1GET - JenaLib

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Asym./Biol. Unit (Jmol Viewer)

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

Title :   ANATOMY OF AN ENGINEERED NAD-BINDING SITE

Authors :   P. R. E. Mittl, G. E. Schulz

Date :   18 Jan 94 (Deposition) - 01 Nov 94 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Oxidoreductase(Flavoenzyme) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. R. Mittl, A. Berry, N. S. Scrutton, R. N. Perham, G. E. Schulz
Anatomy Of An Engineered Nad-Binding Site.
Protein Sci. V. 3 1504 1994
PubMed-ID: 7833810
(for further references see the PDB file header)

Molecule 1 - GLUTATHIONE REDUCTASE
	Chains	:	A, B
	EC Number	:	1.6.4.2
	Engineered	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

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

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:10 , GLY A:11 , GLY A:13 , SER A:14 , GLY A:15 , GLU A:34 , ALA A:35 , GLY A:40 , THR A:41 , CYS A:42 , VAL A:45 , GLY A:46 , CYS A:47 , LYS A:50 , GLY A:113 , PHE A:114 , ALA A:115 , ALA A:138 , THR A:139 , GLY A:140 , ARG A:263 , ILE A:270 , GLY A:302 , ASP A:303 , GLU A:309 , LEU A:310 , THR A:311 , PRO A:312 , NAP A:452 , HOH A:457 , HOH A:460 , HOH A:478 , HOH A:500 , HOH A:547 , HOH A:570 , HOH A:629 , HIS B:439 , PRO B:440	BINDING SITE FOR RESIDUE FAD A 451
2	AC2	SOFTWARE	VAL A:173 , ALA A:175 , GLY A:176 , TYR A:177 , ILE A:178 , GLU A:181 , ARG A:198 , ARG A:204 , ILE A:261 , GLY A:262 , GLU A:309 , LEU A:310 , THR A:341 , VAL A:342 , FAD A:451 , HOH A:469 , HOH A:480 , HOH A:482 , HOH A:502 , HOH A:518 , HOH A:534 , HOH A:536	BINDING SITE FOR RESIDUE NAP A 452
3	AC3	SOFTWARE	HIS A:439 , PRO A:440 , HOH A:453 , ILE B:10 , GLY B:11 , GLY B:13 , SER B:14 , GLY B:15 , GLU B:34 , ALA B:35 , LYS B:36 , GLY B:40 , THR B:41 , CYS B:42 , VAL B:45 , GLY B:46 , CYS B:47 , LYS B:50 , GLY B:113 , PHE B:114 , ALA B:115 , ALA B:138 , THR B:139 , GLY B:140 , ILE B:178 , ARG B:263 , ILE B:270 , GLY B:302 , ASP B:303 , GLU B:309 , LEU B:310 , THR B:311 , PRO B:312 , NAP B:452 , HOH B:457 , HOH B:459 , HOH B:462 , HOH B:535 , HOH B:580	BINDING SITE FOR RESIDUE FAD B 451
4	AC4	SOFTWARE	VAL B:173 , ALA B:175 , GLY B:176 , TYR B:177 , ILE B:178 , GLU B:181 , ARG B:198 , ARG B:204 , ILE B:261 , GLY B:262 , GLU B:309 , LEU B:310 , VAL B:342 , FAD B:451 , HOH B:463 , HOH B:464 , HOH B:468 , HOH B:471 , HOH B:539 , HOH B:557 , HOH B:559 , HOH B:564 , HOH B:646 , HOH B:677 , HOH B:686	BINDING SITE FOR RESIDUE NAP B 452

(no "SS Bond" information available for 1GET)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:222	-	Pro A:223
2	His A:346	-	Pro A:347
3	His A:439	-	Pro A:440
4	Gly B:222	-	Pro B:223
5	His B:346	-	Pro B:347
6	His B:439	-	Pro B:440

(no "SAP(SNP)/Variant" information available for 1GET)

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PYRIDINE_REDOX_1	PS00076	Pyridine nucleotide-disulphide oxidoreductases class-I active site.	GSHR_ECOLI	39-49	2	A:39-49 B:39-49

(no "Exon" information available for 1GET)

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:448
 aligned with GSHR_ECOLI | P06715 from UniProtKB/Swiss-Prot  Length:450

