P00579

EV
Gene name
rpoD
Protein name
RNA polymerase sigma factor RpoD
Names
Sigma-70
Species
Escherichia coli (strain K12)
KEGG Pathway
eco:b3067
EC number
Protein Class
RNA POLYMERASE SIGMA FACTOR RPO (PTHR30603)

Descriptions

Sigma factors are initiation factors that promote the attachment of RNA polymerase to the specific ribosome binding site on DNA strands and are then released. In the absence of RNAP, the N-terminal acidic loop inhibits the ability of intact sigma 70 to bind to DNA.

Autoinhibitory domains (AIDs)

188-209 (Acidic loop) EV

Target domain

379-448 (Sigma-70 factor region 2)

Relief mechanism

Partner binding

Assay

Structural analysis

2-80 (Sigma-70 factor region 1.1) EV

Target domain

547-600 (Sigma-70 factor region 4)

Relief mechanism

Partner binding

Assay

Deletion assay, Split protein assay

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

104 structures for P00579

Entry ID Method Resolution Chain Position Source
1SIG X-ray 260 A A 114-448 PDB
1TLH NMR - B 533-613 PDB
2P7V X-ray 260 A B 546-613 PDB
3IYD EM 1980 A F 1-613 PDB
3T72 X-ray 433 A o/q 533-609 PDB
4JK1 X-ray 390 A X/Y 1-613 PDB
4JK2 X-ray 420 A X/Y 1-613 PDB
4JKR X-ray 420 A F/L 1-613 PDB
4KMU X-ray 385 A X/Y 1-613 PDB
4KN4 X-ray 396 A X/Y 1-613 PDB
4KN7 X-ray 369 A X/Y 1-613 PDB
4LJZ X-ray 359 A F/L 92-613 PDB
4LK0 X-ray 391 A F/L 92-613 PDB
4LK1 X-ray 384 A F/L 1-613 PDB
4LLG X-ray 379 A F/L 1-613 PDB
4MEX X-ray 390 A F/L 1-613 PDB
4MEY X-ray 395 A F/L 1-613 PDB
4XSX X-ray 371 A F/L 92-613 PDB
4XSY X-ray 401 A F/L 92-613 PDB
4XSZ X-ray 368 A F/L 92-613 PDB
4YFK X-ray 357 A F/L 1-613 PDB
4YFN X-ray 382 A F/L 1-613 PDB
4YFX X-ray 384 A F/L 1-613 PDB
4YG2 X-ray 370 A F/L 1-613 PDB
4YLN X-ray 550 A F/L/R 1-613 PDB
4YLO X-ray 600 A F/L/R 1-613 PDB
4YLP X-ray 550 A F/L/R 1-613 PDB
4ZH2 X-ray 420 A F/L 1-613 PDB
4ZH3 X-ray 408 A F/L 1-613 PDB
4ZH4 X-ray 399 A F/L 1-613 PDB
5UAC X-ray 380 A F/L 1-613 PDB
5UAG X-ray 340 A F/L 1-613 PDB
5UAH X-ray 410 A F/L 1-613 PDB
5UAJ X-ray 392 A F/L 1-613 PDB
5UAL X-ray 389 A F/L 1-613 PDB
5UAQ X-ray 360 A F/L 1-613 PDB
5VSW X-ray 429 A F/L 1-613 PDB
5VT0 EM 378 A L 94-613 PDB
5W1S X-ray 381 A F/L 1-613 PDB
5W1T X-ray 450 A F/L 1-613 PDB
6B6H EM 390 A F 1-613 PDB
6BYU X-ray 360 A F/L 1-613 PDB
6C9Y EM 425 A F 1-613 PDB
6CA0 EM 575 A F 1-613 PDB
6CUX X-ray 410 A F/L 1-613 PDB
6JNX EM 408 A F 1-613 PDB
6K4Y EM 379 A F 1-613 PDB
6LDI EM 369 A F 1-613 PDB
6N4C EM 1700 A F 8-613 PDB
6N57 EM 370 A L 1-613 PDB
6N58 EM 378 A L 1-613 PDB
6N62 X-ray 380 A F 1-613 PDB
6OUL EM 340 A L 1-613 PDB
6P18 EM 350 A F 1-613 PDB
6P1K EM 405 A L 1-613 PDB
6PB4 EM 435 A F 1-613 PDB
6PB5 EM 452 A F 1-613 PDB
6PB6 EM 429 A F 1-613 PDB
6PSQ EM 340 A L 1-613 PDB
6PSR EM 340 A L 1-613 PDB
6PSS EM 350 A L 1-613 PDB
6PST EM 300 A L 1-613 PDB
6PSU EM 390 A L 1-613 PDB
6PSV EM 350 A L 1-613 PDB
6PSW EM 370 A L 1-613 PDB
6VJS X-ray 402 A X/Y 1-613 PDB
6WMU EM 318 A F 1-613 PDB
6XH7 EM 390 A F 1-613 PDB
6XH8 EM 410 A F 1-613 PDB
6XL5 EM 250 A F 1-613 PDB
6XL9 EM 250 A F 1-613 PDB
6XLJ EM 270 A F 1-613 PDB
6XLL EM 270 A F 1-613 PDB
6XLM EM 320 A F 1-613 PDB
7BEF EM 450 A F 1-613 PDB
7BEG EM 420 A F 1-613 PDB
7C17 EM 422 A F 1-613 PDB
7C97 EM 368 A F 1-613 PDB
7CHW EM 358 A F 1-613 PDB
7DY6 EM 368 A F 1-613 PDB
7KHB EM 353 A F 1-613 PDB
7KHC EM 414 A F 1-613 PDB
7KHE EM 358 A F 1-613 PDB
7KHI EM 362 A F 1-613 PDB
7MKD EM 320 A L 1-613 PDB
7MKE EM 370 A L 1-613 PDB
7MKI EM 350 A L 1-613 PDB
7MKJ EM 290 A L 1-613 PDB
7N4E EM 380 A F 1-613 PDB
7SZJ EM 311 A F 1-613 PDB
7SZK EM 294 A F 1-613 PDB
7UBM EM 313 A F 1-613 PDB
7UBN EM 336 A F 1-613 PDB
7VWY EM 457 A F 1-613 PDB
7VWZ EM 400 A F 1-613 PDB
7W5W EM 455 A F 1-613 PDB
7W5X EM 340 A F 1-613 PDB
7W5Y EM 420 A F 1-613 PDB
7XUI EM 361 A L 1-613 PDB
8AD1 EM 410 A F 1-613 PDB
8IGR EM 310 A L 1-613 PDB
8IGS EM 340 A L 1-613 PDB
8U3B EM 323 A F 1-613 PDB
AF-P00579-F1 Predicted AlphaFoldDB

