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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66) IN COMPLEX WITH MN(II) AND N-OXALYLGLYCINE (NOG)

Authors :   R. Chowdhury, W. Ge, I. J. Clifton, C. J. Schofield

Date :   23 Oct 13 (Deposition) - 14 May 14 (Release) - 25 Jun 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Oxidoreductase, Non-Heme, Iron-Binding, Dsbh, 2-Oxoglutarate, Dioxygenase, Jmjc Domain, Ribosome Biogenesis, Nuclear Protein, Rpl8, Beta-Hydroxylation, Transcription And Epigenetic Regulation, Signaling (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Chowdhury, R. Sekirnik, N. C. Brissett, T. Krojer, C. -H. Ho, S. S. Ng I. J. Clifton, W. Ge, N. J. Kershaw, G. C. Fox, J. R. C. Muniz, M. Vollmar, C. Phillips, E. S. Pilka, K. L. Kavanagh, F. Von Deflt, U. Oppermann, M. A. Mcdonough, A. J. Doherty, C. J. Schofield
Ribosomal Oxygenases Are Structurally Conserved From Prokaryotes To Humans.
Nature V. 510 422 2014
PubMed-ID: 24814345 | Reference-DOI: 10.1038/NATURE13263
(for further references see the PDB file header)

Molecule 1 - BIFUNCTIONAL LYSINE-SPECIFIC DEMETHYLASE AND HISTIDYL-HYDROXYLASE NO66
	Chains	:	A, B, C, D
	EC Number	:	1.14.11.-, 1.14.11.27
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	PNIC-CTHF
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC DOMAIN, RESIDUES 183-641
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE, HISTONE LYSINE DEMETHYLASE NO66, MYC-ASSOCIATED PROTEIN WITH JMJC DOMAIN, NUCLEOLAR PROTEIN 66, HSNO66, RIBOSOMAL OXYGENASE NO66, ROX

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 12)

No.	Name	Count	Type	Full Name
1	EDO	4	Ligand/Ion	1,2-ETHANEDIOL
2	MN	4	Ligand/Ion	MANGANESE (II) ION
3	OGA	4	Ligand/Ion	N-OXALYLGLYCINE

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:340 , ASP A:342 , HIS A:405 , OGA A:902 , HOH A:2105	BINDING SITE FOR RESIDUE MN A 901
02	AC2	SOFTWARE	TYR A:328 , PHE A:337 , HIS A:340 , ASP A:342 , LYS A:355 , TRP A:357 , HIS A:405 , HIS A:417 , THR A:419 , MN A:901 , HOH A:2105 , HOH A:2106 , HOH A:2109	BINDING SITE FOR RESIDUE OGA A 902
03	AC3	SOFTWARE	GLY A:320 , SER A:321 , ASN A:426 , ARG A:501 , HOH A:2100 , PHE B:458	BINDING SITE FOR RESIDUE EDO A 903
04	AC4	SOFTWARE	HIS B:340 , ASP B:342 , HIS B:405 , OGA B:902 , HOH B:2066	BINDING SITE FOR RESIDUE MN B 901
05	AC5	SOFTWARE	TYR B:328 , PHE B:337 , HIS B:340 , ASP B:342 , LYS B:355 , HIS B:405 , HIS B:417 , THR B:419 , MN B:901 , HOH B:2066 , HOH B:2067 , HOH B:2073	BINDING SITE FOR RESIDUE OGA B 902
06	AC6	SOFTWARE	PHE A:458 , GLY B:320 , SER B:321 , ASN B:426 , ARG B:501 , HOH B:2061	BINDING SITE FOR RESIDUE EDO B 903
07	AC7	SOFTWARE	HIS C:340 , ASP C:342 , HIS C:405 , OGA C:902 , HOH C:2090	BINDING SITE FOR RESIDUE MN C 901
08	AC8	SOFTWARE	TYR C:328 , HIS C:340 , ASP C:342 , LYS C:355 , HIS C:405 , HIS C:417 , THR C:419 , MN C:901 , HOH C:2091 , HOH C:2095	BINDING SITE FOR RESIDUE OGA C 902
09	AC9	SOFTWARE	GLY C:320 , SER C:321 , ASN C:426 , ARG C:501 , PHE C:505 , HOH C:2085 , PHE D:458	BINDING SITE FOR RESIDUE EDO C 903
10	BC1	SOFTWARE	HIS D:340 , ASP D:342 , HIS D:405 , OGA D:902 , HOH D:2054	BINDING SITE FOR RESIDUE MN D 901
11	BC2	SOFTWARE	TYR D:328 , PHE D:337 , HIS D:340 , ASP D:342 , LYS D:355 , TRP D:357 , HIS D:405 , HIS D:417 , THR D:419 , MN D:901 , HOH D:2056	BINDING SITE FOR RESIDUE OGA D 902
12	BC3	SOFTWARE	PHE C:458 , GLY D:320 , SER D:321 , ASN D:426 , ARG D:501 , PHE D:505 , HOH D:2050	BINDING SITE FOR RESIDUE EDO D 903

(no "SS Bond" information available for 4CCK)

