4J8T - JenaLib

Title :   ENGINEERED DIGOXIGENIN BINDER DIG10.2

Authors :   B. L. Stoddard, L. A. Doyle

Date :   14 Feb 13 (Deposition) - 26 Jun 13 (Release) - 25 Sep 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.05

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: A (1x),B (1x),C (1x),D (1x)

Keywords :   Engineered, Computationally Designed, Digoxigenin-Binding, Digoxigenin Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. E. Tinberg, S. D. Khare, J. Dou, L. Doyle, J. W. Nelson, A. Schena, W. Jankowski, C. G. Kalodimos, K. Johnsson, B. L. Stoddard, D. Baker
Computational Design Of Ligand-Binding Proteins With High Affinity And Selectivity.
Nature V. 501 212 2013
PubMed-ID: 24005320 | Reference-DOI: 10.1038/NATURE12443

Compounds

Molecule 1 - ENGINEERED DIGOXIGENIN BINDER PROTEIN DIG10.2
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15
	Expression System Strain	:	BL21(DE3)-RIL
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	PA3332
	Mutation	:	YES
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	208964
	Strain	:	ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 4)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	DOG	4	Ligand/Ion	DIGOXIGENIN

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	DOG	1	Ligand/Ion	DIGOXIGENIN

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	DOG	1	Ligand/Ion	DIGOXIGENIN

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	DOG	1	Ligand/Ion	DIGOXIGENIN

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	DOG	1	Ligand/Ion	DIGOXIGENIN

Biological Unit 5 (0, 0)

No.	Name	Count	Type	Full Name
1	DOG	-1	Ligand/Ion	DIGOXIGENIN

Sites (4, 4)

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:11 , LEU A:14 , TYR A:34 , HIS A:54 , MET A:55 , PHE A:58 , TYR A:101 , TYR A:115 , LEU A:117	BINDING SITE FOR RESIDUE DOG A 201
2	AC2	SOFTWARE	LEU B:14 , TYR B:34 , HIS B:54 , PHE B:58 , TYR B:101 , TYR B:115 , LEU B:117	BINDING SITE FOR RESIDUE DOG B 201
3	AC3	SOFTWARE	LEU C:14 , TRP C:22 , TYR C:34 , PHE C:58 , TYR C:101 , TYR C:115 , LEU C:117	BINDING SITE FOR RESIDUE DOG C 201
4	AC4	SOFTWARE	LEU D:11 , LEU D:14 , TYR D:34 , HIS D:54 , MET D:55 , PHE D:58 , TYR D:101 , TYR D:115 , LEU D:117	BINDING SITE FOR RESIDUE DOG D 201

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:128
                                                                                                                                                                
               SCOP domains d4j8ta_ A: Uncharacterized protein PA3332                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh.hhhhhhhheeeeeeee..........eeehhhhhhhhhhhhhhheeeeeeeeeee......eeeeeeeeeeee.....eeeeeeeeeeeee..eeeeeeee.hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j8t A   1 MNAKEIVVHALRLLENGDARGWCDLFHPEGVLEYPYPPPGYKTRFEGRETIWAHMRLFPEYMTIRFTDVQFYETADPDLAIGEFHGDGVHTVSGGKLAADYISVLRTRDGQILLYRLFFNPLRVLEPL 128
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain B from PDB  Type:PROTEIN  Length:121
                                                                                                                                                         
               SCOP domains d4j8tb_ B: Uncharacterized protein PA3332                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.hhhhhhhheeeeeeee..........eeehhhhhhhhhhhhhhhheeeeeeeeee......eeeeeeeeeee....eeeeeeeeeeee..eeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j8t B   2 NAKEIVVHALRLLENGDARGWCDLFHPEGVLEYPYPPPGYKTRFEGRETIWAHMRLFPEYMTIRFTDVQFYETADPDLAIGEFHGDGVHTVKLAADYISVLRTRDGQILLYRLFFNPLRVL 125
                                    11        21        31        41        51        61        71        81        91||     104       114       124 
                                                                                                                     92|                             
                                                                                                                      96

Chain C from PDB  Type:PROTEIN  Length:120
                                                                                                                                                        
               SCOP domains d4j8tc_ C: Uncharacterized protein PA3332                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh.hhhhhhhheeeeeeee..........eeehhhhhhhhhhhhhhhheeeeeeeeee......eeeeeeeeeee..eeeeeeeeeeee..eeeeeeee.hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 4j8t C   1 MNAKEIVVHALRLLENGDARGWCDLFHPEGVLEYPYPPPGYKTRFEGRETIWAHMRLFPEYMTIRFTDVQFYETADPDLAIGEFHGDGVHKLAADYISVLRTRDGQILLYRLFFNPLRVL 125
                                    10        20        30        40        50        60        70        80        90|      105       115       125
                                                                                                                    90|                             
                                                                                                                     96

Chain D from PDB  Type:PROTEIN  Length:126
                                                                                                                                                              
               SCOP domains d4j8td_ D: Uncharacterized protein PA3332                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh.hhhhhhhheeeeeeee..........eeehhhhhhhhhhhhhhhheeeeeeeeee......eeeeeeeeeee....eeeeeeeeeeeee..eeeeeeee.hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4j8t D   1 MNAKEIVVHALRLLENGDARGWCDLFHPEGVLEYPYPPPGYKTRFEGRETIWAHMRLFPEYMTIRFTDVQFYETADPDLAIGEFHGDGVHSGGKLAADYISVLRTRDGQILLYRLFFNPLRVLEPL 128
                                    10        20        30        40        50        60        70        80        90|      102       112       122      
                                                                                                                    90|                                   
                                                                                                                     93

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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 (1, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (1, 1)

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