4GKV - JenaLib

Title :   STRUCTURE OF ESCHERICHIA COLI ADHP (ETHANOL-INDUCIBLE DEHYDROGENASE) WITH BOUND NAD

Authors :   P. A. Sims, L. M. Thomas, A. R. Harper, W. A. Miner, H. O. Ajufo, K. M. Brans L. Kao

Date :   13 Aug 12 (Deposition) - 10 Jul 13 (Release) - 17 Jul 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.01

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

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

Reference :   L. M. Thomas, A. R. Harper, W. A. Miner, H. O. Ajufo, K. M. Branscum, L. Kao, P. A. Sims
Structure Of Escherichia Coli Adhp (Ethanol-Inducible Dehydrogenase) With Bound Nad.
Acta Crystallogr. , Sect. F V. 69 730 2013
PubMed-ID: 23832197 | Reference-DOI: 10.1107/S1744309113015170

Compounds

Molecule 1 - ALCOHOL DEHYDROGENASE, PROPANOL-PREFERRING
	Chains	:	A, B, C, D
	EC Number	:	1.1.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET101/D-TOPO
	Expression System Strain	:	BL21 STAR(DE3)
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	ADHP, YDDN, B1478, JW1474
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	83333
	Strain	:	K-12 (SUBSTRAIN MG1655)

Molecule 2 - CLEAVED PEPTIDE FRAGMENT CORRESPONDING TO THE C-TERMINAL HIS TAG
	Chains	:	P
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

Structural Features

Chains, Units

		1	2	3	4	5
Asymmetric/Biological Unit	:	A	B	C	D	P

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (3, 14)

Asymmetric/Biological Unit (3, 14)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	NAD	4	Ligand/Ion	NICOTINAMIDE-ADENINE-DINUCLEOTIDE
3	ZN	8	Ligand/Ion	ZINC ION

Sites (15, 15)

