SCOPe 2.04: Structural Classification of Proteins

PDB entry 1y1y

View 1y1y on RCSB PDB site
Description: RNA Polymerase II-TFIIS-DNA/RNA complex
Class: transferase/transcription/DNA-RNA hybrid
Keywords: RNA Polymerase II, TFIIS, nucleic acids, transcription, readthrough, TRANSFERASE/TRANSCRIPTION/DNA-RNA HYBRID COMPLEX
Deposited on 2004-11-19, released 2004-12-28
The last revision prior to the SCOPe 2.04 freeze date was dated 2009-02-24, with a file datestamp of 2009-02-03.
Experiment type: XRAY
Resolution: 4 Å
R-factor: 0.281
AEROSPACI score: 0.02 (click here for full SPACI score report)

Chains and heterogens:

Chain 'A':
Compound: DNA-directed RNA polymerase II largest subunit
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P04050
Domains in SCOPe 2.04: d1y1ya_
Chain 'B':
Compound: DNA-directed RNA polymerase II 140 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P08518 (Start-1223)
Domains in SCOPe 2.04: d1y1yb_
Chain 'C':
Compound: DNA-directed RNA polymerase II 45 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P16370
Domains in SCOPe 2.04: d1y1yc_
Chain 'D':
Compound: DNA-directed RNA polymerase II 32 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P20433 (Start-220)
Domains in SCOPe 2.04: d1y1yd_
Chain 'E':
Compound: DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P20434 (Start-214)
Domains in SCOPe 2.04: d1y1ye_
Chain 'F':
Compound: DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P20435 (Start-154)
Domains in SCOPe 2.04: d1y1yf_
Chain 'G':
Compound: DNA-directed RNA polymerase II 19 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P34087 (0-170)
Domains in SCOPe 2.04: d1y1yg_
Chain 'H':
Compound: DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P20436 (Start-145)
Domains in SCOPe 2.04: d1y1yh_
Chain 'I':
Compound: DNA-directed RNA polymerase II subunit 9
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P27999
Domains in SCOPe 2.04: d1y1yi_
Chain 'J':
Compound: DNA-directed RNA polymerases I/II/III subunit 10
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P22139 (0-End)
Domains in SCOPe 2.04: d1y1yj_
Chain 'K':
Compound: DNA-directed RNA polymerase II 13.6 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P38902 (0-End)
Domains in SCOPe 2.04: d1y1yk_
Chain 'L':
Compound: DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide
Species: Saccharomyces cerevisiae [TaxId:4932]
Database cross-references and differences (RAF-indexed):
- Uniprot P40422 (Start-69)
Domains in SCOPe 2.04: d1y1yl_
Chain 'P':
Compound: 5'-r(p*ap*gp*gp*c)-3'
Species: synthetic, synthetic
Chain 'S':
Compound: transcription elongation factor s-II
Species: Saccharomyces cerevisiae [TaxId:4932]
Gene: DST1
Database cross-references and differences (RAF-indexed):
- Uniprot P07273 (Start-178)
Domains in SCOPe 2.04: d1y1ys_
Chain 'T':
Compound: 5'-d(p*tp*ap*cp*gp*cp*cp*t)-3'
Species: synthetic, synthetic

PDB Chain Sequences:

Chain 'A':
Sequence, based on SEQRES records: (download)

>1y1yA (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