3EHW - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   HUMAN DUTPASE IN COMPLEX WITH ALPHA,BETA-IMIDO-DUTP AND MG2+: VISUALIZATION OF THE FULL-LENGTH C-TERMINI IN ALL MONOMERS AND SUGGESTION FOR AN ADDITIONAL METAL ION BINDING SITE

Authors :   E. Takacs, O. Barabas, B. G. Vertessy

Date :   15 Sep 08 (Deposition) - 30 Sep 08 (Release) - 07 Mar 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : A,B,C,X,Y,Z
Biol. Unit 1: A,B,C  (1x)
Biol. Unit 2: X,Y,Z  (1x)

Keywords :   Jelly-Roll, Full-Length C-Terminal Arm, Enzyme-Ligand Complex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Takacs, O. Barabas, B. G. Vertessy
Human Dutpase In Complex With Alpha, Beta-Imido-Dutp And Mg2+: Visualization Of The Full-Length C-Termini In All Monomers And Suggestion For An Additional Metal Ion Binding Site
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - DUTP PYROPHOSPHATASE
	Chains	:	A, B, C, X, Y, Z
	EC Number	:	3.6.1.23
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET3A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	DUT
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	X	Y	Z
Biological Unit 1 (1x)	:	A	B	C
Biological Unit 2 (1x)	:				X	Y	Z

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 14)

No.	Name	Count	Type	Full Name
1	DUP	6	Ligand/Ion	2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2	MG	8	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 3)

No.	Name	Count	Type	Full Name
1	DUP	3	Ligand/Ion	2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	DUP	3	Ligand/Ion	2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:85 , SER A:86 , GLY A:87 , GLN A:131 , MG A:165 , HOH A:850 , HOH A:854 , ALA B:98 , GLY B:99 , VAL B:100 , ILE B:101 , ASP B:102 , TYR B:105 , GLY B:110 , HOH B:778 , ARG C:153 , GLY C:157 , PHE C:158 , GLY C:159 , SER C:160 , THR C:161 , HOH C:780 , HOH C:857 , HOH X:790 , HOH X:856	BINDING SITE FOR RESIDUE DUP C 777
02	AC2	SOFTWARE	HOH A:850 , HOH A:854 , DUP C:777 , HOH C:857	BINDING SITE FOR RESIDUE MG A 165
03	AC3	SOFTWARE	DUP B:777 , HOH B:849 , HOH C:855 , HOH X:874	BINDING SITE FOR RESIDUE MG C 778
04	AC4	SOFTWARE	DUP A:777 , HOH B:796 , HOH B:856 , HOH X:888	BINDING SITE FOR RESIDUE MG B 165
05	AC5	SOFTWARE	DUP Y:777 , HOH Y:854 , HOH Z:779 , HOH Z:836	BINDING SITE FOR RESIDUE MG Z 165
06	AC6	SOFTWARE	HOH X:828 , HOH X:990 , DUP Z:777 , HOH Z:839	BINDING SITE FOR RESIDUE MG X 165
07	AC7	SOFTWARE	DUP X:777 , HOH X:920 , HOH X:993 , HOH Y:852	BINDING SITE FOR RESIDUE MG Y 165
08	AC8	SOFTWARE	ALA A:98 , GLY A:99 , VAL A:100 , ILE A:101 , ASP A:102 , TYR A:105 , GLY A:110 , HOH A:779 , ARG B:153 , GLY B:157 , PHE B:158 , GLY B:159 , SER B:160 , THR B:161 , HOH B:779 , HOH B:780 , HOH B:849 , ARG C:85 , SER C:86 , GLY C:87 , GLN C:131 , MG C:778 , HOH C:855 , HOH X:784 , HOH X:874	BINDING SITE FOR RESIDUE DUP B 777
09	AC9	SOFTWARE	ARG A:153 , GLY A:157 , PHE A:158 , GLY A:159 , SER A:160 , THR A:161 , HOH A:783 , ARG B:85 , SER B:86 , GLY B:87 , GLN B:131 , MG B:165 , HOH B:796 , HOH B:856 , ALA C:98 , GLY C:99 , VAL C:100 , ILE C:101 , ASP C:102 , TYR C:105 , GLY C:110 , HOH X:786 , HOH X:799 , HOH X:800 , HOH X:888	BINDING SITE FOR RESIDUE DUP A 777
10	BC1	SOFTWARE	ALA X:98 , GLY X:99 , VAL X:100 , ILE X:101 , ASP X:102 , TYR X:105 , ASN X:108 , GLY X:110 , HOH X:796 , HOH X:849 , HOH X:868 , ARG Y:153 , GLY Y:157 , PHE Y:158 , GLY Y:159 , SER Y:160 , THR Y:161 , HOH Y:780 , HOH Y:854 , ARG Z:85 , SER Z:86 , GLY Z:87 , GLN Z:131 , MG Z:165 , HOH Z:779 , HOH Z:836	BINDING SITE FOR RESIDUE DUP Y 777
11	BC2	SOFTWARE	ARG X:85 , SER X:86 , GLY X:87 , GLN X:131 , MG X:165 , HOH X:788 , HOH X:828 , HOH X:990 , ALA Y:98 , GLY Y:99 , VAL Y:100 , ILE Y:101 , ASP Y:102 , TYR Y:105 , GLY Y:110 , HOH Y:778 , ARG Z:153 , GLY Z:157 , PHE Z:158 , GLY Z:159 , SER Z:160 , THR Z:161 , HOH Z:781 , HOH Z:782 , HOH Z:839	BINDING SITE FOR RESIDUE DUP Z 777
12	BC3	SOFTWARE	ARG X:153 , GLY X:157 , PHE X:158 , GLY X:159 , SER X:160 , THR X:161 , HOH X:779 , HOH X:783 , HOH X:831 , HOH X:920 , HOH X:993 , ARG Y:85 , SER Y:86 , GLY Y:87 , GLN Y:131 , MG Y:165 , HOH Y:852 , ALA Z:98 , GLY Z:99 , VAL Z:100 , ILE Z:101 , ASP Z:102 , TYR Z:105 , GLY Z:110 , HOH Z:778	BINDING SITE FOR RESIDUE DUP X 777
13	BC4	SOFTWARE	ASP X:95 , HOH X:953 , HOH X:960 , HOH X:994 , ASP Y:95 , HOH Y:824 , ASP Z:95	BINDING SITE FOR RESIDUE MG X 778
14	BC5	SOFTWARE	ASP A:95 , HOH A:839 , HOH A:852 , ASP B:95 , HOH B:803 , HOH B:883 , ASP C:95	BINDING SITE FOR RESIDUE MG A 778

