4TTC - JenaLib

Title :   CRYSTAL STRUCTURE OF HOMO SAPIENS IODOTYROSINE DEIODINASE BOUND TO FMN AND MONO-IODOTYROSINE (MIT)

Authors :   W. Chuenchor, J. Hu, S. Rokita

Date :   20 Jun 14 (Deposition) - 26 Nov 14 (Release) - 14 Jan 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.65

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Oxidoreductase, Flavoprotein, Membrane, Transmembrane, Dehalogenase, Iodide Salvage, Mono-Iodotyrosine, Mit (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Hu, W. Chuenchor, S. E. Rokita
A Switch Between One- And Two-Electron Chemistry Of The Human Flavoprotein Iodotyrosine Deiodinase Is Controlled By Substrate.
J. Biol. Chem. V. 290 590 2015
PubMed-ID: 25395621 | Reference-DOI: 10.1074/JBC.M114.605964

Compounds

Molecule 1 - IODOTYROSINE DEHALOGENASE 1
	Chains	:	A, B, C, D, E, F
	EC Number	:	1.22.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28-SUMO
	Expression System Strain	:	ROSETTA 2(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 32-289
	Gene	:	IYD, C6ORF71, DEHAL1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	IYD-1

Structural Features

Chains, Units

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:					E	F

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 12)

Asymmetric Unit (2, 12)

No.	Name	Count	Type	Full Name
1	FMN	6	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	IYR	6	Ligand/Ion	3-IODO-TYROSINE

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	IYR	2	Ligand/Ion	3-IODO-TYROSINE

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	IYR	2	Ligand/Ion	3-IODO-TYROSINE

Biological Unit 3 (2, 4)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	IYR	2	Ligand/Ion	3-IODO-TYROSINE

Sites (12, 12)

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:100 , ARG A:101 , SER A:102 , ARG A:104 , LEU A:176 , THR A:178 , THR A:237 , THR A:238 , THR A:239 , ARG A:279 , IYR A:302 , HOH A:425 , HOH A:426 , HOH A:427 , PRO B:127 , SER B:128 , GLY B:129 , HIS B:131 , TYR B:212 , ILE B:215 , SER B:216	binding site for residue FMN A 301
02	AC2	SOFTWARE	GLU A:157 , TYR A:161 , LEU A:173 , LEU A:176 , THR A:178 , ASN A:179 , LYS A:182 , FMN A:301 , HOH A:437 , ALA B:130	binding site for residue IYR A 302
03	AC3	SOFTWARE	PRO A:127 , SER A:128 , GLY A:129 , TYR A:212 , SER A:216 , ARG B:100 , ARG B:101 , SER B:102 , ARG B:104 , LEU B:176 , VAL B:236 , THR B:237 , THR B:238 , THR B:239 , LEU B:277 , ARG B:279 , IYR B:302 , HOH B:404 , HOH B:413 , HOH B:424	binding site for residue FMN B 301
04	AC4	SOFTWARE	ALA A:130 , GLU B:157 , TYR B:161 , LEU B:173 , LEU B:176 , THR B:178 , ASN B:179 , LYS B:182 , FMN B:301 , HOH B:435	binding site for residue IYR B 302
05	AC5	SOFTWARE	ARG C:100 , ARG C:101 , SER C:102 , ARG C:104 , LEU C:176 , THR C:178 , VAL C:236 , THR C:237 , THR C:238 , THR C:239 , ARG C:279 , IYR C:302 , HOH C:409 , HOH C:411 , HOH C:415 , HOH C:416 , PRO D:127 , SER D:128 , GLY D:129 , TYR D:212 , SER D:216	binding site for residue FMN C 301
06	AC6	SOFTWARE	GLU C:157 , TYR C:161 , TRP C:169 , LEU C:173 , LEU C:176 , THR C:178 , LYS C:182 , FMN C:301 , ALA D:130 , TYR D:211	binding site for residue IYR C 302
07	AC7	SOFTWARE	PRO C:127 , SER C:128 , GLY C:129 , HIS C:131 , TYR C:212 , SER C:216 , ARG D:100 , ARG D:101 , SER D:102 , ARG D:104 , LEU D:176 , VAL D:236 , THR D:237 , THR D:238 , THR D:239 , ARG D:279 , IYR D:302 , HOH D:410 , HOH D:416	binding site for residue FMN D 301
08	AC8	SOFTWARE	ALA C:130 , GLU D:157 , TYR D:161 , LEU D:173 , LEU D:176 , ASN D:179 , LYS D:182 , THR D:239 , FMN D:301 , HOH D:412	binding site for residue IYR D 302
09	AC9	SOFTWARE	ARG E:100 , ARG E:101 , SER E:102 , ARG E:104 , LEU E:176 , THR E:178 , VAL E:236 , THR E:237 , THR E:238 , THR E:239 , ARG E:279 , IYR E:302 , HOH E:406 , HOH E:410 , HOH E:420 , PRO F:127 , SER F:128 , GLY F:129 , HIS F:131 , TYR F:212 , SER F:216 , HOH F:405	binding site for residue FMN E 301
10	AD1	SOFTWARE	GLU E:157 , TYR E:161 , LEU E:173 , LEU E:176 , THR E:178 , ASN E:179 , LYS E:182 , THR E:239 , FMN E:301 , ALA F:130	binding site for residue IYR E 302
11	AD2	SOFTWARE	PRO E:127 , SER E:128 , GLY E:129 , TYR E:212 , ILE E:215 , SER E:216 , ARG F:100 , ARG F:101 , SER F:102 , ARG F:104 , LEU F:176 , THR F:178 , VAL F:236 , THR F:237 , THR F:238 , THR F:239 , ARG F:279 , IYR F:302 , HOH F:404 , HOH F:406 , HOH F:409	binding site for residue FMN F 301
12	AD3	SOFTWARE	ALA E:130 , GLU F:157 , TYR F:161 , LEU F:173 , LEU F:176 , THR F:178 , ASN F:179 , LYS F:182 , FMN F:301	binding site for residue IYR F 302