    Alignment length:448
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442        
           GSHR_ECOLI     3 KHYDYIAIGGGSGGIASINRAAMYGQKCALIEAKELGGTCVNVGCVPKKVMWHAAQIREAIHMYGPDYGFDTTINKFNWETLIASRTAYIDRIHTSYENVLGKNNVDVIKGFARFVDAKTLEVNGETITADHILIATGGRPSHPDIPGVEYGIDSDGFFALPALPERVAVVGAGYIAVELAGVINGLGAKTHLFVRKHAPLRSFDPMISETLVEVMNAEGPQLHTNAIPKAVVKNTDGSLTLELEDGRSETVDCLIWAIGREPANDNINLEAAGVKTNEKGYIVVDKYQNTNIEGIYAVGDNTGAVELTPVAVAAGRRLSERLFNNKPDEHLDYSNIPTVVFSHPPIGTVGLTEPQAREQYGDDQVKVYKSSFTAMYTAVTTHRQPCRMKLVCVGSEEKIVGIHGIGFGMDEMLQGFAVALKMGATKKDFDNTVAIHPTAAEEFVTMR 450
               SCOP domains d1geta1 A:3-146,A:263-335 Glutathione reductase                                                                                                 d1geta2 A:147-262 Glutathione reductase                                                                             d1geta1 A:3-146,A:263-335 Glutathione reductase                          d1geta3 A:336-450 Glutathione reductase                                                                             SCOP domains
               CATH domains 1getA01 A:3-143,A:262-337  [code=3.50.50.60, no name defined]                                                                                1getA02 A:144-261  [code=3.50.50.60, no name defined]                                                                 1getA01 A:3-143,A:262-337  [code=3.50.50.60, no name defined]               1getA03 A:338-450  [code=3.30.390.30, no name defined]                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author eeeeeeeee..hhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhh...eeeee..eeee..eeee..eeee..eeeee.eeeee............hhhhh......eeeeee...hhhhhhhhhhhh...eeeeee..........hhhhhhhhhhhhhh..eee.....eeeeee...eeeeee...eeeeeeeeeee.eeeee.....hhhh.....................eee...........hhhhhhhhhhhhhhhh..............eee....eeeeeee.hhhhhhhh.....eeeeeee..hhhh.......eeeeeeee....eeeeeeeee..hhhhhhhhhhhhh....hhhhh................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------PYRIDINE_RE----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1get A   3 KHYDYIAIGGGSGGIASINRAAMYGQKCALIEAKELGGTCVNVGCVPKKVMWHAAQIREAIHMYGPDYGFDTTINKFNWETLIASRTAYIDRIHTSYENVLGKNNVDVIKGFARFVDAKTLEVNGETITADHILIATGGRPSHPDIPGVEYGIDSDGFFALPALPERVAVVGAGYIAVELAGVINGLGAKTHLFVRKHAPLRSFDPMISETLVEVMNAEGPQLHTNAIPKAVVKNTDGSLTLELEDGRSETVDCLIWAIGREPANDNINLEAAGVKTNEKGYIVVDKYQNTNIEGIYAVGDNTGAVELTPVAVAAGRRLSERLFNNKPDEHLDYSNIPTVVFSHPPIGTVGLTEPQAREQYGDDQVKVYKSSFTAMYTAVTTHRQPCRMKLVCVGSEEKIVGIHGIGFGMDEMLQGFAVALKMGATKKDFDNTVAIHPTAAEEFVTMR 450
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442

Chain B from PDB  Type:PROTEIN  Length:449
 aligned with GSHR_ECOLI | P06715 from UniProtKB/Swiss-Prot  Length:450