Asymmetric Unit

No.	Residues
1	Z:78	-	Z:134

(no "Cis Peptide Bond" information available for 3EHW)

(no "SAP(SNP)/Variant" information available for 3EHW)

(no "PROSITE Motif" information available for 3EHW)

Asymmetric Unit (6, 36)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1b	ENST00000331200	1b	ENSE00001487133	chr15:48623621-48623992	372	DUT_HUMAN	1-94	94	0	-	-
1.2b	ENST00000331200	2b	ENSE00001789447	chr15:48624465-48624603	139	DUT_HUMAN	94-140	47	6	A:24-52 B:25-52 C:25-52 X:25-52 Y:25-52 Z:25-52	29 28 28 28 28 28
1.3	ENST00000331200	3	ENSE00000686853	chr15:48626614-48626705	92	DUT_HUMAN	140-171	32	6	A:52-83 B:52-83 C:52-83 X:52-83 Y:52-83 Z:52-83	32 32 32 32 32 32
1.4	ENST00000331200	4	ENSE00000686856	chr15:48628243-48628287	45	DUT_HUMAN	171-186	16	6	A:83-98 B:83-98 C:83-98 X:83-98 Y:83-98 Z:83-98	16 16 16 16 16 16
1.5	ENST00000331200	5	ENSE00000686860	chr15:48633486-48633560	75	DUT_HUMAN	186-211	26	6	A:98-123 B:98-123 C:98-123 X:98-123 Y:98-123 Z:98-123	26 26 26 26 26 26
1.6	ENST00000331200	6	ENSE00000884477	chr15:48633712-48633782	71	DUT_HUMAN	211-234	24	6	A:123-146 B:123-146 C:123-146 X:123-146 Y:123-146 Z:123-146	24 24 24 24 24 24
1.7b	ENST00000331200	7b	ENSE00001030201	chr15:48634219-48635570	1352	DUT_HUMAN	235-252	18	6	A:147-164 B:147-164 C:147-164 X:147-164 Y:147-164 Z:147-164	18 18 18 18 18 18