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	CYS A:37 , HIS A:38 , THR A:39 , HIS A:42 , CYS A:145 , THR A:149 , GLY A:169 , GLY A:171 , GLY A:172 , LEU A:173 , ASP A:193 , VAL A:194 , GLN A:198 , THR A:235 , ALA A:236 , VAL A:237 , VAL A:258 , GLY A:259 , LEU A:260 , SER A:282 , LEU A:283 , VAL A:284 , MET A:321 , ARG A:329 , ZN A:402 , HOH A:510 , HOH A:528 , HOH A:532 , HOH A:536 , HOH A:668 , HOH A:825 , VAL D:273	BINDING SITE FOR RESIDUE NAD A 401
02	AC2	SOFTWARE	CYS A:37 , HIS A:58 , CYS A:145 , NAD A:401 , HOH A:509	BINDING SITE FOR RESIDUE ZN A 402
03	AC3	SOFTWARE	CYS A:89 , CYS A:92 , CYS A:95 , CYS A:103	BINDING SITE FOR RESIDUE ZN A 403
04	AC4	SOFTWARE	CYS B:37 , HIS B:38 , THR B:39 , HIS B:42 , CYS B:145 , THR B:149 , GLY B:169 , GLY B:171 , GLY B:172 , LEU B:173 , ASP B:193 , VAL B:194 , GLN B:198 , THR B:235 , ALA B:236 , VAL B:237 , ALA B:241 , VAL B:258 , GLY B:259 , LEU B:260 , SER B:282 , LEU B:283 , VAL B:284 , MET B:321 , ARG B:329 , ZN B:402 , HOH B:502 , HOH B:519 , HOH B:543 , HOH B:568 , HOH B:661 , HOH B:941 , VAL C:273	BINDING SITE FOR RESIDUE NAD B 401
05	AC5	SOFTWARE	CYS B:37 , HIS B:58 , CYS B:145 , NAD B:401 , HOH B:932	BINDING SITE FOR RESIDUE ZN B 402
06	AC6	SOFTWARE	CYS B:89 , CYS B:92 , CYS B:95 , CYS B:103	BINDING SITE FOR RESIDUE ZN B 403
07	AC7	SOFTWARE	HIS B:38 , HIS B:42 , ASN B:45 , ASP B:47 , HOH B:626 , HOH B:728 , HOH B:936	BINDING SITE FOR RESIDUE GOL B 404
08	AC8	SOFTWARE	VAL B:273 , CYS C:37 , HIS C:38 , THR C:39 , HIS C:42 , CYS C:145 , THR C:149 , GLY C:169 , GLY C:171 , GLY C:172 , LEU C:173 , ASP C:193 , VAL C:194 , GLN C:198 , SER C:213 , THR C:235 , ALA C:236 , VAL C:237 , ALA C:238 , ALA C:241 , VAL C:258 , GLY C:259 , LEU C:260 , SER C:282 , LEU C:283 , VAL C:284 , ARG C:329 , ZN C:402 , HOH C:510 , HOH C:582 , HOH C:590 , HOH C:607 , HOH C:628 , HOH C:796 , HOH C:906 , HOH C:912	BINDING SITE FOR RESIDUE NAD C 401
09	AC9	SOFTWARE	CYS C:37 , HIS C:58 , CYS C:145 , NAD C:401 , HOH C:901	BINDING SITE FOR RESIDUE ZN C 402
10	BC1	SOFTWARE	CYS C:89 , CYS C:92 , CYS C:95 , CYS C:103	BINDING SITE FOR RESIDUE ZN C 403
11	BC2	SOFTWARE	HIS C:38 , HIS C:42 , ASN C:45 , ASP C:47 , HOH C:658 , HOH C:723 , HOH C:873	BINDING SITE FOR RESIDUE GOL C 404
12	BC3	SOFTWARE	VAL A:273 , HIS D:38 , THR D:39 , HIS D:42 , CYS D:145 , THR D:149 , GLY D:169 , GLY D:171 , GLY D:172 , LEU D:173 , ASP D:193 , VAL D:194 , GLN D:198 , SER D:213 , THR D:235 , ALA D:236 , VAL D:237 , ALA D:238 , ALA D:241 , VAL D:258 , GLY D:259 , LEU D:260 , SER D:282 , LEU D:283 , VAL D:284 , MET D:321 , ARG D:329 , ZN D:402 , HOH D:525 , HOH D:536 , HOH D:542 , HOH D:595 , HOH D:619 , HOH D:679 , HOH D:710 , HOH D:827 , HOH D:841	BINDING SITE FOR RESIDUE NAD D 401
13	BC4	SOFTWARE	CYS D:37 , HIS D:58 , CYS D:145 , NAD D:401 , HOH D:512	BINDING SITE FOR RESIDUE ZN D 402
14	BC5	SOFTWARE	CYS D:89 , CYS D:92 , CYS D:95 , CYS D:103	BINDING SITE FOR RESIDUE ZN D 403
15	BC6	SOFTWARE	GLN B:223 , ASP B:247 , ARG B:271 , HOH B:590 , HOH B:610 , PHE C:48 , GLY C:49 , ARG C:104 , SER C:105 , VAL C:106 , ASN C:108 , TYR C:111 , HOH P:401 , HOH P:402 , HOH P:404 , HOH P:406 , HOH P:407 , HOH P:408	BINDING SITE FOR CHAIN P OF CLEAVED PEPTIDE FRAGMENT

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee.....eeeee.........eeeeeeeeee.hhhhhhhhhh............eeeeeeeee...........eeeee.eee......hhhhhhhhhh...ee...........eeeee.hhh.......hhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh...eeee....hhhhhhhhhhh.eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eeee....hhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhh.....eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gkv A   1 MKAAVVTKDHHVDVTYKTLRSLKHGEALLKMECCGVCHTDLHVKNGDFGDKTGVILGHEGIGVVAEVGPGVTSLKPGDRASVAWFYEGCGHCEYCNSGNETLCRSVKNAGYSVDGGMAEECIVVADYAVKVPDGLDSAAASSITCAGVTTYKAVKLSKIRPGQWIAIYGLGGLGNLALQYAKNVFNAKVIAIDVNDEQLKLATEMGADLAINSHTEDAAKIVQEKTGGAHAAVVTAVAKAAFNSAVDAVRAGGRVVAVGLPPESMSLDIPRLVLDGIEVVGSLVGTRQDLTEAFQFAAEGKVVPKVALRPLADINTIFTEMEEGKIRGRMVIDFRH 336
                                    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       280       290       300       310       320       330

