1smy_D

PDB Headers (abridged)

HEADER    TRANSFERASE                             10-MAR-04   1SMY              
TITLE     STRUCTURAL BASIS FOR TRANSCRIPTION REGULATION BY ALARMONE             
TITLE    2 PPGPP                                                                
COMPND   2 MOLECULE: DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN;                   
EXPDTA    X-RAY DIFFRACTION                                                     
AUTHOR    I.ARTSIMOVITCH,V.PATLAN,S.SEKINE,M.N.VASSYLYEVA,T.HOSAKA,             
AUTHOR   2 K.OCHI,S.YOKOYAMA,D.G.VASSYLYEV

Sequence

> 1smy_D (D:) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KKEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFGPIKDYECACG
KYKRQRFEGKVCERCGVEVTKSIVRRYRMGHIELATPAAHIWFVKDVPSKIGTLLDLSAT
ELEQVLYFSKYIVLDPKGAILNGVPVEKRQLLTDEEYRELRYGKQETYPLPPGVDALVKD
GEEVVKGQELAPGVVSRLDGVALYRFPRRVRVEYVKKERAGLRLPLAAWVEKEAYKPGEI
LAELPEPYLFGDKIVAAIDPEEEVIAEAEGVVHLHEPASILVVKARVYPFEDDVEVSTGD
RVAPGDVLADGGKVKSDVYGRVEVDLVRNVVRVVESYDIDARMGAEAIQQLLKELDLEAL
EKELLEEMKHPSRARRAKARKRLEVVRAFLDSGNRPEWMILEAVPVLPPDLRPMVQVDGG
RFATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNEKRMLQEAVDALLDNGRRGAPVTN
PGSDRPLRSLTDILSGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELF
KPFLLKKMEEKGIAPNVKAARRMLERQRDIKDEVWDALEEVIHGKVVLLNRAPTLHRLGI
QAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPA
SGEPLAKPSRDIILGLYYITQVRKEKKGAGLEFATPEEALAAHERGEVALNAPIKVAGRE
TSVGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLETSPGRILFARIVAEAVEDE
KVAWELIQLDVPQEKNSLKDLVYQAFLRLGMEKTARLLDALKYYGFTFSTTSGITIGIDD
AVIPEEKKQYLEEADRKLLQIEQAYEMGFLTDRERYDQILQLWTETTEKVTQAVFKNFEE
NYPFNPLYVMAQSGARGNPQQIRQLCGLRGLMQKPSGETFEVPVRSSFREGLTVLEYFIS
SHGARKGGADTALRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQPDEVTRSLR
LRKRADIEAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLLIKAAEAGEIQEVPVRSPLT
CQTRYGVCQKCYGYDLSMARPVSIGEAVGIVAAQSIGEPGTQLTMRTFHTGGVAGAADIT
QGLPRVIELFEARRPKAKAVISEIDGVVRIEETEEKLSVFVESEGFSKEYKLPKEARLLV
KDGDYVEAGQPLTRGAIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVR
QMMKYVEVTDPGDSRLLEGQVLEKWDVEALNERLIAEGKTPVAWKPLLMGVTKSALSTKS
WLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQKTLK
AIEEARKEAVEA

Coordinates

Link to SCOP

Link to Pfam

Link to Protein Data Bank

Structural Domains (with extensions added by structural compactness)

1smy_D_str_1 (D: 2-51, 86-98, 514-620)

Sequence

> 1smy_D_str_1 (D: 2-51, 86-98, 514-620) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KKEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFGRRYRMGHIEL
ATPLEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNE
KRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNLLG

Coordinates

1smy_D_str_2 (D: 52-85)

Sequence

> 1smy_D_str_2 (D: 52-85) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
PIKDYECACGKYKRQRFEGKVCERCGVEVTKSIV

Coordinates

1smy_D_str_3 (D: 99-131, 456-513)

Sequence

> 1smy_D_str_3 (D: 99-131, 456-513) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
AAHIWFVKDVPSKIGTLLDLSATELEQVLYFSKMGAEAIQQLLKELDLEALEKELLEEMK
HPSRARRAKARKRLEVVRAFLDSGNRPEWMI

Coordinates

1smy_D_str_4 (D: 132-162, 449-455)

Sequence

> 1smy_D_str_4 (D: 132-162, 449-455) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YIVLDPKGAILNGVPVEKRQLLTDEEYRELRSYDIDAR

Coordinates

1smy_D_str_5 (D: 163-216, 387-395)

Sequence

> 1smy_D_str_5 (D: 163-216, 387-395) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YGKQETYPLPPGVDALVKDGEEVVKGQELAPGVVSRLDGVALYRFPRRVRVEYVLHEPAS
ILV

Coordinates

1smy_D_str_6 (D: 217-386)

