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P74750

- DPO3A_SYNY3

UniProt

P74750 - DPO3A_SYNY3

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Protein

DNA polymerase III subunit alpha

Gene
dnaE-N, slr0603
dnaE-C, sll1572
Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The alpha chain is the DNA polymerase By similarity.

Catalytic activityi

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

GO - Molecular functioni

  1. 3'-5' exonuclease activity Source: InterPro
  2. DNA binding Source: InterPro
  3. DNA-directed DNA polymerase activity Source: UniProtKB-KW

GO - Biological processi

  1. intein-mediated protein splicing Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase

Keywords - Biological processi

DNA replication

Protein family/group databases

MEROPSiN10.003.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA polymerase III subunit alpha (EC:2.7.7.7)
Cleaved into the following chain:
Gene namesi
Name:dnaE-N
Ordered Locus Names:slr0603
AND
Name:dnaE-C
Ordered Locus Names:sll1572
OrganismiSynechocystis sp. (strain PCC 6803 / Kazusa)
Taxonomic identifieri1111708 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis
ProteomesiUP000001425: Chromosome

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 774774DNA polymerase III subunit alpha, 1st partPRO_0000007364Add
BLAST
Chaini775 – 897123Ssp dnaE intein, 1st partPRO_0000007365Add
BLAST
Chaini898 – 93336Ssp dnaE intein, 2nd partPRO_0000007366Add
BLAST
Chaini934 – 1355422DNA polymerase III subunit alpha, 2nd partPRO_0000007367Add
BLAST

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Proteomic databases

PRIDEiP74750.

Interactioni

Subunit structurei

DNA polymerase III contains a core (composed of alpha, epsilon and theta chains) that associates with a tau subunit. This core dimerizes to form the PolIII' complex. PolIII' associates with the gamma complex (composed of gamma, delta, delta', psi and chi chains) and with the beta chain to form the complete DNA polymerase III complex By similarity.

Protein-protein interaction databases

IntActiP74750. 2 interactions.
STRINGi1148.sll1572.

Structurei

Secondary structure

1
1355
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi781 – 7844
Turni785 – 7873
Beta strandi788 – 7914
Helixi792 – 7976
Beta strandi803 – 8075
Beta strandi811 – 8177
Beta strandi820 – 83415
Beta strandi839 – 8424
Beta strandi847 – 8504
Beta strandi855 – 8573
Helixi858 – 8647
Beta strandi868 – 8714
Beta strandi877 – 8793
Turni883 – 8853
Beta strandi887 – 8893
Helixi890 – 8934
Beta strandi896 – 8994
Beta strandi901 – 91616
Beta strandi923 – 9253
Beta strandi928 – 9325

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1ZD7X-ray1.70A/B775-933[»]
1ZDEX-ray1.95A770-936[»]
3NZMX-ray1.55A772-933[»]
4GIGX-ray1.80A775-933[»]
ProteinModelPortaliP74750.
SMRiP74750. Positions 775-933.

Miscellaneous databases

EvolutionaryTraceiP74750.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0587.
HOGENOMiHOG000021784.
KOiK02337.
OrthoDBiEOG6CZQGR.
PhylomeDBiP74750.

Family and domain databases

Gene3Di2.170.16.10. 1 hit.
2.40.50.140. 1 hit.
InterProiIPR011708. DNA_pol3_alpha.
IPR029460. DNAPol_HHH.
IPR028992. Hedgehog/Intein_dom.
IPR003587. Hint_dom_N.
IPR006141. Intein_splice_site.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA.
IPR004013. PHP_C.
IPR003141. Pol/His_phosphatase_N.
IPR016195. Pol/histidinol_Pase-like.
IPR004805. PolC_alpha.
[Graphical view]
PfamiPF07733. DNA_pol3_alpha. 1 hit.
PF14579. HHH_6. 1 hit.
PF02811. PHP. 1 hit.
PF01336. tRNA_anti-codon. 1 hit.
[Graphical view]
SMARTiSM00306. HintN. 1 hit.
SM00481. POLIIIAc. 1 hit.
[Graphical view]
SUPFAMiSSF51294. SSF51294. 1 hit.
SSF89550. SSF89550. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR00594. polc. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Fragments.

Sequence processingi: The displayed sequence is further processed into a mature form.