Asymmetric 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:141
 aligned with DUT_HUMAN | P33316 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:141
                                   121       131       141       151       161       171       181       191       201       211       221       231       241       251 
            DUT_HUMAN   112 MQLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 252
               SCOP domains d3ehwa_ A: automated matches                                                                                                                  SCOP domains
               CATH domains 3ehwA00 A:24-164  [code=2.70.40.10, no name defined]                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee........ee......eeeee....eee...eeeeee..eeee....eeeeee.hhhhhhhhheeee..ee........eeeeee.....eee....eeeeeeeee.....eee.................... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: A:24-52      ------------------------------Exon 1.4        ------------------------Exon 1.6  PDB: A:123-146Exon 1.7b          Transcript 1 (1)
           Transcript 1 (2) ----------------------------Exon 1.3  PDB: A:52-83          --------------Exon 1.5  PDB: A:98-123   ----------------------------------------- Transcript 1 (2)
                 3ehw A  24 MQLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 164
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163

Chain B from PDB  Type:PROTEIN  Length:140
 aligned with DUT_HUMAN | P33316 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:140
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252
            DUT_HUMAN   113 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 252
               SCOP domains d3ehwb_ B: automated matches                                                                                                                 SCOP domains
               CATH domains 3ehwB00 B:25-164  [code=2.70.40.10, no name defined]                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee................eeeee....eee...eeeeee..eeee....eeeeee.hhhhhhhhheeee..ee........eeeeee.....eee....eeeeeeeeeee...eee.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: B:25-52     ------------------------------Exon 1.4        ------------------------Exon 1.6  PDB: B:123-146Exon 1.7b          Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.3  PDB: B:52-83          --------------Exon 1.5  PDB: B:98-123   ----------------------------------------- Transcript 1 (2)
                 3ehw B  25 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 164
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164

Chain C from PDB  Type:PROTEIN  Length:140
 aligned with DUT_HUMAN | P33316 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:140
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252
            DUT_HUMAN   113 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 252
               SCOP domains d3ehwc_ C: automated matches                                                                                                                 SCOP domains
               CATH domains 3ehwC00 C:25-164  [code=2.70.40.10, no name defined]                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee......eeeee....eee...eeeeee..eeee....eeeeee.hhhhhhhhheeee..ee........eeeeee.....eee....eeeeeeeee.....eee.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: C:25-52     ------------------------------Exon 1.4        ------------------------Exon 1.6  PDB: C:123-146Exon 1.7b          Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.3  PDB: C:52-83          --------------Exon 1.5  PDB: C:98-123   ----------------------------------------- Transcript 1 (2)
                 3ehw C  25 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 164
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164

Chain X from PDB  Type:PROTEIN  Length:140
 aligned with DUT_HUMAN | P33316 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:140
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252
            DUT_HUMAN   113 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 252
               SCOP domains d3ehwx_ X: automated matches                                                                                                                 SCOP domains
               CATH domains 3ehwX00 X:25-164  [code=2.70.40.10, no name defined]                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee......eeeee....eee...eeeeee..eeee....eeeeee.hhhhhhhhheeee..ee........eeeeee.....eee....eeeeeeeeeee...eee.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: X:25-52     ------------------------------Exon 1.4        ------------------------Exon 1.6  PDB: X:123-146Exon 1.7b          Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.3  PDB: X:52-83          --------------Exon 1.5  PDB: X:98-123   ----------------------------------------- Transcript 1 (2)
                 3ehw X  25 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 164
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164

Chain Y from PDB  Type:PROTEIN  Length:140
 aligned with DUT_HUMAN | P33316 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:140
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252
            DUT_HUMAN   113 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 252
               SCOP domains d3ehwy_ Y: automated matches                                                                                                                 SCOP domains
               CATH domains 3ehwY00 Y:25-164  [code=2.70.40.10, no name defined]                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee......eeeee....eee...eeeeee..eeee....eeeeee.hhhhhhhhheeee..ee........eeeeee.....eee....eeeeeeeee.....eee.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: Y:25-52     ------------------------------Exon 1.4        ------------------------Exon 1.6  PDB: Y:123-146Exon 1.7b          Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.3  PDB: Y:52-83          --------------Exon 1.5  PDB: Y:98-123   ----------------------------------------- Transcript 1 (2)
                 3ehw Y  25 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 164
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164

