Reviewed, UniProtKB/Swiss-Prot P74750 (DPO3A_SYNY3)

Names and origin

Protein names

Recommended name:
    DNA polymerase III subunit alpha
    EC=2.7.7.7
Cleaved into the following chain:
    1- Recommended name:
            Ssp dnaE intein

Gene names

Name:	dnaE-N
Ordered Locus Names:	slr0603
AND
Name:	dnaE-C
Ordered Locus Names:	sll1572

Organism

Synechocystis sp. (strain PCC 6803) [Complete proteome] [HAMAP]

Taxonomic identifier

1148 [NCBI]

Taxonomic lineage

Bacteria › Cyanobacteria › Chroococcales › Synechocystis

Protein attributes

Sequence length	1355 AA.
Sequence status	Fragments.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	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 activity	Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Subunit structure	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.
Subcellular location	Cytoplasm By similarity.
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.
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.
Sequence similarities	Belongs to the DNA polymerase type-C family. DnaE subfamily.

Ontologies

Keywords
Biological process	DNA replication
Cellular component	Cytoplasm
Molecular function	DNA-directed DNA polymerase Nucleotidyltransferase Transferase
PTM	Autocatalytic cleavage Protein splicing
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	3'-5' exonuclease activity Inferred from electronic annotation. Source: InterPro DNA binding Inferred from electronic annotation. Source: InterPro DNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 774

774

DNA polymerase III subunit alpha, 1st part

PRO_0000007364

Chain

775 – 897

123

Ssp dnaE intein, 1st part

PRO_0000007365

Chain

898 – 933

36

Ssp dnaE intein, 2nd part

PRO_0000007366

Chain

934 – 1355

422

DNA polymerase III subunit alpha, 2nd part

PRO_0000007367

Experimental info

Non-adjacent residues

897 – 898

2

Secondary structure

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1355

Helix Strand Turn

Details...