P74750-1 [UniParc]FASTAAdd to Basket

« Hide

MSFVGLHIHS DYSLLDGASQ LPALIDRAIE LGMPAIALTD HGVMYGAVEL     50
LKVCRGKPIK PIIGNEMYVI NGDIEINKRH RRFHQVVLAK NNQGYRNLVK 100
LTTISNLKGI QGSGIFARPC INKELLEQYK EGLIVTSACL GGEVPQAILK 150
GDLDHARQVA KWYKNLFGDD YYLEIQDHGS VEDRLVNINL VKIAQELDIK 200
IVATNDSHFI SCNDVEAHDA LLCIQTGKLI TEEKRLRYSG TEYLKSAEEM 250
HLLFRDHLPD DIIETAIANT LEVADKVEAY SILGEPRIPH YPIPPNHTPE 300
TYVEDIAWDG LLERLKCRER ADITPVYKER LEYELRMLEK MGFCTYFLVV 350
WDYIKYARDH GIPVGPGRGS AAGSLVAYCM KITNIDPVHH GLIFERFLNP 400
ERKSMPDVDT DFCIDRRDEM IEYVTQKYGE DKVAQIITFN RMTSKAVLKD 450
VARVLDIPYA ESDKMAKMIP VSRGKPAKLK VMISDQTPEP QFKARYDNEP 500
WVKKWIDMAI RIEGTNKTFG VHAAGVVISS EPLDQIVPLQ KNNDGAVITQ 550
YYMEDVEAMG LLKMDFLGLK NLTTLQRAVE LVAETKGIEL DLDDLPLQER 600
KALQIRARTG SKKLPDDVKK THKLLEAGDL EGIFQLESQG MKQIVRDLKP 650
SGIEDISSIL ALYRPGPLDA GLIPIFINRK HGREEISYQH KLLEPILNET 700
YGVLVYQEQI MKMAQDLADY SLGEADLLRR AMGKKKAEEM QKHRAKFVDG 750
STKHGVPSRI AENLFDQMVK FAEYCLSFGT EILTVEYGPL PIGKIVSEEI 800
NCSVYSVDPE GRVYTQAIAQ WHDRGEQEVL EYELEDGSVI RATSDHRFLT 850
TDYQLLAIEE IFARQLDLLT LENIKQTEEA LDNHRLPFPL LDAGTIKMVK 900
VIGRRSLGVQ RIFDIGLPQD HNFLLANGAI AANCFNKSHS TAYAYVTYQT 950
AYLKANYPVE YMAALLTASS DSQEKVEKYR ENCQKMGITV EPPDINRSQR 1000
HFTPLGEAIL FGLSAVRNLG EGAIEQIITA RDNSEEKRFK SLADFCTQVD 1050
LRVVNRRAIE TLIMAGAFDG VQSNRNQLLH DLELVIAWAQ KRAKEKETGQ 1100
LNIFDSLTAG ESIKAKEAAN NGFEQEPSAP PVAEFSLQEK LQLEKEHLGF 1150
YVSEHPLKSV QRSARLLSPI NLVDLDQYKV RQKVSAVAIL VAVKKIITKK 1200
NGQPMAFLTL EDMSGQSEAV VFPSNYERLQ DVLIEGSQQM IWGKVDRRDD 1250
QYQLIVEDLE PVEEVKMVML DLTPQEIANT STQARLKQIL QSHAPQKEQM 1300
KIPVVACINE GPTKHFIRFG ENYWVNDYGT AVASLQELGF RARLEPLLPQ 1350
SQSVG 1355
Length:1,355
Mass (Da):153,001
Last modified:September 26, 2001 - v2
Checksum:i7C4F61EE4C36EE0F
GO

Non-adjacent residues

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Non-adjacent residuesi897 – 8982

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000022 Genomic DNA. Translation: BAA18870.1. Sequence problems.
BA000022 Genomic DNA. Translation: BAA17242.1. Sequence problems.
PIRiA59016.
S75328.
S76958.
RefSeqiNP_440562.1. NC_000911.1.
NP_443058.1. NC_000911.1.
YP_005650620.1. NC_017277.1.
YP_005653117.1. NC_017277.1.
YP_007450445.1. NC_020286.1.
YP_007452933.1. NC_020286.1.

Genome annotation databases

EnsemblBacteriaiBAA17242; BAA17242; BAA17242.
BAA18870; BAA18870; BAA18870.
GeneIDi951978.
953863.
KEGGisyn:sll1572.
syn:slr0603.
syy:SYNGTS_0667.
syy:SYNGTS_3164.
syz:MYO_132000.
syz:MYO_16730.
PATRICi23838310. VBISynSp132158_0722.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000022 Genomic DNA. Translation: BAA18870.1 . Sequence problems.
BA000022 Genomic DNA. Translation: BAA17242.1 . Sequence problems.
PIRi A59016.
S75328.
S76958.
RefSeqi NP_440562.1. NC_000911.1.
NP_443058.1. NC_000911.1.
YP_005650620.1. NC_017277.1.
YP_005653117.1. NC_017277.1.
YP_007450445.1. NC_020286.1.
YP_007452933.1. NC_020286.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1ZD7 X-ray 1.70 A/B 775-933 [» ]
1ZDE X-ray 1.95 A 770-936 [» ]
3NZM X-ray 1.55 A 772-933 [» ]
4GIG X-ray 1.80 A 775-933 [» ]
ProteinModelPortali P74750.
SMRi P74750. Positions 775-933.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi P74750. 2 interactions.
STRINGi 1148.sll1572.

