DNA polymerase III subunit alpha - Synechocystis sp. (strain PCC 6803 / Kazusa)

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P74750 (DPO3A_SYNY3) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 107. History...

Clusters with 100%, 90%, 50% identity |

Documents (5) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
DNA polymerase III subunit alpha
EC=2.7.7.7

Cleaved into the following chain:

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 / Kazusa) [Reference proteome] [HAMAP]

Taxonomic identifier

1111708 [NCBI]

Taxonomic lineage

Bacteria › Cyanobacteria › Oscillatoriophycideae › 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 Reference 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

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

Secondary structure

1355

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P74750 [UniParc].

Last modified September 26, 2001. Version 2.
Checksum: 7C4F61EE4C36EE0F
Show »

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

« Hide

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. 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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

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

PIR

A59016.
S75328.
S76958.

RefSeq

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

PDBe
RCSB PDB
PDBj

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	775-933	[»]
4GIG	X-ray	1.80	A	775-933	[»]

ProteinModelPortal

P74750.

SMR

P74750. Positions 775-933.

ModBase

Search...

Protein-protein interaction databases

IntAct

P74750. 2 interactions.

STRING

1148.sll1572.

Protein family/group databases

MEROPS

N10.003.

Proteomic databases

PRIDE

P74750.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

BAA17242; BAA17242; BAA17242.
BAA18870; BAA18870; BAA18870.

GeneID

12255728.
12256312.
14616095.
14618625.
951978.
953863.

KEGG

syn:sll1572.
syn:slr0603.
syy:SYNGTS_0667.
syy:SYNGTS_3164.

PATRIC

23838310. VBISynSp132158_0722.

Phylogenomic databases

eggNOG

COG0587.

HOGENOM

HOG000021784.

K02337.

ProtClustDB

PRK09532.

Family and domain databases

Gene3D

2.40.50.140. 1 hit.

InterPro

IPR011708. DNA_pol3_alpha.
IPR003587. Hint_dom_N.
IPR006141. Intein_splice_site.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA-helicase.
IPR004013. PHP_C.
IPR003141. Pol/His_phosphatase_N.
IPR016195. Pol/histidinol_Pase-like.
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]

SUPFAM

SSF89550. PHP-like. 1 hit.

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...

Other

EvolutionaryTrace

P74750.

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:	May 1, 2013
This is version 107 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Recent format changes

Overview of recent format changes

Intein-containing proteins

List of intein-containing protein entries

Synechocystis PCC 6803

Synechocystis (strain PCC 6803): entries and gene names

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Cleaved into the following chain:

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protein family/group databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Family and domain databases

Other

Entry information

Relevant documents