eF-site ID
|
4lk0-ABCDEFGHIJKLMN |
PDB Code
|
4lk0 |
Chain
|
A, B, C, D, E, F, G, H, I, J, K, L, M, N |
|
|
|
Title
|
Crystal Structure Analysis of the E.coli holoenzyme/T7 Gp2 complex |
Classification
|
TRANSFERASE |
Compound
|
DNA-directed RNA polymerase subunit alpha |
Source
|
Escherichia coli (strain ATCC 33849 / DSM 4235 / NCIB 12045 / K12 / DH1) (VRPI_BPT7) |
|
Sequence
|
A: |
FLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRIL
LSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKG
LAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQ
HVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERP
IGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMET
NGTIDPEEAIRRAATILAEQLEAF
|
B: |
TEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRR
ILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNL
KGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVK
PQHVICHLTDENASISMRIKVQRGRGYVPASTRIHLVDAC
YSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEA
IRRAATILAEQLEAFVDLEV
|
C: |
YSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQD
PEGQYGLEAAFRSVFPIQSYSGNSELQYVSYRLGEPVFDV
QECQIRGVTYSAPLRVKLRLVIYEREAPEGTVKDIKEQEV
YMGEIPLMTDNGTFVINGTERVIVSQLHRSPGVFFDSDKG
KTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRR
KLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELV
PERLRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDV
KLIEVPVEYIAGKVVAKDYIDESTGELICAANMELSLDLL
AKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSA
LVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGR
MKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEV
DDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLG
DLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLS
EITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIE
TPEGPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDE
IHYLSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGES
SLFSRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMG
ANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGG
VVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQN
TCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRV
AFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRD
TKLGPEEITADIPNVGEAALSKLDESGIVYIGAEVTGGDI
LVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPN
GVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSE
ELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGL
TDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDL
APGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPI
EDMPYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMAAK
GIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLS
TFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLG
DLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDK
MHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYG
AAYTLQEMLTVKSDDVNGRTKMYKNIVDGNHQMEPGMPES
FNVLLKEIRSLGINIELEDE
|
D: |
LKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYR
TFKPERDGLFCARIFGPVKDYECLCGKYKRLKHRGVICEK
CGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLL
LDMPLRDIERVLYFESYVVIEGGMTNLERQQILTEEQYLD
ALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLREELNE
TNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPP
DLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAA
PDIIVRNEKRMLQEAVDALLDNGRRGRAITGSNKRPLKSL
ADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQCG
LPKKMALELFKPFIYGKLELRGLATTIKAAKKMVEREEAV
VWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAI
QLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEARALMMST
NNILSPANGEPIIVPSQDVVLGLYYMTRDCVNAKGEGMVL
TGPKEAERLYRSGLASLHARVKVRITEYEKDANGELVAKT
SLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISKMLNT
CYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIP
EKKHEIISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWA
AANDRVSKAMMDNLQTETVINRDGQEEKQVSFNSIYMMAD
SGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGL
NVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDL
VVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVLGRVTAED
VLKPGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVS
CDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPG
TQLTSSIQVKNKGSIKLSNVKSVVNSSGKLVITSRNTELK
LIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPH
TMPVITEVSGFVRFTDMIDGQTITRQTDELTGLSSLVVLD
SAERTAGGKDLRPALKIVDAQGNDVLIPGTDMPAQYFLPG
KAIVQLEDGVQISSGDTLARIPQTGGLPRVADLFEARRPK
EPAILAEISGIVSFGKETKGKRRLVITPVDGSDPYEEMIP
KWRQLNVFEGERVERGDVISDGPEAPHDILRLRGVHAVTR
YIVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGS
SDFLEGEQVEYSRVKIANRELEANGKVGATYSRDLLGITK
ASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENV
IVGRLIPAGTGYAYHQDRMRRRAAG
|
E: |
ARVTVQDAVEKIGNRFDLVLVAARRARQMQVGGKDPLVPE