Chain B from PDB  Type:PROTEIN  Length:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee.....eeeee.........eeeeeeeeee.hhhhhhhhhh............eeeeeeeee...........eeeee.eee......hhhhhhhhhh...ee...........eeeee.hhh.......hhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh...eeee....hhhhhhhhhhh.eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eeee....hhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhhh....eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gkv B   1 MKAAVVTKDHHVDVTYKTLRSLKHGEALLKMECCGVCHTDLHVKNGDFGDKTGVILGHEGIGVVAEVGPGVTSLKPGDRASVAWFYEGCGHCEYCNSGNETLCRSVKNAGYSVDGGMAEECIVVADYAVKVPDGLDSAAASSITCAGVTTYKAVKLSKIRPGQWIAIYGLGGLGNLALQYAKNVFNAKVIAIDVNDEQLKLATEMGADLAINSHTEDAAKIVQEKTGGAHAAVVTAVAKAAFNSAVDAVRAGGRVVAVGLPPESMSLDIPRLVLDGIEVVGSLVGTRQDLTEAFQFAAEGKVVPKVALRPLADINTIFTEMEEGKIRGRMVIDFRH 336
                                    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       280       290       300       310       320       330

Chain C from PDB  Type:PROTEIN  Length:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee.....eeeee.........eeeeeeeeee.hhhhhhhhh.............eeeeeeeee...........eeeee.eee...........hhhhh...ee...........eeeee.hhh.......hhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh...eeee....hhhhhhhhhhh.eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eeee....hhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhh.....eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gkv C   1 MKAAVVTKDHHVDVTYKTLRSLKHGEALLKMECCGVCHTDLHVKNGDFGDKTGVILGHEGIGVVAEVGPGVTSLKPGDRASVAWFYEGCGHCEYCNSGNETLCRSVKNAGYSVDGGMAEECIVVADYAVKVPDGLDSAAASSITCAGVTTYKAVKLSKIRPGQWIAIYGLGGLGNLALQYAKNVFNAKVIAIDVNDEQLKLATEMGADLAINSHTEDAAKIVQEKTGGAHAAVVTAVAKAAFNSAVDAVRAGGRVVAVGLPPESMSLDIPRLVLDGIEVVGSLVGTRQDLTEAFQFAAEGKVVPKVALRPLADINTIFTEMEEGKIRGRMVIDFRH 336
                                    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       280       290       300       310       320       330

Chain D from PDB  Type:PROTEIN  Length:336
                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee.....eeeee.........eeeeeeeeee.hhhhhhhhhh............eeeeeeeee...........eeeee.eee......hhhhhhhhhh...ee...........eeeee.hhh.......hhhhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh...eeee....hhhhhhhhhhh.eeeeee...hhhhhhhhhhheeeeeeeee......eeeeehhhhhhh..eeee....hhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhh.....eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gkv D   1 MKAAVVTKDHHVDVTYKTLRSLKHGEALLKMECCGVCHTDLHVKNGDFGDKTGVILGHEGIGVVAEVGPGVTSLKPGDRASVAWFYEGCGHCEYCNSGNETLCRSVKNAGYSVDGGMAEECIVVADYAVKVPDGLDSAAASSITCAGVTTYKAVKLSKIRPGQWIAIYGLGGLGNLALQYAKNVFNAKVIAIDVNDEQLKLATEMGADLAINSHTEDAAKIVQEKTGGAHAAVVTAVAKAAFNSAVDAVRAGGRVVAVGLPPESMSLDIPRLVLDGIEVVGSLVGTRQDLTEAFQFAAEGKVVPKVALRPLADINTIFTEMEEGKIRGRMVIDFRH 336
                                    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       280       290       300       310       320       330

Chain P from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 4gkv P 334 AIPNPLLGLA 343
                                   343

Legend:		→ Mismatch	(orange background)
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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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	Cis Peptide Bonds
		Ala P:334 - Ile P:335	[ RasMol ]
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