Asymmetric/Biological Unit

No.	Residues
1	Ala A:211	-	Pro A:212
2	Tyr A:602	-	Pro A:603
3	Ala B:211	-	Pro B:212
4	Tyr B:602	-	Pro B:603
5	Ala C:211	-	Pro C:212
6	Tyr C:602	-	Pro C:603
7	Ala D:211	-	Pro D:212
8	Tyr D:602	-	Pro D:603

Asymmetric/Biological Unit (3, 12)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_057819	F	218	S	RIOX1_HUMAN	Polymorphism	758109	A/B/C/D	F	218	S
2	UniProt	VAR_060191	Q	239	H	RIOX1_HUMAN	Polymorphism	34970526	A/B/C/D	Q	239	H
3	UniProt	VAR_062423	V	364	A	RIOX1_HUMAN	Polymorphism	3813563	A/B/C/D	A	364	A

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	JMJC	PS51184	JmjC domain profile.	RIOX1_HUMAN	294-439	4	A:294-439 B:294-439 C:294-439 D:294-439

(no "Exon" information available for 4CCK)

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:456
 aligned with RIOX1_HUMAN | Q9H6W3 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:458
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631        
          RIOX1_HUMAN   182 DSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRVPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVNVGAQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLA 639
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhh.....eee............hhhhhhhhhhhh.......eeeeeee..eeee.......hhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhh..eeeeeeee..............eeeeeeeee.eeeee....hhhhh.........hhhhh....eeeee....eeee.....eeee......eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh...ee..ee..--.......eeee.....eeeeee..eeeeee.............eeeeehhhhhhhhhhhhhh....ee.hhh...hhhhhhhhhhhhhhh..eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------S--------------------H----------------------------------------------------------------------------------------------------------------------------A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------JMJC  PDB: A:294-439 UniProt: 294-439                                                                                                             -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cck A 182 MSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRAPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVN--AQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLA 639
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531     | 541       551       561       571       581       591       601       611       621       631        
                                                                                                                                                                                                                                                                                                                                                                                             537  |                                                                                                   
                                                                                                                                                                                                                                                                                                                                                                                                540

Chain B from PDB  Type:PROTEIN  Length:456
 aligned with RIOX1_HUMAN | Q9H6W3 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:458
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631        
          RIOX1_HUMAN   182 DSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRVPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVNVGAQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLA 639
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhh.....eee............hhhhhhhhhhhh.......eeeeeee..eeee.......hhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhh...eeeeeee..............eeeeeeeee.eeeee....hhhhh.........hhhhh....eeeee....eeee.....eeee......eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh...ee..ee..--.......eeee.....eeeee....eeeee..............eeeehhhhhhhhhhhhhh....ee.hhh...hhhhhhhhhhhhhhh..eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------S--------------------H----------------------------------------------------------------------------------------------------------------------------A----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------JMJC  PDB: B:294-439 UniProt: 294-439                                                                                                             -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cck B 182 MSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRAPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVN--AQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLA 639
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531     | 541       551       561       571       581       591       601       611       621       631        
                                                                                                                                                                                                                                                                                                                                                                                             537  |                                                                                                   
                                                                                                                                                                                                                                                                                                                                                                                                540

Chain C from PDB  Type:PROTEIN  Length:458
 aligned with RIOX1_HUMAN | Q9H6W3 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:459
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631         
          RIOX1_HUMAN   182 DSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRVPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVNVGAQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLAL 640
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhh.....eee............hhhhhhhhhhhh.......eeeeeee..eeee.......hhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhh...eeeeeee..............eeeeeeeee.eeeeee...hhhhh.........hhhhh....eeeee....eeee....eeeee......eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh...ee..ee...-.......eeee.....eeeee....eeeee..............eee.hhhhhhhhhhhhhh....ee.hhh...hhhhhhhhhhhhhhh..eee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------S--------------------H----------------------------------------------------------------------------------------------------------------------------A------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------JMJC  PDB: C:294-439 UniProt: 294-439                                                                                                             --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cck C 182 MSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRAPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVNV-AQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLAL 640
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531      |541       551       561       571       581       591       601       611       621       631         
                                                                                                                                                                                                                                                                                                                                                                                              538 |                                                                                                    
                                                                                                                                                                                                                                                                                                                                                                                                540

