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Asym./Biol. Unit (Jmol Viewer)

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Title :   FLUORESCENT PROTEIN KILLERRED IN THE NATIVE STATE

Authors :   P. Carpentier, S. Violot, L. Blanchoin, D. Bourgeois

Date :   15 May 09 (Deposition) - 11 Aug 09 (Release) - 08 Sep 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Fluorescent Protein, Cali, Ros, Reactive Oxygen Species (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Carpentier, S. Violot, L. Blanchoin, D. Bourgeois
Structural Basis For The Phototoxicity Of The Fluorescent Protein Killerred.
Febs Lett. V. 583 2839 2009
PubMed-ID: 19646983 | Reference-DOI: 10.1016/J.FEBSLET.2009.07.041

Molecule 1 - KILLERRED
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15-B
	Expression System Strain	:	ROSETTA(DE3)
	Expression System Taxid	:	562
	Fragment	:	RESIDUES 2-237
	Organism Scientific	:	ANTHOMEDUSAE SP. DC-2005
	Organism Taxid	:	328397

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 7)

No.	Name	Count	Type	Full Name
1	CRQ	2	Mod. Amino Acid	[2-(3-CARBAMOYL-1-IMINO-PROPYL)-4-(4-HYDROXY-BENZYLIDENE)-5-OXO-4,5-DIHYDRO-IMIDAZOL-1-YL]-ACETIC ACID
2	NA	2	Ligand/Ion	SODIUM ION
3	SO4	3	Ligand/Ion	SULFATE ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:209 , LYS A:210 , ARG A:211 , HIS A:213	BINDING SITE FOR RESIDUE SO4 A1230
2	AC2	SOFTWARE	PRO A:154 , HOH A:2121 , HIS B:152 , LYS B:180	BINDING SITE FOR RESIDUE SO4 A1231
3	AC3	SOFTWARE	ARG A:217 , LYS B:210 , ARG B:227 , ILE B:228 , THR B:229 , HOH B:2145	BINDING SITE FOR RESIDUE SO4 B1233
4	AC4	SOFTWARE	SER A:79 , PRO A:192	BINDING SITE FOR RESIDUE NA A1232
5	AC5	SOFTWARE	SER B:79	BINDING SITE FOR RESIDUE NA B1234

(no "SS Bond" information available for 2WIQ)

Asymmetric/Biological Unit

No.	Residues
1	Phe A:37	-	Pro A:38
2	Phe A:86	-	Pro A:87
3	Glu B:2	-	Gly B:3
4	Phe B:37	-	Pro B:38
5	Phe B:86	-	Pro B:87

(no "SAP(SNP)/Variant" information available for 2WIQ)

(no "PROSITE Motif" information available for 2WIQ)

(no "Exon" information available for 2WIQ)

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:226
 aligned with Q2TCH5_9CNID | Q2TCH5 from UniProtKB/TrEMBL  Length:237

    Alignment length:228
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221        
         Q2TCH5_9CNID     2 EGGPALFQSDMTFKIFIDGEVNGQKFTIVADGSSKFPHGDFNVHAVCETGKLPMSWKPICHLIQYGEPFFARYPDGISHFAQECFPEGLSIDRTVRFENDGTMTSHHTYELDDTCVVSRITVNCDGFQPDGPIMRDQLVDILPNETHMFPHGPNAVRQLAFIGFTTADGGLMMGHFDSKMTFNGSRAIEIPGPHFVTIITKQMRDTSDKRDHVCQREVAYAHSVPRIT 229
               SCOP domains d2wiqa_ A: automated matches                                                                                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhh..eeeeeeeeeee..eeeeeeeeeee.....eeeeeeee........hhhhh....--hhhhh.......hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee...........eeeeeeeeeee.......eeeeeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2wiq A   2 EGGPALFQSDMTFKIFIDGEVNGQKFTIVADGSSKFPHGDFNVHAVCETGKLPMSWKPICHLIq--EPFFARYPDGISHFAQECFPEGLSIDRTVRFENDGTMTSHHTYELDDTCVVSRITVNCDGFQPDGPIMRDQLVDILPNETHMFPHGPNAVRQLAFIGFTTADGGLMMGHFDSKMTFNGSRAIEIPGPHFVTIITKQMRDTSDKRDHVCQREVAYAHSVPRIT 229
                                    11        21        31        41        51        61   |  | 71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221        
                                                                                          65-CRQ