ENDKTTVIALREIEEGLINNQILDVRERQEQQEQEAAELQ
AVTAIAEGR
|
F: |
GRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQ
CSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDDPEL
AREKFAELRAQYVVTRDTIKATAQEEILKLSEVFKQFRLV
PKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNF
ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ
KLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEA
NLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK
LNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAK
EPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA
ATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDV
TRERIRQIEAKALRKLRHPSRSEVLRSFLD
|
G: |
FLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRIL
LSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKG
LAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQ
HVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERP
IGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMET
NGTIDPEEAIRRAATILAEQLEAFVDLE
|
H: |
TEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRR
ILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNL
KGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVK
PQHVICHLTDENASISMRIKVQRGRGYVPASTRLLVDACY
SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAI
RRAATILAEQLEAFVDL
|
I: |
YSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQD
PEGQYGLEAAFRSVFPIQSYSGNSELQYVSYRLGEPVFDV
QECQIRGVTYSAPLRVKLRLVIYEREAPEGTVKDIKEQEV
YMGEIPLMTDNGTFVINGTERVIVSQLHRSPGVFFDSDKG
KTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRR
KLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELV
PERLRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDV
KLIEVPVEYIAGKVVAKDYIDESTGELICAANMELSLDLL
AKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSA
LVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGR
MKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEV
DDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLG
DLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLS
EITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIE
TPEGPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDE
IHYLSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGES
SLFSRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMG
ANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGG
VVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQN
TCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRV
AFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRD
TKLGPEEITADIPNVGEAALSKLDESGIVYIGAEVTGGDI
LVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPN
GVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSE
ELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGL
TDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDL
APGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPI
EDMPYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMAAK
GIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLS
TFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLG
DLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDK
MHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYG
AAYTLQEMLTVKSDDVNGRTKMYKNIVDGNHQMEPGMPES
FNVLLKEIRSLGINIELEDE
|
J: |
EFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDG
LFCARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQT
KVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDMPLRDI
ERVLYFESYVVIEGGMTNLERQQILTEEQYLDALEEFGDE
FDAKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRK
KLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPL
DGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNE
KRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGLG
KRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGK
LELRGLATTIKAAKKMVEREEAVVWDILDEVIREHPVLLN
RAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGD
QMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQ
DVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSGLASL
HARVKVRITEYEKDANGELVAKTSLKDTTVGRAILWMIVP
KGLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQI
MYTGFAYAARSGASVGIDDMVIPEKKHEIISEAEAEVAEI
QEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTE
TVINRDGQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMR
GLMAKPDGSIIETPITANFREGLNVLQYFISTHGARKGLA
DTALKTANSGYLTRRLVDVAQDLVVTEDDCGTHEGIMMTP
VIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLL
HEQWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRDLA
RGHIINKGEAIGVIAAQSIGEPGTQLTSSIQVKNKGSIKL
SNVKSVVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYG
AVLAKGDGEQVAGGETVANWDPHTMPVITEVSGFVRFTDM
IDGQTITRQTDELTGLSSLVVLDSAERTAGGKDLRPALKI
VDAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQISSGDT
LARIPQGLPRVADLFEARRPKEPAILAEISGIVSFGKETK
GKRRLVITPVDGSDPYEEMIPKWRQLNVFEGERVERGDVI