Chain D from PDB  Type:PROTEIN  Length:459
 aligned with RIOX1_HUMAN | Q9H6W3 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:460
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641
          RIOX1_HUMAN   182 DSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRVPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVNVGAQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLALN 641
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh...hhhhhhhhhhhhhhh..hhhhhhhhh.....eee............hhhhhhhhhhhh.......eeeeeee..eeee.......hhhhhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhh..eeeeeeee..............eeeeeeeee.eeeeee...hhhhh.........hhhhh....eeeee....eeee....eeeee......eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh............-.......eeee.....eeeeee..eeeeee..............eee....hhhhhhhhhhhh...ee.hhh...hhhhhhhhhhhhhhh..eee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------S--------------------H----------------------------------------------------------------------------------------------------------------------------A------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------JMJC  PDB: D:294-439 UniProt: 294-439                                                                                                             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cck D 182 MSPLRRVLAELNRIPSSRRRAARLFEWLIAPMPPDHFYRRLWEREAVLVRRQDHTYYQGLFSTADLDSMLRNEEVQFGQHLDAARYINGRRETLNPPGRALPAAAWSLYQAGCSLRLLCPQAFSTTVWQFLAVLQEQFGSMAGSNVYLTPPNSQGFAPHYDDIEAFVLQLEGRKLWRVYRPRAPTEELALTSSPNFSQDDLGEPVLQTVLEPGDLLYFPRGFIHQAECQDGVHSLHLTLSTYQRNTWGDFLEAILPLAVQAAMEENVEFRRGLPRDFMDYMGAQHSDSKDPRRTAFMEKVRVLVARLGHFAPVDAVADQRAKDFIHDSLPPVLTDRERALSVYGLPIRWEAGEPVNV-AQLTTETEVHMLQDGIARLVGEGGHLFLYYTVENSRVYHLEEPKCLEIYPQQADAMELLLGSYPEFVRVGDLPCDSVEDQLSLATTLYDKGLLLTKMPLALN 641
                                   191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531      |541       551       561       571       581       591       601       611       621       631       641
                                                                                                                                                                                                                                                                                                                                                                                              538 |                                                                                                     
                                                                                                                                                                                                                                                                                                                                                                                                540

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 '\|'

(no "SCOP Domain" information available for 4CCK)

(no "CATH Domain" information available for 4CCK)

(no "Pfam Domain" information available for 4CCK)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (RIOX1_HUMAN | Q9H6W3)

molecular function
	GO:0051213	dioxygenase activity	Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
	GO:0051864	histone demethylase activity (H3-K36 specific)	Catalysis of the reaction: histone H3 N6-methyl-L-lysine (position 36) + alpha-ketoglutarate + O2 = succinate + CO2 + formaldehyde + lysine. This reaction is the removal of a methyl group from lysine at position 36 of the histone H3 protein.
	GO:0032453	histone demethylase activity (H3-K4 specific)	Catalysis of the removal of a methyl group from lysine at position 4 of the histone H3 protein.
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0016706	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors	Catalysis of the reaction: A + 2-oxoglutarate + O2 = B + succinate + CO2. This is an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from 2-oxoglutarate and one other donor, and one atom of oxygen is incorporated into each donor.
	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:0070544	histone H3-K36 demethylation	The modification of histone H3 by the removal of a methyl group from lysine at position 36 of the histone.
	GO:0034720	histone H3-K4 demethylation	The modification of histone H3 by the removal of a methyl group from lysine at position 4 of the histone.
	GO:0045668	negative regulation of osteoblast differentiation	Any process that stops, prevents, or reduces the frequency, rate or extent of osteoblast differentiation.
	GO:0045892	negative regulation of transcription, DNA-templated	Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.
cellular component
	GO:0005730	nucleolus	A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
	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/Biological Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Ala A:211 - Pro A:212	[ RasMol ]
		Ala B:211 - Pro B:212	[ RasMol ]
		Ala C:211 - Pro C:212	[ RasMol ]
		Ala D:211 - Pro D:212	[ RasMol ]
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	4cck
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	1.14.11.-
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	1.14.11.27
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	RIOX1_HUMAN \| Q9H6W3
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UniProtKB/Swiss-Prot
	RIOX1_HUMAN \| Q9H6W3	:	4ccj 4ccm 4ccn 4cco 4diq 4e4h 4y33 4y3o 4y4r

2xdv	CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF FLJ14393
4bu2	60S RIBOSOMAL PROTEIN L27A HISTIDINE HYDROXYLASE (MINA53 ) IN COMPLEX WITH NI(II) AND 2-OXOGLUTARATE (2OG)
4bxf	60S RIBOSOMAL PROTEIN L27A HISTIDINE HYDROXYLASE (MINA53 Y209C) IN COMPLEX WITH MN(II), 2-OXOGLUTARATE (2OG) AND 60S RIBOSOMAL PROTEIN L27A (RPL27A G37C) PEPTIDE FRAGMENT
4ccj	60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66) IN APO FORM
4ccm	60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66) IN COMPLEX WITH MN(II), N-OXALYLGLYCINE (NOG) AND 60S RIBOSOMAL PROTEIN L8 (RPL8 G220C) PEPTIDE FRAGMENT ( COMPLEX-1)
4ccn	60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66 L299C/C300S) IN COMPLEX WITH MN(II), N-OXALYLGLYCINE (NOG) AND 60S RIBOSOMAL PROTEIN L8 (RPL8 G220C) PEPTIDE FRAGMENT (COMPLEX-2)
4cco	60S RIBOSOMAL PROTEIN L8 HISTIDINE HYDROXYLASE (NO66 S373C) IN COMPLEX WITH MN(II), N-OXALYLGLYCINE (NOG) AND 60S RIBOSOMAL PROTEIN L8 (RPL8 G214C) PEPTIDE FRAGMENT (COMPLEX-3)
4diq

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 12)

Sites (12, 12)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (3, 12)

PROSITE Motifs (1, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (18, 18)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File