Beta strand

781 – 784

4

Turn

785 – 787

3

Beta strand

788 – 791

4

Helix

792 – 797

6

Beta strand

803 – 807

5

Beta strand

811 – 817

7

Beta strand

820 – 834

15

Beta strand

839 – 842

4

Beta strand

847 – 850

4

Beta strand

855 – 857

3

Helix

858 – 863

6

Beta strand

867 – 872

6

Helix

874 – 882

9

Beta strand

886 – 889

4

Helix

890 – 893

4

Beta strand

896 – 916

21

Beta strand

918 – 925

8

Beta strand

928 – 932

5

Sequences

	Sequence		Length	Mass (Da)
	P74750-1 [UniParc]. Last modified September 26, 2001. Version 2. Checksum: 7C4F61EE4C36EE0F	FASTA	1,355	153,001
	10 20 30 40 50 60 MSFVGLHIHS DYSLLDGASQ LPALIDRAIE LGMPAIALTD HGVMYGAVEL LKVCRGKPIK 70 80 90 100 110 120 PIIGNEMYVI NGDIEINKRH RRFHQVVLAK NNQGYRNLVK LTTISNLKGI QGSGIFARPC 130 140 150 160 170 180 INKELLEQYK EGLIVTSACL GGEVPQAILK GDLDHARQVA KWYKNLFGDD YYLEIQDHGS 190 200 210 220 230 240 VEDRLVNINL VKIAQELDIK IVATNDSHFI SCNDVEAHDA LLCIQTGKLI TEEKRLRYSG 250 260 270 280 290 300 TEYLKSAEEM HLLFRDHLPD DIIETAIANT LEVADKVEAY SILGEPRIPH YPIPPNHTPE 310 320 330 340 350 360 TYVEDIAWDG LLERLKCRER ADITPVYKER LEYELRMLEK MGFCTYFLVV WDYIKYARDH 370 380 390 400 410 420 GIPVGPGRGS AAGSLVAYCM KITNIDPVHH GLIFERFLNP ERKSMPDVDT DFCIDRRDEM 430 440 450 460 470 480 IEYVTQKYGE DKVAQIITFN RMTSKAVLKD VARVLDIPYA ESDKMAKMIP VSRGKPAKLK 490 500 510 520 530 540 VMISDQTPEP QFKARYDNEP WVKKWIDMAI RIEGTNKTFG VHAAGVVISS EPLDQIVPLQ 550 560 570 580 590 600 KNNDGAVITQ YYMEDVEAMG LLKMDFLGLK NLTTLQRAVE LVAETKGIEL DLDDLPLQER 610 620 630 640 650 660 KALQIRARTG SKKLPDDVKK THKLLEAGDL EGIFQLESQG MKQIVRDLKP SGIEDISSIL 670 680 690 700 710 720 ALYRPGPLDA GLIPIFINRK HGREEISYQH KLLEPILNET YGVLVYQEQI MKMAQDLADY 730 740 750 760 770 780 SLGEADLLRR AMGKKKAEEM QKHRAKFVDG STKHGVPSRI AENLFDQMVK FAEYCLSFGT 790 800 810 820 830 840 EILTVEYGPL PIGKIVSEEI NCSVYSVDPE GRVYTQAIAQ WHDRGEQEVL EYELEDGSVI 850 860 870 880 890 900 RATSDHRFLT TDYQLLAIEE IFARQLDLLT LENIKQTEEA LDNHRLPFPL LDAGTIKMVK 910 920 930 940 950 960 VIGRRSLGVQ RIFDIGLPQD HNFLLANGAI AANCFNKSHS TAYAYVTYQT AYLKANYPVE 970 980 990 1000 1010 1020 YMAALLTASS DSQEKVEKYR ENCQKMGITV EPPDINRSQR HFTPLGEAIL FGLSAVRNLG 1030 1040 1050 1060 1070 1080 EGAIEQIITA RDNSEEKRFK SLADFCTQVD LRVVNRRAIE TLIMAGAFDG VQSNRNQLLH 1090 1100 1110 1120 1130 1140 DLELVIAWAQ KRAKEKETGQ LNIFDSLTAG ESIKAKEAAN NGFEQEPSAP PVAEFSLQEK 1150 1160 1170 1180 1190 1200 LQLEKEHLGF YVSEHPLKSV QRSARLLSPI NLVDLDQYKV RQKVSAVAIL VAVKKIITKK 1210 1220 1230 1240 1250 1260 NGQPMAFLTL EDMSGQSEAV VFPSNYERLQ DVLIEGSQQM IWGKVDRRDD QYQLIVEDLE 1270 1280 1290 1300 1310 1320 PVEEVKMVML DLTPQEIANT STQARLKQIL QSHAPQKEQM KIPVVACINE GPTKHFIRFG 1330 1340 1350 ENYWVNDYGT AVASLQELGF RARLEPLLPQ SQSVG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 8905231] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[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: 9689062] [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: 10734038] [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: 11170467] [Abstract] Cited for: CHARACTERIZATION OF SPLIT INTEIN.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

BA000022 Genomic DNA. Translation: BAA18870.1. Sequence problems.
BA000022 Genomic DNA. Translation: BAA17242.1. Sequence problems.

PIR

A59016.
S75328.
S76958.

RefSeq

NP_440562.1.
NP_443058.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1ZD7	X-ray	1.70	A/B	775-933	[»]
1ZDE	X-ray	1.95	A	770-936	[»]

ModBase

Search...

Protein-protein interaction databases

IntAct

P74750. 2 interactions.

Genome annotation databases

GeneID

951978.
953863.

GenomeReviews

Gene locus sll1572 in contig BA000022_GR.
Gene locus slr0603 in contig BA000022_GR.

KEGG

syn:sll1572.
syn:slr0603.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

P74750.

Enzyme and pathway databases

BioCyc

SSP1148:SLL1572-MON.
SSP1148:SLR0603-MON.

Family and domain databases

InterPro

IPR011708. DNA_pol3_alpha.
IPR003587. Hedgehog_hint_N.
IPR006141. Intein_splicing_site.
IPR004365. NA_bd_OB_tRNA-helicase.
IPR004013. PHP_C.
IPR003141. PHP_N.
IPR004805. PolC_alpha.
[Graphical view]

Pfam

PF07733. DNA_pol3_alpha. 1 hit.
PF02811. PHP. 1 hit.
PF01336. tRNA_anti. 1 hit.
[Graphical view]

SMART

SM00306. HintN. 1 hit.
SM00481. POLIIIAc. 1 hit.
[Graphical view]

TIGRFAMs

TIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR00594. polc. 1 hit.

PROSITE

PS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

DPO3A_SYNY3

Accession

Primary (citable) accession number: P74750
Secondary accession number(s): P73215

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	September 26, 2001
Last modified:	June 16, 2009
This is version 74 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)