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.eee..hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh...hhhhh..eeeeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhh.eeeeeeee.eee.....eee..hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.....eeeeeeeee.......eee.....hhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ttc A  71 VEHIPFSHNHYPEKEMVKRSQEFYELLNKRRSVRFISNEQVPMEVIDNVIRTAGTAPSGAHTEPWTFVVVKDPDVKHKIRKIIEEEEEINYMKRMGHRWVTDLKKLRTNWIKEYLDTAPILILIFKQVHGFAANGKKKVHYYNEISVSIACGILLAALQNAGLVTVTTTPLNCGPRLRVLLGRPAHEKLLMLLPVGYPSKEATVPDLKRKPLDQIMVTVH 290
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain B from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee......hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh...hhhhh..eeeeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhh.eeeeeeee.eee.....eee..hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.....eeeeeeeee.......eee.....hhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ttc B  71 VEHIPFSHNHYPEKEMVKRSQEFYELLNKRRSVRFISNEQVPMEVIDNVIRTAGTAPSGAHTEPWTFVVVKDPDVKHKIRKIIEEEEEINYMKRMGHRWVTDLKKLRTNWIKEYLDTAPILILIFKQVHGFAANGKKKVHYYNEISVSIACGILLAALQNAGLVTVTTTPLNCGPRLRVLLGRPAHEKLLMLLPVGYPSKEATVPDLKRKPLDQIMVTVH 290
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain C from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee......hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh..........eeeeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhh.eeeeeeee.eee.....eee..hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.....eeeeeeeee.......eee.....hhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ttc C  71 VEHIPFSHNHYPEKEMVKRSQEFYELLNKRRSVRFISNEQVPMEVIDNVIRTAGTAPSGAHTEPWTFVVVKDPDVKHKIRKIIEEEEEINYMKRMGHRWVTDLKKLRTNWIKEYLDTAPILILIFKQVHGFAANGKKKVHYYNEISVSIACGILLAALQNAGLVTVTTTPLNCGPRLRVLLGRPAHEKLLMLLPVGYPSKEATVPDLKRKPLDQIMVTVH 290
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain D from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.eee..hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh...hhhhh..eeeeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhh.eeeeeeee.eee.....eee..hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.....eeeeeeeee.......eee.....hhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ttc D  71 VEHIPFSHNHYPEKEMVKRSQEFYELLNKRRSVRFISNEQVPMEVIDNVIRTAGTAPSGAHTEPWTFVVVKDPDVKHKIRKIIEEEEEINYMKRMGHRWVTDLKKLRTNWIKEYLDTAPILILIFKQVHGFAANGKKKVHYYNEISVSIACGILLAALQNAGLVTVTTTPLNCGPRLRVLLGRPAHEKLLMLLPVGYPSKEATVPDLKRKPLDQIMVTVH 290
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain E from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee......hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh...hhhhh..eeeeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhh.eeeeeeee.eee.....eee..hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.....eeeeeeeee.......eee.....hhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ttc E  71 VEHIPFSHNHYPEKEMVKRSQEFYELLNKRRSVRFISNEQVPMEVIDNVIRTAGTAPSGAHTEPWTFVVVKDPDVKHKIRKIIEEEEEINYMKRMGHRWVTDLKKLRTNWIKEYLDTAPILILIFKQVHGFAANGKKKVHYYNEISVSIACGILLAALQNAGLVTVTTTPLNCGPRLRVLLGRPAHEKLLMLLPVGYPSKEATVPDLKRKPLDQIMVTVH 290
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

Chain F from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee......hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh..........eeeeee.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh.....hhhhhh.eeeeeeee.eee.....eee..hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.....eeeeeeeee.......eee.....hhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ttc F  71 VEHIPFSHNHYPEKEMVKRSQEFYELLNKRRSVRFISNEQVPMEVIDNVIRTAGTAPSGAHTEPWTFVVVKDPDVKHKIRKIIEEEEEINYMKRMGHRWVTDLKKLRTNWIKEYLDTAPILILIFKQVHGFAANGKKKVHYYNEISVSIACGILLAALQNAGLVTVTTTPLNCGPRLRVLLGRPAHEKLLMLLPVGYPSKEATVPDLKRKPLDQIMVTVH 290
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290

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	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 (9, 9)

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