No variants for P00579

Variant ID(s) Position Change Description Diseaes Association Provenance
No variants for P00579

No associated diseases with P00579

52 regional properties for P00579

Type Name Position InterPro Accession
repeat Filamin/ABP280 repeat 253 - 350 IPR001298-1
repeat Filamin/ABP280 repeat 353 - 449 IPR001298-2
repeat Filamin/ABP280 repeat 451 - 546 IPR001298-3
repeat Filamin/ABP280 repeat 548 - 639 IPR001298-4
repeat Filamin/ABP280 repeat 644 - 739 IPR001298-5
repeat Filamin/ABP280 repeat 741 - 842 IPR001298-6
repeat Filamin/ABP280 repeat 844 - 941 IPR001298-7
repeat Filamin/ABP280 repeat 943 - 1037 IPR001298-8
repeat Filamin/ABP280 repeat 1039 - 1130 IPR001298-9
repeat Filamin/ABP280 repeat 1132 - 1225 IPR001298-10
repeat Filamin/ABP280 repeat 1227 - 1325 IPR001298-11
repeat Filamin/ABP280 repeat 1327 - 1418 IPR001298-12
repeat Filamin/ABP280 repeat 1420 - 1514 IPR001298-13
repeat Filamin/ABP280 repeat 1516 - 1611 IPR001298-14
repeat Filamin/ABP280 repeat 1613 - 1707 IPR001298-15
repeat Filamin/ABP280 repeat 1730 - 1819 IPR001298-16
repeat Filamin/ABP280 repeat 1820 - 1911 IPR001298-17
repeat Filamin/ABP280 repeat 1912 - 1997 IPR001298-18
repeat Filamin/ABP280 repeat 2001 - 2092 IPR001298-19
repeat Filamin/ABP280 repeat 2101 - 2188 IPR001298-20
repeat Filamin/ABP280 repeat 2192 - 2283 IPR001298-21
repeat Filamin/ABP280 repeat 2286 - 2378 IPR001298-22
repeat Filamin/ABP280 repeat 2383 - 2474 IPR001298-23
repeat Filamin/ABP280 repeat 2511 - 2602 IPR001298-24
conserved_site Actinin-type actin-binding domain, conserved site 18 - 27 IPR001589-1
conserved_site Actinin-type actin-binding domain, conserved site 94 - 118 IPR001589-2
domain Calponin homology domain 16 - 122 IPR001715-1
domain Calponin homology domain 139 - 242 IPR001715-2
repeat Filamin/ABP280 repeat-like 249 - 347 IPR017868-1
repeat Filamin/ABP280 repeat-like 349 - 446 IPR017868-2
repeat Filamin/ABP280 repeat-like 447 - 543 IPR017868-3
repeat Filamin/ABP280 repeat-like 544 - 636 IPR017868-4
repeat Filamin/ABP280 repeat-like 640 - 736 IPR017868-5
repeat Filamin/ABP280 repeat-like 737 - 839 IPR017868-6
repeat Filamin/ABP280 repeat-like 840 - 938 IPR017868-7
repeat Filamin/ABP280 repeat-like 939 - 1034 IPR017868-8
repeat Filamin/ABP280 repeat-like 1035 - 1127 IPR017868-9
repeat Filamin/ABP280 repeat-like 1128 - 1222 IPR017868-10
repeat Filamin/ABP280 repeat-like 1223 - 1322 IPR017868-11
repeat Filamin/ABP280 repeat-like 1323 - 1415 IPR017868-12
repeat Filamin/ABP280 repeat-like 1416 - 1511 IPR017868-13
repeat Filamin/ABP280 repeat-like 1512 - 1608 IPR017868-14
repeat Filamin/ABP280 repeat-like 1609 - 1704 IPR017868-15
repeat Filamin/ABP280 repeat-like 1709 - 1816 IPR017868-16
repeat Filamin/ABP280 repeat-like 1816 - 1908 IPR017868-17
repeat Filamin/ABP280 repeat-like 1919 - 1994 IPR017868-18
repeat Filamin/ABP280 repeat-like 1997 - 2089 IPR017868-19
repeat Filamin/ABP280 repeat-like 2087 - 2185 IPR017868-20
repeat Filamin/ABP280 repeat-like 2188 - 2280 IPR017868-21
repeat Filamin/ABP280 repeat-like 2282 - 2375 IPR017868-22
repeat Filamin/ABP280 repeat-like 2379 - 2471 IPR017868-23
repeat Filamin/ABP280 repeat-like 2507 - 2601 IPR017868-24