Sequence

> 1smy_D_str_6 (D: 217-386) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KKERAGLRLPLAAWVEKEAYKPGEILAELPEPYLFGDKIVAAIDPEEEVIAEAEGVVH

Coordinates

1smy_D_str_7 (D: 396-448)

Sequence

> 1smy_D_str_7 (D: 396-448) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
VKARVYPFEDDVEVSTGDRVAPGDVLADGGKVKSDVYGRVEVDLVRNVVRVVE

Coordinates

1smy_D_str_8 (D: 621-649, 695-773)

Sequence

> 1smy_D_str_8 (D: 621-649, 695-773) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KRVDYSGRSVIVVGPQLKLHQCGLPKRMAIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQS
IQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPA

Coordinates

1smy_D_str_9 (D: 650-694)

Sequence

> 1smy_D_str_9 (D: 650-694) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
LELFKPFLLKKMEEKGIAPNVKAARRMLERQRDIKDEVWDALEEV

Coordinates

1smy_D_str_10 (D: 774-793, 878-946)

Sequence

> 1smy_D_str_10 (D: 774-793, 878-946) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
SGEPLAKPSRDIILGLYYITGRILFARIVAEAVEDEKVAWELIQLDVPQEKNSLKDLVYQ
AFLRLGMEKTARLLDALKYYGFTFSTTSG

Coordinates

1smy_D_str_11 (D: 794-796, 837-877)

Sequence

> 1smy_D_str_11 (D: 794-796, 837-877) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
QVRGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLETSP

Coordinates

1smy_D_str_12 (D: 797-836)

Sequence

> 1smy_D_str_12 (D: 797-836) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KEKKGAGLEFATPEEALAAHERGEVALNAPIKVAGRETSV

Coordinates

1smy_D_str_13 (D: 947-1078)

Sequence

> 1smy_D_str_13 (D: 947-1078) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
ITIGIDDAVIPEEKKQYLEEADRKLLQIEQAYEMGFLTDRERYDQILQLWTETTEKVTQA
VFKNFEENYPFNPLYVMAQSGARGNPQQIRQLCGLRGLMQKPSGETFEVPVRSSFREGLT
VLEYFISSHGAR

Coordinates

1smy_D_str_14 (D: 1079-1102, 1222-1270, 1330-1377, 1421-1424)

Sequence

> 1smy_D_str_14 (D: 1079-1102, 1222-1270, 1330-1377, 1421-1424) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KGGADTALRTADSGYLTRKLVDVTGIVAAQSIGEPGTQLTMRTFHTGGVAGAADITQGLP
RVIELFEARRPKAIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMM
KLMGV

Coordinates

1smy_D_str_15 (D: 1103-1116, 1189-1221)

Sequence

> 1smy_D_str_15 (D: 1103-1116, 1189-1221) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
HEIVVREADCGTTNRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAV

Coordinates

1smy_D_str_16 (D: 1117-1188)

Sequence

> 1smy_D_str_16 (D: 1117-1188) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YISVPLFQPDEVTRSLRLRKRADIEAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLLIK
AAEAGEIQEVPV

Coordinates

1smy_D_str_17 (D: 1271-1329)

Sequence

> 1smy_D_str_17 (D: 1271-1329) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KAVISEIDGVVRIEETEEKLSVFVESEGFSKEYKLPKEARLLVKDGDYVEAGQPLTRGA

Coordinates

1smy_D_str_18 (D: 1378-1420)

Sequence

> 1smy_D_str_18 (D: 1378-1420) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YVEVTDPGDSRLLEGQVLEKWDVEALNERLIAEGKTPVAWKPL

Coordinates

1smy_D_str_19 (D: 1425-1505)

Sequence

> 1smy_D_str_19 (D: 1425-1505) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
TKSALSTKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFT
QVVDQKTLKAIEEARKEAVEA

Coordinates

Structural Domains (with extensions added by sequence continuity)

1smy_D_seq_1 (D: 2-51, 86-98, 514-620)

Sequence

> 1smy_D_seq_1 (D: 2-51, 86-98, 514-620) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KKEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFGRRYRMGHIEL
ATPLEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNE
KRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNLLG

Coordinates

1smy_D_seq_2 (D: 52-85)

Sequence

> 1smy_D_seq_2 (D: 52-85) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
PIKDYECACGKYKRQRFEGKVCERCGVEVTKSIV

Coordinates

1smy_D_seq_3 (D: 99-131, 456-513)

Sequence

> 1smy_D_seq_3 (D: 99-131, 456-513) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
AAHIWFVKDVPSKIGTLLDLSATELEQVLYFSKMGAEAIQQLLKELDLEALEKELLEEMK
HPSRARRAKARKRLEVVRAFLDSGNRPEWMI

Coordinates

1smy_D_seq_4 (D: 132-162, 449-455)