SDGPEAPHDILRLRGVHAVTRYIVNEVQDVYRLQGVKIND
KHIEVIVRQMLRKATIVNAGSSDFLEGEQVEYSRVKIANR
ELEANGKVGATYSRDLLGITKASLATESFISAASFQETTR
VLTEAAVAGKRDELRGLKENVIVGRLIPAGTGYAYHQDRM
RRRAA
|
K: |
ARVTVQDAVEKIGNRFDLVLVAARRARQMQVGGKDPLVPE
ENDKTTVIALREIEEGLINNQILDVRERQEQQEQEAAEL
|
L: |
TTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCS
VAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDDPELAR
EKFAELRAQYVVTRDTIKATAQEEILKLSEVFKQFRLVPK
QFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFIT
LFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKL
QQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANL
RLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRG
YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLN
RISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEP
ISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAAT
HDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTR
ERIRQIEAKALRKLRHPSRSEVLRSFLDD
|
M: |
NKKFWATVESSEHSFEVPIYAETLDEALELAEWQYVPAGF
EVTRVRPCVAP
|
N: |
NKKFWATVESSEHSFEVPIYAETLDEALELAEWQYVPAGF
EVTRVRPCVAP
|
|
Description
|
|
|
|
1)
|
chain |
D |
residue |
460 |
type |
|
sequence |
D
|
description |
BINDING SITE FOR RESIDUE MG D 1501
|
source |
: AC1
|
|
2)
|
chain |
D |
residue |
462 |
type |
|
sequence |
D
|
description |
BINDING SITE FOR RESIDUE MG D 1501
|
source |
: AC1
|
|
3)
|
chain |
D |
residue |
70 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1502
|
source |
: AC2
|
|
4)
|
chain |
D |
residue |
72 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1502
|
source |
: AC2
|
|
5)
|
chain |
D |
residue |
85 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1502
|
source |
: AC2
|
|
6)
|
chain |
D |
residue |
88 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1502
|
source |
: AC2
|
|
7)
|
chain |
D |
residue |
814 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1503
|
source |
: AC3
|
|
8)
|
chain |
D |
residue |
888 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1503
|
source |
: AC3
|
|
9)
|
chain |
D |
residue |
895 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1503
|
source |
: AC3
|
|
10)
|
chain |
D |
residue |
898 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN D 1503
|
source |
: AC3
|
|
11)
|
chain |
J |
residue |
460 |
type |
|
sequence |
D
|
description |
BINDING SITE FOR RESIDUE MG J 1501
|
source |
: AC4
|
|
12)
|
chain |
J |
residue |
462 |
type |
|
sequence |
D
|
description |
BINDING SITE FOR RESIDUE MG J 1501
|
source |
: AC4
|
|
13)
|
chain |
J |
residue |
70 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1502
|
source |
: AC5
|
|
14)
|
chain |
J |
residue |
72 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1502
|
source |
: AC5
|
|
15)
|
chain |
J |
residue |
85 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1502
|
source |
: AC5
|
|
16)
|
chain |
J |
residue |
88 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1502
|
source |
: AC5
|
|
17)
|
chain |
J |
residue |
814 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1503
|
source |
: AC6
|
|
18)
|
chain |
J |
residue |
888 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1503
|
source |
: AC6
|
|
19)
|
chain |
J |
residue |
895 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1503
|
source |
: AC6
|
|
20)
|
chain |
J |
residue |
898 |
type |
|
sequence |
C
|
description |
BINDING SITE FOR RESIDUE ZN J 1503
|
source |
: AC6
|
|
21)
|
chain |
F |
residue |
403-416 |
type |
prosite |
sequence |
DLIQEGNIGLMKAV
|
description |
SIGMA70_1 Sigma-70 factors family signature 1. DLIQeGnIGLMkAV
|
source |
prosite : PS00715
|
|
22)
|
chain |
F |
residue |
572-598 |
type |
prosite |
sequence |
TLEEVGKQFDVTRERIRQIEAKALRKL
|
description |
SIGMA70_2 Sigma-70 factors family signature 2. TleEVGkqfdVTrerIrQIEakaLrkL
|
source |
prosite : PS00716
|
|
23)
|
chain |
C |
residue |
1063-1075 |
type |
prosite |
sequence |
GDKMAGRHGNKGV
|
description |
RNA_POL_BETA RNA polymerases beta chain signature. GdKMAGrHGNKGV
|
source |
prosite : PS01166
|
|
24)
|
chain |
F |
residue |
573-592 |
type |
DNA_BIND |
sequence |
LEEVGKQFDVTRERIRQIEA
|
description |
H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963
|
source |
Swiss-Prot : SWS_FT_FI1
|
|
25)
|
chain |
L |
residue |
573-592 |
type |
DNA_BIND |
sequence |
LEEVGKQFDVTRERIRQIEA
|
description |
H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963
|
source |
Swiss-Prot : SWS_FT_FI1
|
|
26)
|
chain |
F |
residue |
562 |
type |
SITE |
sequence |
R
|
description |
Interaction with anti-sigma factors
|
source |
Swiss-Prot : SWS_FT_FI2
|
|
27)
|
chain |
L |
residue |
562 |
type |
SITE |
sequence |
R
|
description |
Interaction with anti-sigma factors
|
source |
Swiss-Prot : SWS_FT_FI2
|
|