2HQZ - JenaLib

Title :   CRYSTAL STRUCTURE OF L42H DESIGN INTERMEDIATE FOR GFP METAL ION REPORTER

Authors :   D. P. Barondeau, J. L. Tubbs, J. A. Tainer, E. D. Getzoff

Date :   19 Jul 06 (Deposition) - 08 Apr 08 (Release) - 30 Jun 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.20

Chains :   Asym./Biol. Unit : A

Keywords :   Metal Site Design, Intermediate, Gfp, Fluorophore, Reporter, Luminescent Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. P. Barondeau, J. L. Tubbs, J. A. Tainer, E. D. Getzoff
Iterative Structure-Based Design Of A Green Fluorescent Protein Metal Ion Reporter
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (9, 9)

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:30 , HOH A:310 , HOH A:311 , HOH A:312 , HOH A:313 , HOH A:314 , HOH A:315	BINDING SITE FOR RESIDUE MG A 301
2	AC2	SOFTWARE	HOH A:316 , HOH A:317 , HOH A:318 , HOH A:319 , HOH A:320	BINDING SITE FOR RESIDUE MG A 302
3	AC3	SOFTWARE	ASP A:129 , ASN A:170 , ILE A:171 , GLY A:174 , SER A:175 , HOH A:316 , HOH A:317 , HOH A:318 , HOH A:320	BINDING SITE FOR RESIDUE EDO A 303
4	AC4	SOFTWARE	LYS A:52 , LEU A:53 , TRP A:57 , HIS A:139 , ASP A:216 , HOH A:341	BINDING SITE FOR RESIDUE EDO A 304
5	AC5	SOFTWARE	PHE A:99 , ASN A:105 , LEU A:194 , LEU A:195 , HOH A:389 , HOH A:540	BINDING SITE FOR RESIDUE EDO A 305
6	AC6	SOFTWARE	ASN A:144 , TYR A:145 , ASN A:170 , HOH A:436 , HOH A:498	BINDING SITE FOR RESIDUE EDO A 306
7	AC7	SOFTWARE	ASN A:159 , PRO A:192 , HOH A:352 , HOH A:432 , HOH A:503	BINDING SITE FOR RESIDUE EDO A 307
8	AC8	SOFTWARE	LYS A:3 , ALA A:87 , GLU A:90 , GLY A:91 , PRO A:187 , ILE A:188 , GLY A:189 , ASP A:190 , GLY A:191	BINDING SITE FOR RESIDUE EDO A 308
9	AC9	SOFTWARE	GLN A:80 , ASN A:105 , LYS A:107 , HOH A:430 , HOH A:500	BINDING SITE FOR RESIDUE EDO A 309

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (4, 4)

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:227
 aligned with GFP_AEQVI | P42212 from UniProtKB/Swiss-Prot  Length:238

    Alignment length:229
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221         
            GFP_AEQVI     2 SKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKLTLKFICTTGKLPVPWPTLVTTFSYGVQCFSRYPDHMKQHDFFKSAMPEGYVQERTIFFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMVLLEFVTAAGIT 230
               SCOP domains d2hqza_ A: automated matches                                                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh..eeeeeeeeeee..eeeeeeeeeeeehhh.eeeeeeee.......hhhhhh...--.hhhhh..hhhhhhhhhhhhh....eeeeeeeee....eeeeeeeeeee..eeeeeeeeeee...................eeeeeeeehhhheeeeeeeeeee.....eeeeeeeeeeee...........eeeeeeeeee........eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------Y-------S--------------------------------M-----------------------------------------------------------------------------I----------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hqz A   2 SKGEELFTGVVPILVELDGDVNGHKFSVSGEGEGDATYGKHTLKFICTTGKLPVPWPTLVTTL--gVQCFSRYPDHMKQHDFFKSAMPEGYVQERTIFFKDDGNYKTRAEVKFEGDTLVNRIELKGIDFKEDGNILGHKLEYNYNSHNVYIMADKQKNGIKVNFKIRHNIEDGSVQLADHYQQNTPIGDGPVLLPDNHYLSTQSALSKDPNEKRDHMVLLEFVTAAGIT 230
                                    11        21        31        41        51        61  |  || 71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221         
                                                                                         64  ||                                                                                                                                                                  
                                                                                            66-CRO                                                                                                                                                               
                                                                                             68

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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, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (GFP_AEQVI | P42212)

molecular function
	GO:0003674	molecular_function	Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
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.
	GO:0018298	protein-chromophore linkage	The covalent or noncovalent attachment of a chromophore to a protein.
cellular component
	GO:0005575	cellular_component	The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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		Met A:88 - Pro A:89	[ RasMol ]

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