3HJK - JenaLib

Title :   2.0 ANGSTROM STRUCTURE OF THE ILE74VAL VARIANT OF VIVID (VVD).

Authors :   B. D. Zoltowski, B. J. Vaccaro, B. R. Crane

Date :   21 May 09 (Deposition) - 29 Sep 09 (Release) - 03 Nov 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Photoreceptor, Circadian Clock, Fad, Lov, Pas, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. D. Zoltowski, B. Vaccaro, B. R. Crane
Mechanism-Based Tuning Of A Lov Domain Photoreceptor.
Nat. Chem. Biol. V. 5 827 2009
PubMed-ID: 19718042 | Reference-DOI: 10.1038/NCHEMBIO.210
(for further references see the PDB file header)

Compounds

Molecule 1 - VIVID PAS PROTEIN VVD
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	G17A4.050, VIVID, VVD
	Mutation	:	YES
	Organism Scientific	:	NEUROSPORA CRASSA
	Organism Taxid	:	5141

Structural Features

Chains, Units

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

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 2)

Asymmetric Unit (1, 2)

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

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Sites (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:74 , CYS A:76 , ASN A:107 , CYS A:108 , ARG A:109 , LEU A:111 , GLN A:112 , PRO A:120 , LYS A:121 , SER A:122 , THR A:123 , ARG A:124 , SER A:129 , ILE A:132 , ASN A:133 , ARG A:136 , ILE A:139 , ASN A:151 , ASN A:161 , LEU A:163 , MET A:165 , SER A:178 , GLY A:180 , GLN A:182 , HOH A:304 , HOH A:341 , HOH A:386 , HOH A:581	BINDING SITE FOR RESIDUE FAD A 201
2	AC2	SOFTWARE	CYS B:76 , ASN B:107 , CYS B:108 , ARG B:109 , LEU B:111 , GLN B:112 , PRO B:120 , LYS B:121 , SER B:122 , THR B:123 , ARG B:124 , SER B:129 , ILE B:132 , ASN B:133 , ARG B:136 , ILE B:139 , ASN B:151 , ASN B:161 , LEU B:163 , MET B:165 , SER B:178 , GLY B:180 , GLN B:182 , HOH B:334 , HOH B:371 , HOH B:382 , HOH B:478	BINDING SITE FOR RESIDUE FAD B 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:150
 aligned with Q9C3Y6_NEUCS | Q9C3Y6 from UniProtKB/TrEMBL  Length:186

    Alignment length:150
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185
         Q9C3Y6_NEUCS    36 FHTLYAPGGYDIMGYLIQIMNRPNPQVELGPVDTSCALILCDLKQKDTPIVYASEAFLYMTGYSNAEVLGRNCRFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRNAEVQVEVVNFKKNGQRFVNFLTMIPVRDETGEYRYSMGFQCET 185
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhh..............eeeeee.......eeeehhhhhhhhh.hhhhhh..hhhhhhh..............hhhhhhhhhhhhhh...eeeeeeee.....eeeeeeeeeeee.....eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3hjk A  36 MHTLYAPGGYDIMGYLIQIMNRPNPQVELGPVDTSCALVLCDLKQKDTPIVYASEAFLYMTGYSNAEVLGRNCRFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRNAEVQVEVVNFKKNGQRFVNFLTMIPVRDETGEYRYSMGFQCET 185
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185

Chain B from PDB  Type:PROTEIN  Length:140
 aligned with Q9C3Y6_NEUCS | Q9C3Y6 from UniProtKB/TrEMBL  Length:186

    Alignment length:140
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184
         Q9C3Y6_NEUCS    45 YDIMGYLIQIMNRPNPQVELGPVDTSCALILCDLKQKDTPIVYASEAFLYMTGYSNAEVLGRNCRFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRNAEVQVEVVNFKKNGQRFVNFLTMIPVRDETGEYRYSMGFQCE 184
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh................eeeee.......eeeehhhhhhhhh.hhhhhh..hhhhhhh..............hhhhhhhhhhhhhh...eeeeeeee.....eeeeeeeeeeee.....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hjk B  45 YDIMGYLIQIMNRPNPQVELGPVDTSCALVLCDLKQKDTPIVYASEAFLYMTGYSNAEVLGRNCRFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRNAEVQVEVVNFKKNGQRFVNFLTMIPVRDETGEYRYSMGFQCE 184
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184

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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 (1, 1)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File

2pd7	2.0 ANGSTROM STRUCTURE OF THE WILD TYPE DARK-STATE OF VVD
2pd8	1.8 ANGSTROM STRUCTURE OF THE CYS71SER VARIANT OF VVD
2pdr	1.7 ANGSTROM STRUCTURE OF THE WILD TYPE LIGHT-STATE OF VVD
2pdt	2.3 ANGSTROM STRUCTURE OF PHOSPHODIESTERASE TREATED VVD
3d72	1.65 ANGSTROM STRUCTURE OF THE CYS71VAL VARIANT OF VVD
3hji	1.8 ANGSTROM CRYSTAL STRUCTURE OF THE I74V:I85V VARIANT OF VIVID (VVD)

Description