    Alignment length:449
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       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         
           GSHR_ECOLI     2 TKHYDYIAIGGGSGGIASINRAAMYGQKCALIEAKELGGTCVNVGCVPKKVMWHAAQIREAIHMYGPDYGFDTTINKFNWETLIASRTAYIDRIHTSYENVLGKNNVDVIKGFARFVDAKTLEVNGETITADHILIATGGRPSHPDIPGVEYGIDSDGFFALPALPERVAVVGAGYIAVELAGVINGLGAKTHLFVRKHAPLRSFDPMISETLVEVMNAEGPQLHTNAIPKAVVKNTDGSLTLELEDGRSETVDCLIWAIGREPANDNINLEAAGVKTNEKGYIVVDKYQNTNIEGIYAVGDNTGAVELTPVAVAAGRRLSERLFNNKPDEHLDYSNIPTVVFSHPPIGTVGLTEPQAREQYGDDQVKVYKSSFTAMYTAVTTHRQPCRMKLVCVGSEEKIVGIHGIGFGMDEMLQGFAVALKMGATKKDFDNTVAIHPTAAEEFVTMR 450
               SCOP domains d1getb1 B:2-146,B:263-335 Glutathione reductase                                                                                                  d1getb2 B:147-262 Glutathione reductase                                                                             d1getb1 B:2-146,B:263-335 Glutathione reductase                          d1getb3 B:336-450 Glutathione reductase                                                                             SCOP domains
               CATH domains 1getB01 B:2-143,B:262-337  [code=3.50.50.60, no name defined]                                                                                 1getB02 B:144-261  [code=3.50.50.60, no name defined]                                                                 1getB01 B:2-143,B:262-337  [code=3.50.50.60, no name defined]               1getB03 B:338-450  [code=3.30.390.30, no name defined]                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee..hhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhh...eeeee..eeee..eeee..eeee..eeeee.eeeee............hhhhh......eeeeee...hhhhhhhhhhhh...eeeeee..........hhhhhhhhhhhhhh..eee.....eeeeee...eeeeee...eeeeeeeeeee.eeeee.....hhhh.....................eee...........hhhhhhhhhhhhhhhh..............eee....eeeeeee.hhhhhhhh.....eeeeeee..hhhh.......eeeeeeee....eeeeeeeee..hhhhhhhhhhhhh....hhhhh................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------PYRIDINE_RE----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1get B   2 TKHYDYIAIGGGSGGIASINRAAMYGQKCALIEAKELGGTCVNVGCVPKKVMWHAAQIREAIHMYGPDYGFDTTINKFNWETLIASRTAYIDRIHTSYENVLGKNNVDVIKGFARFVDAKTLEVNGETITADHILIATGGRPSHPDIPGVEYGIDSDGFFALPALPERVAVVGAGYIAVELAGVINGLGAKTHLFVRKHAPLRSFDPMISETLVEVMNAEGPQLHTNAIPKAVVKNTDGSLTLELEDGRSETVDCLIWAIGREPANDNINLEAAGVKTNEKGYIVVDKYQNTNIEGIYAVGDNTGAVELTPVAVAAGRRLSERLFNNKPDEHLDYSNIPTVVFSHPPIGTVGLTEPQAREQYGDDQVKVYKSSFTAMYTAVTTHRQPCRMKLVCVGSEEKIVGIHGIGFGMDEMLQGFAVALKMGATKKDFDNTVAIHPTAAEEFVTMR 450
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       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

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Enolase-like; domain 1 (252)

Homologous Superfamily: [code=3.30.390.30, no name defined] (99)

Escherichia coli. Organism_taxid: 562 (4)

1a	1getA03	A:338-450
1b	1getB03	B:338-450

Architecture: 3-Layer(bba) Sandwich (528)

Topology: FAD/NAD(P)-binding domain (373)

Homologous Superfamily: [code=3.50.50.60, no name defined] (373)

Escherichia coli. Organism_taxid: 562 (7)

2a	1getA01	A:3-143,A:262-337
2b	1getA02	A:144-261
2c	1getB02	B:144-261
2d	1getB01	B:2-143,B:262-337

(no "Pfam Domain" information available for 1GET)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (GSHR_ECOLI | P06715)

molecular function
	GO:0071949	FAD binding	Interacting selectively and non-covalently with the oxidized form, FAD, of flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0050661	NADP binding	Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0004362	glutathione-disulfide reductase activity	Catalysis of the reaction: 2 glutathione + NADP+ = glutathione disulfide + 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.
	GO:0016668	oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which a sulfur-containing group acts as a hydrogen or electron donor and reduces NAD or NADP.
biological process
	GO:0045454	cell redox homeostasis	Any process that maintains the redox environment of a cell or compartment within a cell.
	GO:0098869	cellular oxidant detoxification	Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
	GO:0006749	glutathione metabolic process	The chemical reactions and pathways involving glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins; it has a specific role in the reduction of hydrogen peroxide (H2O2) and oxidized ascorbate, and it participates in the gamma-glutamyl cycle.
	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:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Gly A:222 - Pro A:223	[ RasMol ]
		Gly B:222 - Pro B:223	[ RasMol ]
		His A:346 - Pro A:347	[ RasMol ]
		His A:439 - Pro A:440	[ RasMol ]
		His B:346 - Pro B:347	[ RasMol ]
		His B:439 - Pro B:440	[ RasMol ]

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Description

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Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (6, 6)

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