3KVO - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN HYDROXYSTEROID DEHYDROGENASE LIKE 2 (HSDL2)

Authors :   E. Ugochukwu, C. Bhatia, J. Huang, E. Pilka, J. R. C. Muniz, A. C. W. Pike, F. Von Delft, C. H. Arrowsmith, J. Weigelt, A. Edwards, C. Bountra, E. U. Oppermann, K. L. Kavanagh, Structural Genomics Consortium (Sg

Date :   30 Nov 09 (Deposition) - 09 Mar 10 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.25

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A,B  (1x)

Keywords :   Hsdl2, Human Hydroxysteroid Dehydrogenase Like 2, Sdhl2, Structural Genomics, Structural Genomics Consortium, Sgc, Nad, Nadp, Oxidoreductase, Peroxisome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Ugochukwu, C. Bhatia, J. Huang, E. Pilka, J. R. C. Muniz, A. C. W. Pike T. Krojer, F. Von Delft, E. M. Verdin, U. Oppermann, K. L. Kavanagh
Crystal Structure Of The Catalytic Domain Of Human Hydroxysteroid Dehydrogenase Like 2 (Hsdl2)
To Be Published
PubMed: search

Molecule 1 - HYDROXYSTEROID DEHYDROGENASE-LIKE PROTEIN 2
	Chains	:	A, B
	EC Number	:	1.-.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Gene	:	HSDL2
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	NAP	4	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

Biological Unit 1 (1, 2)

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

Biological Unit 2 (1, 2)

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

Biological Unit 3 (1, 4)

No.	Name	Count	Type	Full Name
1	NAP	4	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:17 , SER A:19 , ARG A:20 , GLY A:21 , ILE A:22 , ALA A:41 , LYS A:42 , THR A:43 , VAL A:73 , ASP A:74 , VAL A:75 , ASN A:101 , ALA A:102 , SER A:103 , VAL A:124 , ILE A:151 , TYR A:168 , LYS A:172 , TRP A:196 , ALA A:200 , ILE A:201 , THR A:203 , ALA A:205 , MET A:206 , ASP A:271 , HOH A:317 , HOH A:318 , HOH A:324 , NAP A:502	BINDING SITE FOR RESIDUE NAP A 501
2	AC2	SOFTWARE	LYS A:42 , ARG A:76 , LYS A:116 , ARG A:117 , LEU A:120 , HOH A:322 , NAP A:501 , LYS B:163	BINDING SITE FOR RESIDUE NAP A 502
3	AC3	SOFTWARE	GLY B:17 , SER B:19 , ARG B:20 , GLY B:21 , ILE B:22 , ALA B:41 , LYS B:42 , THR B:43 , VAL B:73 , ASP B:74 , VAL B:75 , ASN B:101 , ALA B:102 , SER B:103 , VAL B:124 , ILE B:151 , LYS B:172 , TRP B:196 , PRO B:197 , ALA B:200 , ILE B:201 , THR B:203 , ALA B:205 , ASP B:271 , HOH B:316 , HOH B:319 , HOH B:332 , NAP B:502	BINDING SITE FOR RESIDUE NAP B 501
4	AC4	SOFTWARE	LYS B:42 , ARG B:76 , ARG B:117 , LEU B:120 , NAP B:501	BINDING SITE FOR RESIDUE NAP B 502

(no "SS Bond" information available for 3KVO)

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

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_SHORT	PS00061	Short-chain dehydrogenases/reductases family signature.	HSDL2_HUMAN	155-183	2	A:155-183 B:155-183

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_SHORT	PS00061	Short-chain dehydrogenases/reductases family signature.	HSDL2_HUMAN	155-183	1	A:155-183 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_SHORT	PS00061	Short-chain dehydrogenases/reductases family signature.	HSDL2_HUMAN	155-183	1	- B:155-183

Biological Unit 3 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADH_SHORT	PS00061	Short-chain dehydrogenases/reductases family signature.	HSDL2_HUMAN	155-183	2	A:155-183 B:155-183

(no "Exon" information available for 3KVO)

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:273
 aligned with HSDL2_HUMAN | Q6YN16 from UniProtKB/Swiss-Prot  Length:418