Chain Z from PDB  Type:PROTEIN  Length:140
 aligned with DUT_HUMAN | P33316 from UniProtKB/Swiss-Prot  Length:252

    Alignment length:140
                                   122       132       142       152       162       172       182       192       202       212       222       232       242       252
            DUT_HUMAN   113 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 252
               SCOP domains d3ehwz_ Z: automated matches                                                                                                                 SCOP domains
               CATH domains 3ehwZ00 Z:25-164  [code=2.70.40.10, no name defined]                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee........ee......eeeee....eee...eeeeee..eeee....eeeeee.hhhhhhhhheeee..ee........eeeeee.....eee....eeeeeeeeeee...eee.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: Z:25-52     ------------------------------Exon 1.4        ------------------------Exon 1.6  PDB: Z:123-146Exon 1.7b          Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.3  PDB: Z:52-83          --------------Exon 1.5  PDB: Z:98-123   ----------------------------------------- Transcript 1 (2)
                 3ehw Z  25 QLRFARLSEHATAPTRGSARAAGYDLYSAYDYTIPPMEKAVVKTDIQIALPSGCYGRVAPRSGLAAKHFIDVGAGVIDEDYRGNVGVVLFNFGKEKFEVKKGDRIAQLICERIFYPEIEEVQALDDTERGSGGFGSTGKN 164
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: beta-clip (280)

Superfamily: dUTPase-like (122)

Family: automated matches (51)

Protein domain: automated matches (51)

Human (Homo sapiens) [TaxId: 9606] (4)

1a	d3ehwa_	A:
1b	d3ehwy_	Y:
1c	d3ehwz_	Z:
1d	d3ehwb_	B:
1e	d3ehwc_	C:
1f	d3ehwx_	X:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Distorted Sandwich (506)

Topology: Deoxyuridine 5'-Triphosphate Nucleotidohydrolase; Chain A (52)

Homologous Superfamily: [code=2.70.40.10, no name defined] (51)

Human (Homo sapiens) (4)

1a	3ehwA00	A:24-164
1b	3ehwB00	B:25-164
1c	3ehwC00	C:25-164
1d	3ehwX00	X:25-164
1e	3ehwY00	Y:25-164
1f	3ehwZ00	Z:25-164

(no "Pfam Domain" information available for 3EHW)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,X,Y,Z (DUT_HUMAN | P33316)

molecular function
	GO:0004170	dUTP diphosphatase activity	Catalysis of the reaction: dUTP + H2O = dUMP + diphosphate.
	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:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0006260	DNA replication	The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
	GO:0006226	dUMP biosynthetic process	The chemical reactions and pathways resulting in the formation of dUMP, deoxyuridine monophosphate (2'-deoxyuridine 5'-phosphate).
	GO:0046081	dUTP catabolic process	The chemical reactions and pathways resulting in the breakdown of dUTP, deoxyuridine (5'-)triphosphate.
	GO:0046080	dUTP metabolic process	The chemical reactions and pathways involving dUTP, deoxyuridine (5'-)triphosphate.
	GO:0006139	nucleobase-containing compound metabolic process	Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
	GO:0009117	nucleotide metabolic process	The chemical reactions and pathways involving a nucleotide, a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic nucleotides (nucleoside cyclic phosphates).
	GO:0046134	pyrimidine nucleoside biosynthetic process	The chemical reactions and pathways resulting in the formation of one of a family of organic molecules consisting of a pyrimidine base covalently bonded to a sugar ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside).
cellular component
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3ehw)

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	Complete Structure
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	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
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Access by PDB/NDB ID
	3ehw
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	3.6.1.23
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UniProtKB/Swiss-Prot
	DUT_HUMAN \| P33316	:	1q5h 1q5u 2hqu 3ara 3arn 4mz5 4mz6

1q5h	HUMAN DUTPASE IN COMPLEX WITH DUDP
1q5u	HUMAN APO-DUTPASE
2hqu	SAME PROTEIN COMPLEX IN WHICH TWO C-TERMINAL ARMS ARE CLOSED AND ONE ARM HAS OPEN CONFORMATION

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 14)

Sites (14, 14)

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (6, 36)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 6)

CATH Domains (1, 6)

Pfam Domains (0, 0)

Gene Ontology (15, 15)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File