3BM4 - JenaLib

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:96 , GLU A:116 , HOH A:323 , HOH A:395	BINDING SITE FOR RESIDUE MG A 301
2	AC2	SOFTWARE	GLU A:112 , GLU A:116 , HOH A:434 , HOH A:438 , HOH A:443	BINDING SITE FOR RESIDUE MG A 302
3	AC3	SOFTWARE	GLU A:112 , HOH A:351 , HOH A:362 , HOH A:434	BINDING SITE FOR RESIDUE MG A 303
4	AC4	SOFTWARE	ALA B:96 , GLU B:116 , HOH B:448 , HOH B:452	BINDING SITE FOR RESIDUE MG B 304
5	AC5	SOFTWARE	GLU B:112 , GLU B:116 , GLU B:166 , HOH B:449 , HOH B:512 , HOH B:562	BINDING SITE FOR RESIDUE MG B 305
6	AC6	SOFTWARE	GLU B:112 , HOH B:450 , HOH B:491 , HOH B:512	BINDING SITE FOR RESIDUE MG B 306
7	AC7	SOFTWARE	TRP A:28 , ARG A:51 , ARG A:84 , ALA A:96 , GLY A:97 , LEU A:98 , GLU A:112 , MET A:132 , GLU A:166 , TRP B:46 , GLU B:47 , ASP B:133 , GLY B:135 , HOH B:437 , HOH B:460 , HOH B:463 , HOH B:508 , HOH B:551	BINDING SITE FOR RESIDUE ADV B 401
8	AC8	SOFTWARE	TRP A:46 , GLU A:47 , ASP A:133 , PRO A:134 , GLY A:135 , HOH A:348 , TRP B:28 , ARG B:51 , ARG B:84 , ALA B:96 , GLY B:97 , LEU B:98 , GLU B:112 , GLU B:116 , MET B:132 , GLU B:166 , HOH B:425 , HOH B:473 , HOH B:488 , HOH B:564	BINDING SITE FOR RESIDUE ADV B 402

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 2)

PROSITE Motifs (2, 4)

Exons (0, 0)

Sequences/Alignments

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:197
 aligned with NUDT5_HUMAN | Q9UKK9 from UniProtKB/Swiss-Prot  Length:219

    Alignment length:197
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       
          NUDT5_HUMAN    13 GKQYIISEELISEGKWVKLEKTTYMDPTGKTRTWESVKRTTRKEQTADGVAVIPVLQRTLHYECIVLVKQFRPPMGGYCIEFPAGLIDDGETPEAAALRELEEETGYKGDIAECSPAVCMDPGLSNCTIHIVTVTINGDDAENARPKPKPGDGEFVEVISLPKNDLLQRLDALVAEEHLTVDARVYSYALALKHANA 209
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee...eeeeeeeee.....eeeeeeeee.........eeeeeeeeee..eeeeeeeeeee.hhhh.eeee..eee.....hhhhhhhhhhhhhhh...eeeee...ee........eeeeeeeeee..hhhhh............eeeeee..hhhhhhhhhhhhh.eeehhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------T-------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------NUDIX  PDB: A:57-197 UniProt: 57-197                                                                                                         ------------ PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------NUDIX_BOX             ------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bm4 A  13 GKQYIISEELISEGKWVKLEKTTYMDPTGKTRTWESVKRTTRKEQTADGVAVIPVLQRTLHYECIVLVKQFRPPMGGYCIEFPAGLIDDGETPEAAALRELEEETGYKGDIAECSPAVCMDPGLSNCTIHIVTVTINGDDAENARPKPKPGDGEFVEVISLPKNDLLQRLDALVAEEHLTVDARVYSYALALKHANA 209
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202

Chain B from PDB  Type:PROTEIN  Length:197
 aligned with NUDT5_HUMAN | Q9UKK9 from UniProtKB/Swiss-Prot  Length:219

    Alignment length:197
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       
          NUDT5_HUMAN    13 GKQYIISEELISEGKWVKLEKTTYMDPTGKTRTWESVKRTTRKEQTADGVAVIPVLQRTLHYECIVLVKQFRPPMGGYCIEFPAGLIDDGETPEAAALRELEEETGYKGDIAECSPAVCMDPGLSNCTIHIVTVTINGDDAENARPKPKPGDGEFVEVISLPKNDLLQRLDALVAEEHLTVDARVYSYALALKHANA 209
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee...eeeeeeeee.....eeeeeeeee.........eeeeeeeee......eeeeeeee......eeee..eee.....hhhhhhhhhhhhhhh...eeeee...ee........eeeeeeeeee..hhhhh............eeeeee..hhhhhhhhhhhhh..eehhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------T-------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------NUDIX  PDB: B:57-197 UniProt: 57-197                                                                                                         ------------ PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------NUDIX_BOX             ------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bm4 B  13 GKQYIISEELISEGKWVKLEKTTYMDPTGKTRTWESVKRTTRKEQTADGVAVIPVLQRTLHYECIVLVKQFRPPMGGYCIEFPAGLIDDGETPEAAALRELEEETGYKGDIAECSPAVCMDPGLSNCTIHIVTVTINGDDAENARPKPKPGDGEFVEVISLPKNDLLQRLDALVAEEHLTVDARVYSYALALKHANA 209
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (NUDT5_HUMAN | Q9UKK9)

molecular function
	GO:0047631	ADP-ribose diphosphatase activity	Catalysis of the reaction: ADP-ribose + H2O = AMP + D-ribose 5-phosphate.
	GO:0019144	ADP-sugar diphosphatase activity	Catalysis of the reaction: ADP-sugar + H2O = AMP + sugar 1-phosphate.
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	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:0050072	m7G(5')pppN diphosphatase activity	Catalysis of the reaction: 7-methylguanosine 5'-triphospho-5'-polynucleotide + H2O = 7-methylguanosine 5'-phosphate + polynucleotide.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0017110	nucleoside-diphosphatase activity	Catalysis of the reaction: a nucleoside diphosphate + H2O = a nucleotide + phosphate.
	GO:0030515	snoRNA binding	Interacting selectively and non-covalently with small nucleolar RNA.
biological process
	GO:0019303	D-ribose catabolic process	The chemical reactions and pathways resulting in the breakdown of D-ribose (ribo-pentose).
	GO:0006139	nucleobase-containing compound metabolic process	Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
	GO:0034656	nucleobase-containing small molecule catabolic process	The chemical reactions and pathways resulting in the breakdown of a nucleobase-containing small molecule: a nucleobase, a nucleoside, or a nucleotide.
	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:0009191	ribonucleoside diphosphate catabolic process	The chemical reactions and pathways resulting in the breakdown of a ribonucleoside diphosphate, a compound consisting of a nucleobase linked to a ribose sugar esterified with diphosphate on the sugar.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	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:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	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.

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	3bm4
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	NUDT5_HUMAN \| Q9UKK9
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	3.6.1.-
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	3.6.1.13
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)