpqvkireaskdnvdfilsnvdlamanslrrvmiaeiptlaidsvevetnttvlad
efiahrlgliplqsmdieqleysrdcfcedhcdkcsvvltlqafgesesttnvyskdlvi
vsnlmgrnighpiiqdkegngvlicklrkgqelkltcvakkgiakehakwgpaaaiefey
dpwnklkhtdywyeqdsakewpqsknceyedppnegdpfdykaqadtfymnvesvgsipv
dqvvvrgidtlqkkvasillaltqmdqdkvnfasgdnntasnmlgsnedvmmtgaeqdpy
snasqmgntgsggydnaw

    Sequence, based on observed residues (ATOM records):
    >3fkiC (C:)
eegpqvkireaskdnvdfilsnvdlamanslrrvmiaeiptlaidsvevetnttvladef
iahrlgliplqsmdieqleysrdcfcedhcdkcsvvltlqafgesesttnvyskdlvivs
nlmgrnighpiiqdkegngvlicklrkgqelkltcvakkgiakehakwgpaaaiefeydp
wnklkhtdywyeqdsakewpqsknceyedppnegdpfdykaqadtfymnvesvgsipvdq
vvvrgidtlqkkvasillaltqmdqdk

  • Chain 'D':
    Sequence, based on SEQRES records:
    >3fkiD (D:)
mnvststfqtrrrrlkkveeeenaatlqlgqefqlkqinhqgeeeelialnlsearlvik
ealverrrafkrsqkkhkkkhlkhenandettavededddldeddvnaddddfmhsetre
kelesidvlleqttggnnkdlkntmqyltnfsrfrdqetvgaviqllkstglhpfevaql
gslacdtadeaktlipslnnkisddelerilkelsnletly

    Sequence, based on observed residues (ATOM records):
    >3fkiD (D:)
ststfqtrrrrlkkveeeenaatlqlgqefqlkqinhqgeeeelialnlsearlvikeal
verrrafkrsqkketrekelesidvlleqttggnnkdlkntmqyltnfsrfrdqetvgav
iqllkstglhpfevaqlgslacdtadeaktlipslnnkisddelerilkelsnletly

  • Chain 'E':
    Sequence, based on SEQRES records:
    >3fkiE (E:)
mdqenernisrlwrafrtvkemvkdrgyfitqeevelpledfkakycdsmgrpqrkmmsf
qanpteesiskfpdmgslwvefcdepsvgvktmktfvihiqeknfqtgifvyqnnitpsa
mklvpsippatietfneaalvvnithhelvpkhirlssdekrellkryrlkesqlpriqr
adpvalylglkrgevvkiirksetsgryasyricm

    Sequence, based on observed residues (ATOM records):
    >3fkiE (E:)
dqenernisrlwrafrtvkemvkdrgyfitqeevelpledfkakycdsmgrpqrkmmsfq
anpteesiskfpdmgslwvefcdepsvgvktmktfvihiqeknfqtgifvyqnnitpsam
klvpsippatietfneaalvvnithhelvpkhirlssdekrellkryrlkesqlpriqra
dpvalylglkrgevvkiirksetsgryasyricm

  • Chain 'F':
    Sequence, based on SEQRES records:
    >3fkiF (F:)
msdyeeafndgnenfedfdvehfsdeetyeekpqfkdgettdangktivtggngpedfqq
heqirrktlkekaipkdqrattpymtkyerarilgtralqismnapvfvdlegetdplri
amkelaekkiplvirrylpdgsfedwsveelivdl

    Sequence, based on observed residues (ATOM records):
    >3fkiF (F:)
lkekaipkdqrattpymtkyerarilgtralqismnapvfvdlegetdplriamkelaek
kiplvirrylpdgsfedwsveelivdl

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records:
    >3fkiG (G:)
mffikdlslnitlhpsffgprmkqylktklleevegsctgkfgyilcvldydnidiqrgr
ilptdgsaefnvkyravvfkpfkgevvdgtvvscsqhgfevqvgpmkvfvtkhlmpqdlt
fnagsnppsyqssedvitiksrirvkiegcisqvssihaigsikedylgai

  • Chain 'H':
    Sequence, based on SEQRES records:
    >3fkiH (H:)
msntlfddifqvsevdpgrynkvcrieaasttqdqckltldinvelfpvaaqdsltvtia
sslnledtpandssatrswrppqagdrsladdydyvmygtaykfeevskdliavyysfgg
llmrlegnyrnlnnlkqenayllirr

    Sequence, based on observed residues (ATOM records):
    >3fkiH (H:)
msntlfddifqvsevdpgrynkvcrieaasttqdqckltldinvelfpvaaqdsltvtia
sslnatrswrppqagdrsladdydyvmygtaykfeevskdliavyysfggllmrlegnyr
nlnnlkqenayllirr

  • Chain 'I':
    Sequence, based on SEQRES records:
    >3fkiI (I:)
mttfrfcrdcnnmlypredkennrllfecrtcsyveeagsplvyrhelitnigetagvvq
digsdptlprsdrecpkchsrenvffqsqqrrkdtsmvlffvclscshiftsdqknkrtq
fs

    Sequence, based on observed residues (ATOM records):
    >3fkiI (I:)
ttfrfcrdcnnmlypredkennrllfecrtcsyveeagsplvyrhelitnigetagvvqd
igsdptlprsdrecpkchsrenvffqsqqrrkdtsmvlffvclscshiftsdqknkrtq

  • Chain 'J':
    Sequence, based on SEQRES records:
    >3fkiJ (J:)
mivpvrcfscgkvvgdkwesylnllqedeldegtalsrlglkryccrrmilthvdliekf
lrynplekrd

    Sequence, based on observed residues (ATOM records):
    >3fkiJ (J:)
mivpvrcfscgkvvgdkwesylnllqedeldegtalsrlglkryccrrmilthvdliekf
lrynpl

  • Chain 'K':
    Sequence, based on SEQRES records:
    >3fkiK (K:)
mnapdrfelfllgegesklkidpdtkapnavvitfekedhtlgnliraellndrkvlfaa
ykvehpffarfklriqttegydpkdalknacnsiinklgalktnfetewnlqtlaaddaf

    Sequence, based on observed residues (ATOM records):
    >3fkiK (K:)
mnapdrfelfllgegesklkidpdtkapnavvitfekedhtlgnliraellndrkvlfaa
ykvehpffarfklriqttegydpkdalknacnsiinklgalktnfetewnlqtla

  • Chain 'L':
    Sequence, based on SEQRES records:
    >3fkiL (L:)
msregfqiptnldaaaagtsqartatlkyicaecssklslsrtdavrckdcghrillkar
tkrlvqfear

    Sequence, based on observed residues (ATOM records):
    >3fkiL (L:)
tatlkyicaecssklslsrtdavrckdcghrillkartkrlvqfear