Chain B from PDB  Type:PROTEIN  Length:229
 aligned with Q2TCH5_9CNID | Q2TCH5 from UniProtKB/TrEMBL  Length:237

    Alignment length:231
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231 
         Q2TCH5_9CNID     2 EGGPALFQSDMTFKIFIDGEVNGQKFTIVADGSSKFPHGDFNVHAVCETGKLPMSWKPICHLIQYGEPFFARYPDGISHFAQECFPEGLSIDRTVRFENDGTMTSHHTYELDDTCVVSRITVNCDGFQPDGPIMRDQLVDILPNETHMFPHGPNAVRQLAFIGFTTADGGLMMGHFDSKMTFNGSRAIEIPGPHFVTIITKQMRDTSDKRDHVCQREVAYAHSVPRITSAI 232
               SCOP domains d2wiqb_ B: automated matches                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---GFP-2wiqB01 B:5-225                                                                                                                                                                                                          ------- Pfam domains (1)
           Pfam domains (2) ---GFP-2wiqB02 B:5-225                                                                                                                                                                                                          ------- Pfam domains (2)
         Sec.struct. author .hhhhhh...eeeeeeeeeee..eeeeeeeeeee.....eeeeeeee........hhhhh....--hhhhh.......hhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee............eeee..eeeeeee....eeeeeeeeeeee....eeeeeeeeeeee...........eeeeeeeeee........eeeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wiq B   2 EGGPALFQSDMTFKIFIDGEVNGQKFTIVADGSSKFPHGDFNVHAVCETGKLPMSWKPICHLIq--EPFFARYPDGISHFAQECFPEGLSIDRTVRFENDGTMTSHHTYELDDTCVVSRITVNCDGFQPDGPIMRDQLVDILPNETHMFPHGPNAVRQLAFIGFTTADGGLMMGHFDSKMTFNGSRAIEIPGPHFVTIITKQMRDTSDKRDHVCQREVAYAHSVPRITSAI 232
                                    11        21        31        41        51        61   |  | 71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231 
                                                                                          65-CRQ

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: GFP-like (339)

Superfamily: GFP-like (339)

Family: automated matches (66)

Protein domain: automated matches (66)

Anthomedusae sp. [TaxId: 328397] (5)

1a	d2wiqa_	A:
1b	d2wiqb_	B:

(no "CATH Domain" information available for 2WIQ)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GFP (101)

Family: GFP (101)

Anthomedusae sp. DC-2005 (2)

1a	GFP-2wiqB01	B:5-225
1b	GFP-2wiqB02	B:5-225

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q2TCH5_9CNID | Q2TCH5)

biological process
	GO:0008218		bioluminescence		The production of light by certain enzyme-catalyzed reactions in cells.
	GO:0006091		generation of precursor metabolites and energy		The chemical reactions and pathways resulting in the formation of precursor metabolites, substances from which energy is derived, and any process involved in the liberation of energy from these substances.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Glu B:2 - Gly B:3	[ RasMol ]
		Phe A:37 - Pro A:38	[ RasMol ]
		Phe A:86 - Pro A:87	[ RasMol ]
		Phe B:37 - Pro B:38	[ RasMol ]
		Phe B:86 - Pro B:87	[ RasMol ]

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	2wiq
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	Q2TCH5_9CNID \| Q2TCH5	:	2wis 3a8s 3gb3 3gl4 3wck 4b30 4zbl 4zfs

2wis	FLUORESCENT PROTEIN KILLERRED IN THE BLEACHED STATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (5, 5)

Sequence-Structure Mapping

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