4BBV - JenaLib

Title :   THE PB0 PHOTOCYCLE INTERMEDIATE OF PHOTOACTIVE YELLOW PROTEIN

Authors :   F. Schotte, H. S. Cho, V. R. I. Kaila, H. Kamikubo, N. Dashdorj, E. R. Henr T. J. Graber, R. Henning, M. Wulff, G. Hummer, M. Kataoka, P. A. Anfinru

Date :   28 Sep 12 (Deposition) - 14 Nov 12 (Release) - 25 Jan 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : A

Keywords :   Photoreceptor, Light Sensor, Chromophore, Photoreceptor Protein, Receptor, Sensory Transduction, Signaling Protein, Pas, Lov (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Schotte, H. S. Cho, V. R. I. Kaila, H. Kamikubo, N. Dashdorj, E. R. Henry, T. J. Graber, R. Henning, M. Wulff, G. Hummer, M. Kataoka, P. A. Anfinrud
Watching A Signaling Protein Function In Real Time Via 100-Ps Time-Resolved Laue Crystallography.
Proc. Natl. Acad. Sci. Usa V. 109 19256 2012
PubMed-ID: 23132943 | Reference-DOI: 10.1073/PNAS.1210938109

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

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

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Chain A from PDB  Type:PROTEIN  Length:125
 aligned with PYP_HALHA | P16113 from UniProtKB/Swiss-Prot  Length:125

    Alignment length:125
                                    10        20        30        40        50        60        70        80        90       100       110       120     
            PYP_HALHA     1 MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFKEGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV 125
               SCOP domains d4bbva_ A: Photoactive yellow protein, PYP                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhh.hhhhhh....eeeeee....eeeehhhhhhhhh.hhhhhh...hhhhhhhhhh...hhhhhhhhhhhh..eeeeeeee......eeeeeeeee.....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------PAS  PDB: A:23-86 UniProt: 23-86                                --------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 4bbv A   1 MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFKEGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV 125
                                    10        20        30        40        50        60        70        80        90       100       110       120

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PYP_HALHA | P16113)

molecular function
	GO:0009881	photoreceptor activity	The function of absorbing and responding to incidental electromagnetic radiation, particularly visible light. The response may involve a change in conformation.
biological process
	GO:0007602	phototransduction	The sequence of reactions within a cell required to convert absorbed photons into a molecular signal.
	GO:0018298	protein-chromophore linkage	The covalent or noncovalent attachment of a chromophore to a protein.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0050896	response to stimulus	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.

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	4bbv
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Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File