    Alignment length:275
                                    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     
          HSDL2_HUMAN     1 MLPNTGRLAGCTVFITGASRGIGKAIALKAAKDGANIVIAAKTAQPHPKLLGTIYTAAEEIEAVGGKALPCIVDVRDEQQISAAVEKAIKKFGGIDILVNNASAISLTNTLDTPTKRLDLMMNVNTRGTYLASKACIPYLKKSKVAHILNISPPLNLNPVWFKQHCAYTIAKYGMSMYVLGMAEEFKGEIAVNALWPKTAIHTAAMDMLGGPGIESQCRKVDIIADAAYSIFQKPKSFTGNFVIDENILKEEGIENFDVYAIKPGHPLQPDFFLD 275
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee...hhhhhhhhhhhhh...eeeeee...........hhhhhhhhhhhh..eeeeee....hhhhhhhhhhhhhhhhh...eeee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeee......hhhhh..hhhhhhhhhhhhhhhhhhhhhh....eeeeee......hhhhhhhh--.hhhhh..hhhhhhhhhhhhh........eeehhhhhhhh...hhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------ADH_SHORT  PDB: A:155-183    -------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kvo A   1 MLPNTGRLAGCTVFITGASRGIGKAIALKAAKDGANIVIAAKTAQPHPKLLGTIYTAAEEIEAVGGKALPCIVDVRDEQQISAAVEKAIKKFGGIDILVNNASAISLTNTLDTPTKRLDLMMNVNTRGTYLASKACIPYLKKSKVAHILNISPPLNLNPVWFKQHCAYTIAKYGMSMYVLGMAEEFKGEIAVNALWPKTAIHTAAMDMLG--GIESQCRKVDIIADAAYSIFQKPKSFTGNFVIDENILKEEGIENFDVYAIKPGHPLQPDFFLD 275
                                    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     
                                                                                                                                                                                                                                           210  |                                                              
                                                                                                                                                                                                                                              213

Chain B from PDB  Type:PROTEIN  Length:276
 aligned with HSDL2_HUMAN | Q6YN16 from UniProtKB/Swiss-Prot  Length:418

    Alignment length:276
                                    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      
          HSDL2_HUMAN     1 MLPNTGRLAGCTVFITGASRGIGKAIALKAAKDGANIVIAAKTAQPHPKLLGTIYTAAEEIEAVGGKALPCIVDVRDEQQISAAVEKAIKKFGGIDILVNNASAISLTNTLDTPTKRLDLMMNVNTRGTYLASKACIPYLKKSKVAHILNISPPLNLNPVWFKQHCAYTIAKYGMSMYVLGMAEEFKGEIAVNALWPKTAIHTAAMDMLGGPGIESQCRKVDIIADAAYSIFQKPKSFTGNFVIDENILKEEGIENFDVYAIKPGHPLQPDFFLDE 276
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ----------adh_short-3kvoB01 B:11-187                                                                                                                                                       ----------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------adh_short-3kvoB02 B:11-187                                                                                                                                                       ----------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...........eeeee...hhhhhhhhhhhhh...eeeeee...........hhhhhhhhhhhhh.eeeeee....hhhhhhhhhhhhhhhhh...eeee.............hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee......hhhhhhhhh.hhhhhh.hhhhhhhhhhhhhh........eeehhhhhhhh...hhhhhh............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------ADH_SHORT  PDB: B:155-183    --------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3kvo B   1 MLPNTGRLAGCTVFITGASRGIGKAIALKAAKDGANIVIAAKTAQPHPKLLGTIYTAAEEIEAVGGKALPCIVDVRDEQQISAAVEKAIKKFGGIDILVNNASAISLTNTLDTPTKRLDLMMNVNTRGTYLASKACIPYLKKSKVAHILNISPPLNLNPVWFKQHCAYTIAKYGMSMYVLGMAEEFKGEIAVNALWPKTAIHTAAMDMLGGPGIESQCRKVDIIADAAYSIFQKPKSFTGNFVIDENILKEEGIENFDVYAIKPGHPLQPDFFLDE 276
                                    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

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 3KVO)

(no "CATH Domain" information available for 3KVO)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: NADP_Rossmann (1239)

Family: adh_short (92)

Homo sapiens (Human) (21)

1a	adh_short-3kvoB01	B:11-187
1b	adh_short-3kvoB02	B:11-187

Asymmetric Unit(hide GO term definitions)

Chain A,B (HSDL2_HUMAN | Q6YN16)

molecular function
	GO:0003674	molecular_function	Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
	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:0008150	biological_process	Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
	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.
cellular component
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	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:0005777	peroxisome	A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.

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3e03	CRYSTAL STRUCTURE OF A PUTATIVE DEHYDROGENASE FROM XANTHOMONAS CAMPESTRIS

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