Protein family/group databases

MEROPSi N10.003.

Proteomic databases

PRIDEi P74750.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAA17242 ; BAA17242 ; BAA17242 .
BAA18870 ; BAA18870 ; BAA18870 .
GeneIDi 951978.
953863.
KEGGi syn:sll1572.
syn:slr0603.
syy:SYNGTS_0667.
syy:SYNGTS_3164.
syz:MYO_132000.
syz:MYO_16730.
PATRICi 23838310. VBISynSp132158_0722.

Phylogenomic databases

eggNOGi COG0587.
HOGENOMi HOG000021784.
KOi K02337.
OrthoDBi EOG6CZQGR.
PhylomeDBi P74750.

Miscellaneous databases

EvolutionaryTracei P74750.

Family and domain databases

Gene3Di 2.170.16.10. 1 hit.
2.40.50.140. 1 hit.
InterProi IPR011708. DNA_pol3_alpha.
IPR029460. DNAPol_HHH.
IPR028992. Hedgehog/Intein_dom.
IPR003587. Hint_dom_N.
IPR006141. Intein_splice_site.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA.
IPR004013. PHP_C.
IPR003141. Pol/His_phosphatase_N.
IPR016195. Pol/histidinol_Pase-like.
IPR004805. PolC_alpha.
[Graphical view ]
Pfami PF07733. DNA_pol3_alpha. 1 hit.
PF14579. HHH_6. 1 hit.
PF02811. PHP. 1 hit.
PF01336. tRNA_anti-codon. 1 hit.
[Graphical view ]
SMARTi SM00306. HintN. 1 hit.
SM00481. POLIIIAc. 1 hit.
[Graphical view ]
SUPFAMi SSF51294. SSF51294. 1 hit.
SSF89550. SSF89550. 1 hit.
TIGRFAMsi TIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR00594. polc. 1 hit.
PROSITEi PS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions."
    Kaneko T., Sato S., Kotani H., Tanaka A., Asamizu E., Nakamura Y., Miyajima N., Hirosawa M., Sugiura M., Sasamoto S., Kimura T., Hosouchi T., Matsuno A., Muraki A., Nakazaki N., Naruo K., Okumura S., Shimpo S.
    , Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    DNA Res. 3:109-136(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 6803 / Kazusa.
  2. "Protein trans-splicing by a split intein encoded in a split DnaE gene of Synechocystis sp. PCC6803."
    Wu H., Hu Z., Liu X.-Q.
    Proc. Natl. Acad. Sci. U.S.A. 95:9226-9231(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION OF SPLIT INTEIN.
  3. "Protein trans-splicing and cyclization by a naturally split intein from the dnaE gene of Synechocystis species PCC6803."
    Evans T.C. Jr., Martin D., Kolly R., Panne D., Sun L., Ghosh I., Chen L., Benner J., Liu X.-Q., Xu M.-Q.
    J. Biol. Chem. 275:9091-9094(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION OF SPLIT INTEIN.
  4. "Characterization of a naturally occurring trans-splicing intein from Synechocystis sp. PCC6803."
    Martin D.D., Xu M.-Q., Evans T.C. Jr.
    Biochemistry 40:1393-1402(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION OF SPLIT INTEIN.

Entry informationi

Entry nameiDPO3A_SYNY3
AccessioniPrimary (citable) accession number: P74750
Secondary accession number(s): P73215
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: September 26, 2001
Last modified: July 9, 2014
This is version 117 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The intein is a split intein capable of protein trans-splicing. The N- and C-terminal halves of dnaE are encoded by two separate genes located 745 kb apart in the genome and on opposite DNA strands. The dnaE-N product consists of a N-extein sequence followed by a 123-aa intein sequence (Ssp dnaE1), whereas the dnaE-C product consists of a 36-aa intein sequence (Ssp dnaE2) followed by a C-extein sequence. The N- and C-extein sequences together reconstitute a complete DnaE sequence that is interrupted by the intein sequences inside the beta- and tau-binding domains.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Synechocystis PCC 6803
    Synechocystis (strain PCC 6803): entries and gene names

External Data

Dasty 3

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