1d7e	CRYSTAL STRUCTURE OF THE P65 CRYSTAL FORM OF PHOTOACTIVEYELLOW PROTEIN
1f98	CRYSTAL STRUCTURE OF THE PHOTOACTIVE YELLOW PROTEIN MUTANTT50V
1f9i	CRYSTAL STRUCTURE OF THE PHOTOACTIVE YELLOW PROTEIN MUTANTY42F
1gsv	CRYSTAL STRUCTURE OF THE P65 CRYSTAL FORM OF PHOTOACTIVE YELLOW PROTEIN
1gsw	CRYSTAL STRUCTURE OF THE P65 CRYSTAL FORM OF PHOTOACTIVE YELLOW PROTEIN G51S MUTANT
1gsx	CRYSTAL STRUCTURE OF THE P65 CRYSTAL FORM OF PHOTOACTIVE YELLOW PROTEIN G47S/G51S MUTANT
1kou	CRYSTAL STRUCTURE OF THE PHOTOACTIVE YELLOW PROTEINRECONSTITUTED WITH CAFFEIC ACID AT 1.16 A RESOLUTION
1nwz	PYP ULTRA-HIGH RESOLUTION STRUCTURE OF A BACTERIALPHOTORECEPTOR
1odv	PHOTOACTIVE YELLOW PROTEIN 1-25 DELETION MUTANT
1ot6	CRYOTRAPPED CRYSTAL STRUCTURE OF THE E46Q MUTANT OFPHOTOACTIVE YELLOW PROTEIN UNDER CONTINUOUS ILLUMINATIONAT 110K
1ot9	CRYOTRAPPED STATE IN WILD TYPE PHOTOACTIVE YELLOW PROTEIN,INDUCED WITH CONTINUOUS ILLUMINATION AT 110K
1ota	E46Q MUTANT OF PHOTOACTIVE YELLOW PROTEIN, P63 AT 295K
1otb	WILD TYPE PHOTOACTIVE YELLOW PROTEIN, P63 AT 295K
1otd	STRONG HYDROGEN BONDS IN PHOTOACTIVE YELLOW PROTEIN ANDTHEIR ROLE IN ITS PHOTOCYCLE
1ote	E46Q MUTANT OF PHOTOACTIVE YELLOW PROTEIN, P65 AT 110K
1oti	E46Q MUTANT OF PHOTOACTIVE YELLOW PROTEIN, P65 AT 295K
1s1y	PHOTOACTIVATED CHROMOPHORE CONFORMATION IN PHOTOACTIVEYELLOW PROTEIN (E46Q MUTANT) FROM 10 MICROSECONDS TO 3MILLISECONDS
1s1z	PHOTOACTIVATED CHROMOPHORE CONFORMATION IN PHOTOACTIVEYELLOW PROTEIN (E46Q MUTANT) FROM 10 TO 500 NANOSECONDS
1s4r	STRUCTURE OF A REACTION INTERMEDIATE IN THE PHOTOCYCLE OFPYP EXTRACTED BY A SVD-DRIVEN ANALYSIS
1s4s	REACTION INTERMEDIATE IN THE PHOTOCYCLE OF PYP, INTERMEDIATE OCCUPIED BETWEEN 100 MICRO-SECONDS TO 5 MILLI-SECONDS
1t18	EARLY INTERMEDIATE IE1 FROM TIME-RESOLVED CRYSTALLOGRAPHYOF THE E46Q MUTANT OF PYP
1t19	EARLY INTERMEDIATE IE2 FROM TIME-RESOLVED CRYSTALLOGRAPHYOF THE E46Q MUTANT OF PYP
1t1a	LATE INTERMEDIATE IL1 FROM TIME-RESOLVED CRYSTALLOGRAPHY OFTHE E46Q MUTANT OF PYP
1t1b	LATE INTERMEDIATE IL2 FROM TIME-RESOLVED CRYSTALLOGRAPHY OFTHE E46Q MUTANT OF PYP
1t1c	LATE INTERMEDIATE IL3 FROM TIME-RESOLVED CRYSTALLOGRAPHY OFTHE E46Q MUTANT OF PYP
1ts0	STRUCTURE OF THE PB1 INTERMEDIATE FROM TIME-RESOLVED LAUECRYSTALLOGRAPHY
1ts6	STRUCTURE OF THE PB2 INTERMEDIATE FROM TIME-RESOLVED LAUECRYSTALLOGRAPHY
1ts7	STRUCTURE OF THE PR CIS WOBBLE AND PR E46Q INTERMEDIATESFROM TIME- RESOLVED LAUE CRYSTALLOGRAPHY
1ts8	STRUCTURE OF THE PR CIS PLANAR INTERMEDIATE FROM TIME -RESOLVED LAUE CRYSTALLOGRAPHY
1ugu	CRYSTAL STRUCTURE OF PYP E46Q MUTANT
1uwn	THE INITIAL EVENTS IN THE PHOTOCYCLE OF PHOTOACTIVE YELLOW PROTEIN: A COMMON MECHANISM ON LIGHT ACTIVATION IN PHOTORECEPTOR PROTEINS
1uwp	INITIAL EVENTS IN THE PHOTOCYCLE OF PHOTOACTIVE YELLOW PROTEIN
1xfn	NMR STRUCTURE OF THE GROUND STATE OF THE PHOTOACTIVE YELLOWPROTEIN LACKING THE N-TERMINAL PART
1xfq	STRUCTURE OF THE BLUE SHIFTED INTERMEDIATE STATE OF THEPHOTOACTIVE YELLOW PROTEIN LACKING THE N-TERMINAL PART
2d01	WILD TYPE PHOTOACTIVE YELLOW PROTEIN, P65 FORM
2d02	R52Q MUTANT OF PHOTOACTIVE YELLOW PROTEIN, P65 FORM
2phy	PHOTOACTIVE YELLOW PROTEIN, DARK STATE (UNBLEACHED) 2PHY 3
2pyp	PHOTOACTIVE YELLOW PROTEIN, PHOTOSTATIONARY STATE, 50% GROUND STATE, 50% BLEACHED
2pyr	PHOTOACTIVE YELLOW PROTEIN, 1 NANOSECOND INTERMEDIATE (287K)
3phy	PHOTOACTIVE YELLOW PROTEIN, DARK STATE (UNBLEACHED), SOLUTION STRUCTURE, NMR, 26 STRUCTURES
3pyp	PHOTOACTIVE YELLOW PROTEIN, CRYOTRAPPED EARLY LIGHT CYCLEINTERMEDIATE
4b9o	THE PR0 PHOTOCYCLE INTERMEDIATE OF PHOTOACTIVE YELLOW PROTEIN
4bbt	THE PR1 PHOTOCYCLE INTERMEDIATE OF PHOTOACTIVE YELLOW PROTEIN
4bbu	THE PR1 PHOTOCYCLE INTERMEDIATE OF PHOTOACTIVE YELLOW PROTEIN

Description