1PJR - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   STRUCTURE OF DNA HELICASE

Authors :   H. S. Subramanya, L. E. Bird, J. A. Brannigan, D. B. Wigley

Date :   11 Oct 96 (Deposition) - 03 Dec 97 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym./Biol. Unit : A

Keywords :   Dna Repair, Dna Replication, Sos Response, Helicase, Atp- Binding, Dna-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. S. Subramanya, L. E. Bird, J. A. Brannigan, D. B. Wigley
Crystal Structure Of A Dexx Box Dna Helicase.
Nature V. 384 379 1996
PubMed-ID: 8934527 | Reference-DOI: 10.1038/384379A0
(for further references see the PDB file header)

Molecule 1 - PCRA
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Gene	:	PCRA
	Expression System Plasmid	:	PET22
	Expression System Taxid	:	562
	Expression System Vector Type	:	T7 PROMOTER
	Gene	:	PCRA
	Organism Scientific	:	GEOBACILLUS STEAROTHERMOPHILUS
	Organism Taxid	:	1422
	Strain	:	NCA1503

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1PJR)

(no "Site" information available for 1PJR)

(no "SS Bond" information available for 1PJR)

Asymmetric/Biological Unit

No.	Residues
1	Val A:417	-	Pro A:418
2	Phe A:585	-	Pro A:586

(no "SAP(SNP)/Variant" information available for 1PJR)

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	UVRD_HELICASE_ATP_BIND	PS51198	UvrD-like DNA helicase ATP-binding domain profile.	PCRA_GEOSE	10-289	1	A:10-289
2	UVRD_HELICASE_CTER	PS51217	UvrD-like DNA helicase C-terminal domain profile.	PCRA_GEOSE	290-569	1	A:290-569

(no "Exon" information available for 1PJR)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:623
 aligned with PCRA_GEOSE | P56255 from UniProtKB/Swiss-Prot  Length:724

    Alignment length:651
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650 
           PCRA_GEOSE     1 MNFLSEQLLAHLNKEQQEAVRTTEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERVQSLLGGAAEDVWISTFHSMCVRILRRDIDRIGINRNFSILDPTDQLSVMKTILKEKNIDPKKFEPRTILGTISAAKNELLPPEQFAKRASTYYEKVVSDVYQEYQQRLLRNHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDEYQDTNRAQYTLVKKLAERFQNICAVGDADQSIYRWRGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWTENPEGKPILYYEAMNEADEAQFVAGRIREAVERGERRYRDFAVLYRTNAQSRVMEEMLLKANIPYQIVGGLKFYDRKEIKDILAYLRVIANPDDDLSLLRIINVPKRGIGASTIDKLVRYAADHELSLFEALGELEMIGLGAKAAGALAAFRSQLEQWTQLQEYVSVTELVEEVLDKSGYREMLKAERTIEAQSRLENLDEFLSVTKHFENVSDDKSLIAFLTDLALISDLDELDGTEQAAEGDAVMLMTLHAAKGLEFPVVFLIGMEEGIFPHNRSLEDDDEMEEERRLAYVGITRAEEELVLTSAQMRTLFGNIQMDPPSRFLNEIPAHLLETASR 651
               SCOP domains d1pjra1 A:1-318 DEXX box DNA helicase                                                                                                                                                                                                                                                                                         d1pjra2 A:319-651 DEXX box DNA helicase                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains --1pjrA01 A:3-115,A:194-282 P-loop containing nucleotide triphosphate hydrolases                                   1pjrA02 A:116-190  [code=1.10.10.160, no name def   ined]                  ---1pjrA01 A:3-115,A:194-282 P-loop containing nucleotide triphosphate hydrolases           1pjrA03 A:283-385,A:541-650 P-loop containing nucleotide triphosphate hydrolases                       -1pjrA04 A:387-538 PCRA; domain 4                                                                                                                        --1p             jrA03 A:283-385,A:541-650 P-loop containing nucleotide triphosphate hydrolases                 - CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh....hhhhhhhh.....eeeee.....hhhhhhhhhhhhhh.....hhheeeee..hhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhh..........hhhhhhhhhhhhh..........hhhhhhhhhhhhhh...hhhhhh.---.hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh.hhhhhhhhhh..eeee..hhh..hhhhhhhhhhh.....eeeee.hhh...hhh....hhhhhhhhh....eeeee.......hhhhhhhhhhhhh..................eeeeee..hhhhhhhhhhhhhhhh......hhheeeee..hhhhhhhhhhhhh....eeee........hhhhhhhhhhhhhh....hhhhhhhh.............------------.hhhhh.hhhh..........hhhhhhhhhhhhhhh...hhhhhhhhhhh..hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh.....-------------...eeeeehhhh......eeee..........hhhh..hhhhhhhhhhhhhhhhh...eeeeeee..eee..eee.....hhhhh..hhheee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------UVRD_HELICASE_ATP_BIND  PDB: A:10-289 UniProt: 10-289                                                                                                                                                                                                                                   UVRD_HELICASE_CTER  PDB: A:290-569 UniProt: 290-569                                                                                                                                                                                                                                     ---------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pjr A   1 MNFLSEQLLAHLNKEQQEAVRTTEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERVQSLLGGAAEDVWISTFHSMCVRILRRDIDRIGINRNFSILDPTDQLSVMKTILKEKNIDPKKFEPRTILGTISAAKNELLPPEQFAKR---YYEKVVSDVYQEYQQRLLRNHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDEYQDTNRAQYTLVKKLAERFQNICAVGDADQSIYRWRGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWTENPEGKPILYYEAMNEADEAQFVAGRIREAVERGERRYRDFAVLYRTNAQSRVMEEMLLKANIPYQIVGGLKFYDRKEIKDILAYLRVIANPDDDLSLLRIINVPKRGIGASTID------------LFEALGELEMIGLGAKAAGALAAFRSQLEQWTQLQEYVSVTELVEEVLDKSGYREMLKAERTIEAQSRLENLDEFLSVTKHFENVSDDKSLIAFLTDLALIS-------------GDAVMLMTLHAAKGLEFPVVFLIGMEEGIFPHNRSLEDDDEMEEERRLAYVGITRAEEELVLTSAQMRTLFGNIQMDPPSRFLNEIPAHLLETASR 651
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160   |   170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       | -         -|      450       460       470       480       490       500       510       520       530       540 |       -     | 560       570       580       590       600       610       620       630       640       650 
                                                                                                                                                                                             164 168                                                                                                                                                                                                                                                                 428          441                                                                                                  542           556

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a/b) (23833)

Fold: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: Tandem AAA-ATPase domain (59)

Protein domain: DEXX box DNA helicase (6)

Bacillus stearothermophilus, PcrA [TaxId: 1422] (5)

1a	d1pjra1	A:1-318
1b	d1pjra2	A:319-651

(no "Pfam Domain" information available for 1PJR)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PCRA_GEOSE | P56255)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0004003	ATP-dependent DNA helicase activity	Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction drives the unwinding of the DNA helix.
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0004386	helicase activity	Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA or RNA helix.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0006268	DNA unwinding involved in DNA replication	The process in which interchain hydrogen bonds between two strands of DNA are broken or 'melted', generating unpaired template strands for DNA replication.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Sites
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	Cis Peptide Bonds
		Phe A:585 - Pro A:586	[ RasMol ]
		Val A:417 - Pro A:418	[ RasMol ]

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	1pjr
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	PCRA_GEOSE \| P56255	:	1qhg 1qhh 2pjr 3pjr 5dma

(no "Related Entries Specified in the PDB File" available for 1PJR)

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

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