Functions

Description
EC Number
Subcellular Localization
  • Cytoplasm
PANTHER Family PTHR30603 RNA POLYMERASE SIGMA FACTOR RPO
PANTHER Subfamily PTHR30603:SF47 RNA POLYMERASE SIGMA FACTOR SIGF, CHLOROPLASTIC
PANTHER Protein Class helix-turn-helix transcription factor
Sigma factor
PANTHER Pathway Category No pathway information available

3 GO annotations of cellular component

Name Definition
cytosol The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
cytosolic DNA-directed RNA polymerase complex The eubacterial DNA-directed RNA polymerase is a multisubunit complex with a core composed of the essential subunits beta-prime, beta, and two copies of alpha and a fifth nonessential subunit called omega. An additional subunit, a sigma factor, is required for promoter recognition and specificity.
sigma factor antagonist complex A protein complex which is capable of sigma factor antagonist activity.

2 GO annotations of molecular function

Name Definition
DNA binding Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
sigma factor activity Sigma factors act as the promoter specificity subunit of eubacterial and plant plastid multisubunit RNA polymerases, whose core subunit composition is often described as alpha(2)-beta-beta-prime. Although sigma does not bind DNA on its own, when combined with the core to form the holoenzyme, the sigma factor binds specifically to promoter elements. The sigma subunit is released once elongation begins.

3 GO annotations of biological process

Name Definition
DNA-templated transcription, initiation The initial step of transcription, consisting of the assembly of the RNA polymerase preinitiation complex (PIC) at a gene promoter, as well as the formation of the first few bonds of the RNA transcript. Transcription initiation includes abortive initiation events, which occur when the first few nucleotides are repeatedly synthesized and then released, and ends when promoter clearance takes place.
regulation of DNA-templated transcription, initiation Any process that modulates the frequency, rate or extent of DNA-templated transcription initiation.
response to heat Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.

No homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
No homologous proteins
10 20 30 40 50 60
MEQNPQSQLK LLVTRGKEQG YLTYAEVNDH LPEDIVDSDQ IEDIIQMIND MGIQVMEEAP
70 80 90 100 110 120
DADDLMLAEN TADEDAAEAA AQVLSSVESE IGRTTDPVRM YMREMGTVEL LTREGEIDIA
130 140 150 160 170 180
KRIEDGINQV QCSVAEYPEA ITYLLEQYDR VEAEEARLSD LITGFVDPNA EEDLAPTATH
190 200 210 220 230 240
VGSELSQEDL DDDEDEDEED GDDDSADDDN SIDPELAREK FAELRAQYVV TRDTIKAKGR
250 260 270 280 290 300
SHATAQEEIL KLSEVFKQFR LVPKQFDYLV NSMRVMMDRV RTQERLIMKL CVEQCKMPKK
310 320 330 340 350 360
NFITLFTGNE TSDTWFNAAI AMNKPWSEKL HDVSEEVHRA LQKLQQIEEE TGLTIEQVKD
370 380 390 400 410 420
INRRMSIGEA KARRAKKEMV EANLRLVISI AKKYTNRGLQ FLDLIQEGNI GLMKAVDKFE
430 440 450 460 470 480
YRRGYKFSTY ATWWIRQAIT RSIADQARTI RIPVHMIETI NKLNRISRQM LQEMGREPTP
490 500 510 520 530 540
EELAERMLMP EDKIRKVLKI AKEPISMETP IGDDEDSHLG DFIEDTTLEL PLDSATTESL
550 560 570 580 590 600
RAATHDVLAG LTAREAKVLR MRFGIDMNTD YTLEEVGKQF DVTRERIRQI EAKALRKLRH
610
PSRSEVLRSF LDD