Sequence

> 1smy_D_seq_4 (D: 132-162, 449-455) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YIVLDPKGAILNGVPVEKRQLLTDEEYRELRSYDIDAR

Coordinates

1smy_D_seq_5 (D: 163-216, 387-395)

Sequence

> 1smy_D_seq_5 (D: 163-216, 387-395) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YGKQETYPLPPGVDALVKDGEEVVKGQELAPGVVSRLDGVALYRFPRRVRVEYVLHEPAS
ILV

Coordinates

1smy_D_seq_6 (D: 217-386)

Sequence

> 1smy_D_seq_6 (D: 217-386) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KKERAGLRLPLAAWVEKEAYKPGEILAELPEPYLFGDKIVAAIDPEEEVIAEAEGVVH

Coordinates

1smy_D_seq_7 (D: 396-448)

Sequence

> 1smy_D_seq_7 (D: 396-448) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
VKARVYPFEDDVEVSTGDRVAPGDVLADGGKVKSDVYGRVEVDLVRNVVRVVE

Coordinates

1smy_D_seq_8 (D: 621-649, 695-773)

Sequence

> 1smy_D_seq_8 (D: 621-649, 695-773) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KRVDYSGRSVIVVGPQLKLHQCGLPKRMAIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQS
IQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPA

Coordinates

1smy_D_seq_9 (D: 650-694)

Sequence

> 1smy_D_seq_9 (D: 650-694) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
LELFKPFLLKKMEEKGIAPNVKAARRMLERQRDIKDEVWDALEEV

Coordinates

1smy_D_seq_10 (D: 774-793, 878-946)

Sequence

> 1smy_D_seq_10 (D: 774-793, 878-946) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
SGEPLAKPSRDIILGLYYITGRILFARIVAEAVEDEKVAWELIQLDVPQEKNSLKDLVYQ
AFLRLGMEKTARLLDALKYYGFTFSTTSG

Coordinates

1smy_D_seq_11 (D: 794-796, 837-877)

Sequence

> 1smy_D_seq_11 (D: 794-796, 837-877) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
QVRGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLETSP

Coordinates

1smy_D_seq_12 (D: 797-836)

Sequence

> 1smy_D_seq_12 (D: 797-836) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KEKKGAGLEFATPEEALAAHERGEVALNAPIKVAGRETSV

Coordinates

1smy_D_seq_13 (D: 947-1078)

Sequence

> 1smy_D_seq_13 (D: 947-1078) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
ITIGIDDAVIPEEKKQYLEEADRKLLQIEQAYEMGFLTDRERYDQILQLWTETTEKVTQA
VFKNFEENYPFNPLYVMAQSGARGNPQQIRQLCGLRGLMQKPSGETFEVPVRSSFREGLT
VLEYFISSHGAR

Coordinates

1smy_D_seq_14 (D: 1079-1102, 1222-1270, 1330-1377, 1421-1424)

Sequence

> 1smy_D_seq_14 (D: 1079-1102, 1222-1270, 1330-1377, 1421-1424) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KGGADTALRTADSGYLTRKLVDVTGIVAAQSIGEPGTQLTMRTFHTGGVAGAADITQGLP
RVIELFEARRPKAIDPHQLLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMM
KLMGV

Coordinates

1smy_D_seq_15 (D: 1103-1116, 1189-1221)

Sequence

> 1smy_D_seq_15 (D: 1103-1116, 1189-1221) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
HEIVVREADCGTTNRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAV

Coordinates

1smy_D_seq_16 (D: 1117-1188)

Sequence

> 1smy_D_seq_16 (D: 1117-1188) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YISVPLFQPDEVTRSLRLRKRADIEAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLLIK
AAEAGEIQEVPV

Coordinates

1smy_D_seq_17 (D: 1271-1329)

Sequence

> 1smy_D_seq_17 (D: 1271-1329) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KAVISEIDGVVRIEETEEKLSVFVESEGFSKEYKLPKEARLLVKDGDYVEAGQPLTRGA

Coordinates

1smy_D_seq_18 (D: 1378-1420)

Sequence

> 1smy_D_seq_18 (D: 1378-1420) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
YVEVTDPGDSRLLEGQVLEKWDVEALNERLIAEGKTPVAWKPL

Coordinates

1smy_D_seq_19 (D: 1425-1505)

Sequence

> 1smy_D_seq_19 (D: 1425-1505) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
TKSALSTKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFT
QVVDQKTLKAIEEARKEAVEA

Coordinates

Extensions (N/C terminal extensions and linkers)

1smy_D_ext_1 (D: 2-13)

Sequence

> 1smy_D_ext_1 (D: 2-13) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
KKEVRKVRIALA

Coordinates

1smy_D_ext_2 (D: 1483-1505)

Sequence

> 1smy_D_ext_2 (D: 1483-1505) DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN
FTQVVDQKTLKAIEEARKEAVEA

Coordinates