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Title :   CRYSTAL STRUCTURE OF HUMAN CARBONYL REDUCTASE 3, COMPLEXED WITH NADP+

Authors :   E. S. Pilka, Structural Genomics Consortium (Sgc)

Date :   20 Jul 06 (Deposition) - 08 Aug 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym./Biol. Unit : A

Keywords :   Retinol, Dehydrogenase, Peroxisome, Structural Genomics, Short-Chain Dehydrogenase/Reductase, Structural Genomics Consortium, Sgc, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. S. Pilka, A. Rojkova, K. L. Kavanagh, F. Niesen, M. Sundstrom, C. Arrowsmith, J. Weigelt, A. Edwards, U. Oppermann
Crystal Structure Of Human Carbonyl Reductase 3, Complexed With Nadp+
To Be Published
PubMed: search

Molecule 1 - CARBONYL REDUCTASE [NADPH] 3
	Chains	:	A
	EC Number	:	1.1.1.184
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-SGC
	Expression System Strain	:	BL21-R3
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 4-277
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	NADPH-DEPENDENT CARBONYL REDUCTASE 3

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	NAP	1	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:12 , ASN A:14 , ARG A:15 , GLY A:16 , ILE A:17 , ARG A:38 , ARG A:42 , LEU A:62 , ASP A:63 , ILE A:64 , ASP A:65 , ASN A:90 , ALA A:91 , ALA A:92 , ILE A:138 , SER A:139 , TYR A:194 , LYS A:198 , PRO A:228 , GLY A:229 , VAL A:231 , ASP A:239 , GOL A:2001 , HOH A:2006 , HOH A:2012 , HOH A:2017 , HOH A:2036 , HOH A:2060 , HOH A:2076 , HOH A:2139 , HOH A:2169	BINDING SITE FOR RESIDUE NAP A 1001
2	AC2	SOFTWARE	ALA A:92 , VAL A:93 , ALA A:94 , TYR A:194 , NAP A:1001 , HOH A:2169	BINDING SITE FOR RESIDUE GOL A 2001
3	AC3	SOFTWARE	HIS A:159 , ARG A:206 , ASN A:276 , TRP A:277 , HOH A:2130 , HOH A:2135 , HOH A:2219	BINDING SITE FOR RESIDUE GOL A 2002
4	AC4	SOFTWARE	ARG A:38 , ASP A:39 , VAL A:40 , ALA A:41 , ARG A:78 , GLY A:82 , PRO A:127 , ILE A:128 , HOH A:2030 , HOH A:2108	BINDING SITE FOR RESIDUE GOL A 2003

(no "SS Bond" information available for 2HRB)

(no "Cis Peptide Bond" information available for 2HRB)

Asymmetric/Biological Unit (5, 5)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_033869	L	84	V	CBR3_HUMAN	Polymorphism	9282628	A	L	84	V
2	UniProt	VAR_033870	V	93	I	CBR3_HUMAN	Polymorphism	2835285	A	V	93	I
3	UniProt	VAR_033871	P	131	S	CBR3_HUMAN	Polymorphism	16993929	A	P	131	S
4	UniProt	VAR_033872	M	235	L	CBR3_HUMAN	Polymorphism	4987121	A	M	235	L
5	UniProt	VAR_033873	V	244	M	CBR3_HUMAN	Polymorphism	1056892	A	V	244	M

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

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_SHORT	PS00061	Short-chain dehydrogenases/reductases family signature.	CBR3_HUMAN	181-209	1	A:181-209

Asymmetric/Biological Unit (3, 3)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000290354	1	ENSE00001044175	chr21:37507210-37507779	570	CBR3_HUMAN	1-97	97	1	A:5-97	93
1.2	ENST00000290354	2	ENSE00001044173	chr21:37510123-37510230	108	CBR3_HUMAN	97-133	37	1	A:97-133	37
1.3	ENST00000290354	3	ENSE00001044176	chr21:37518374-37518864	491	CBR3_HUMAN	133-277	145	1	A:133-277	145

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:273
 aligned with CBR3_HUMAN | O75828 from UniProtKB/Swiss-Prot  Length:277

    Alignment length:273
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274   
           CBR3_HUMAN     5 SRVALVTGANRGIGLAIARELCRQFSGDVVLTARDVARGQAAVQQLQAEGLSPRFHQLDIDDLQSIRALRDFLRKEYGGLNVLVNNAAVAFKSDDPMPFDIKAEMTLKTNFFATRNMCNELLPIMKPHGRVVNISSLQCLRAFENCSEDLQERFHSETLTEGDLVDLMKKFVEDTKNEVHEREGWPNSPYGVSKLGVTVLSRILARRLDEKRKADRILVNACCPGPVKTDMDGKDSIRTVEEGAETPVYLALLPPDATEPQGQLVHDKVVQNW 277
               SCOP domains d2hrba_ A: automated matches                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 2hrbA00 A:5-277 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....hhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhh....eeee....hhhhhhhhhhhhhhhhh.eeeeee............hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeee..hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee............hhhhhhhhhhhhhhhhh...........eee..eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------V--------I-------------------------------------S-------------------------------------------------------------------------------------------------------L--------M--------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ADH_SHORT  PDB: A:181-209    -------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: A:5-97 UniProt: 1-97 [INCOMPLETE]                                             -----------------------------------Exon 1.3  PDB: A:133-277 UniProt: 133-277                                                                                                         Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------------------------------------------Exon 1.2  PDB: A:97-133              ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript 1 (2)
                 2hrb A   5 SRVALVTGANRGIGLAIARELCRQFSGDVVLTARDVARGQAAVQQLQAEGLSPRFHQLDIDDLQSIRALRDFLRKEYGGLNVLVNNAAVAFKSDDPMPFDIKAEMTLKTNFFATRNMCNELLPIMKPHGRVVNISSLQCLRAFENCSEDLQERFHSETLTEGDLVDLMKKFVEDTKNEVHEREGWPNSPYGVSKLGVTVLSRILARRLDEKRKADRILVNACCPGPVKTDMDGKDSIRTVEEGAETPVYLALLPPDATEPQGQLVHDKVVQNW 277
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: NAD(P)-binding Rossmann-fold domains (1604)

Superfamily: NAD(P)-binding Rossmann-fold domains (1604)

Family: Tyrosine-dependent oxidoreductases (503)

Protein domain: automated matches (114)

Human (Homo sapiens) [TaxId: 9606] (8)

d2hrba_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: NAD(P)-binding Rossmann-like Domain (1244)

Human (Homo sapiens) (188)

2hrbA00

A:5-277

(no "Pfam Domain" information available for 2HRB)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CBR3_HUMAN | O75828)

molecular function
	GO:0000253	3-keto sterol reductase activity	Catalysis of the reaction: a 3-beta-hydroxyl sterol + NADP+ = a 3-keto sterol + NADPH + H(+).
	GO:0070402	NADPH binding	Interacting selectively and non-covalently with the reduced form, NADPH, of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions.
	GO:0004090	carbonyl reductase (NADPH) activity	Catalysis of the reaction: R-CHOH-R' + NADP+ = R-CO-R' + NADPH + H+.
	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.
biological process
	GO:0050890	cognition	The operation of the mind by which an organism becomes aware of objects of thought or perception; it includes the mental activities associated with thinking, learning, and memory.
	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:0042376	phylloquinone catabolic process	The chemical reactions and pathways resulting in the breakdown of phylloquinone, vitamin K1, a quinone-derived compound synthesized by green plants.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	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:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.

Asymmetric/Biological Unit
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