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Asym./Biol. Unit (Jmol Viewer)

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Title :   STRUCTURE OF THAUMATIN WITH THE MAGIC TRIANGLE I3C

Authors :   T. Beck, T. Gruene, G. M. Sheldrick

Date :   08 Aug 08 (Deposition) - 28 Oct 08 (Release) - 11 Apr 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.73

Chains :   Asym./Biol. Unit : A

Keywords :   Phasing Tool, 5-Amino-2, 4, 6-Triiodoisophthalic Acid, Magic Triangle, I3C, Plant Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Beck, A. Krasauskas, T. Gruene, G. M. Sheldrick
A Magic Triangle For Experimental Phasing Of Macromolecules
Acta Crystallogr. , Sect. D V. 64 1179 2008
PubMed-ID: 19020357 | Reference-DOI: 10.1107/S0907444908030266

Molecule 1 - THAUMATIN I
	Chains	:	A
	Organism Common	:	KATEMFE,MIRACLE FRUIT
	Organism Scientific	:	THAUMATOCOCCUS DANIELLII
	Organism Taxid	:	4621

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 10)

No.	Name	Count	Type	Full Name
1	I3C	5	Ligand/Ion	5-AMINO-2,4,6-TRIIODOBENZENE-1,3-DICARBOXYLIC ACID
2	K	4	Ligand/Ion	POTASSIUM ION
3	TLA	1	Ligand/Ion	L(+)-TARTARIC ACID

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:82 , PRO A:83 , I3C A:1005 , HOH A:1101	BINDING SITE FOR RESIDUE I3C A 1001
2	AC2	SOFTWARE	ARG A:125 , GLY A:162 , PRO A:205	BINDING SITE FOR RESIDUE I3C A 1002
3	AC3	SOFTWARE	GLY A:20 , ASP A:21 , LYS A:78 , ARG A:79 , HOH A:1210	BINDING SITE FOR RESIDUE I3C A 1003
4	AC4	SOFTWARE	PRO A:166 , HOH A:1088 , HOH A:1107 , HOH A:1200	BINDING SITE FOR RESIDUE I3C A 1004
5	AC5	SOFTWARE	LYS A:49 , PHE A:80 , GLY A:81 , LYS A:106 , I3C A:1001	BINDING SITE FOR RESIDUE I3C A 1005
6	AC6	SOFTWARE	ARG A:29 , GLU A:35 , SER A:36 , PHE A:152 , TYR A:157 , HOH A:1019 , HOH A:1024 , HOH A:1048 , HOH A:1105 , HOH A:1131 , HOH A:1209 , HOH A:1258	BINDING SITE FOR RESIDUE TLA A 1006
7	AC7	SOFTWARE	ARG A:171 , HOH A:1238 , HOH A:1244 , HOH A:1251	BINDING SITE FOR RESIDUE K A 1007
8	AC8	SOFTWARE	ASP A:113 , SER A:115 , GLY A:123 , HOH A:1243	BINDING SITE FOR RESIDUE K A 1008
9	AC9	SOFTWARE	PHE A:181	BINDING SITE FOR RESIDUE K A 1010

Asymmetric/Biological Unit

No.	Residues
1	A:9	-	A:204
2	A:56	-	A:66
3	A:71	-	A:77
4	A:121	-	A:193
5	A:126	-	A:177
6	A:134	-	A:145
7	A:149	-	A:158
8	A:159	-	A:164

Asymmetric/Biological Unit

No.	Residues
1	Pro A:83	-	Pro A:84

(no "SAP(SNP)/Variant" information available for 3E3S)

Asymmetric/Biological Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	THAUMATIN_2	PS51367	Thaumatin family profile.	THM1_THADA	1-207	1	A:1-207
2	THAUMATIN_1	PS00316	Thaumatin family signature.	THM1_THADA	62-77	1	A:62-77

(no "Exon" information available for 3E3S)

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:207
 aligned with Q8RVT0_THADA | Q8RVT0 from UniProtKB/TrEMBL  Length:207

    Alignment length:207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       
         Q8RVT0_THADA     1 ATFEIVNRCSYTVWAAASKGDAALDAGGRQLNSGESWTINVEPGTNGGKIWARTDCYFDDSGSGICKTGDCGGLLRCKRFGRPPTTLAEFSLNQYGKDYIDISNIKGFNVPMDFSPTTRGCRGVRCAADIVGQCPAKLKAPGGGCNDACTVFQTSEYCCTTGKCGPTEYSRFFKRLCPDAFSYVLDKPTTVTCPGSSNYRVTFCPTA 207
               SCOP domains d3e3sa_ A: automated matches                                                                                                                                                                                    SCOP domains
               CATH domains 3e3sA00 A:1-207 Thaumatin                                                                                                                                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....eeeeeeeee....eeeee.......eeeeee...ee.....ee.....................eeeeeeee..eeeeeee........eeeee.......eee..hhhhhhhhhhh.......hhhhhhhhhhhhh.......hhhhhhhhhhh.............eeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e3s A   1 ATFEIVNRCSYTVWAAASKGDAALDAGGRQLNSGESWTINVEPGTNGGKIWARTDCYFDDSGSGICKTGDCGGLLRCKRFGRPPTTLAEFSLNQYGKDYIDISNIKGFNVPMDFSPTTRGCRGVRCAADIVGQCPAKLKAPGGGCNDACTVFQTSEYCCTTGKCGPTEYSRFFKRLCPDAFSYVLDKPTTVTCPGSSNYRVTFCPTA 207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200

Chain A from PDB  Type:PROTEIN  Length:207
 aligned with THM1_THADA | P02883 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       
           THM1_THADA     1 ATFEIVNRCSYTVWAAASKGDAALDAGGRQLNSGESWTINVEPGTNGGKIWARTDCYFDDSGSGICKTGDCGGLLRCKRFGRPPTTLAEFSLNQYGKDYIDISNIKGFNVPMNFSPTTRGCRGVRCAADIVGQCPAKLKAPGGGCNDACTVFQTSEYCCTTGKCGPTEYSRFFKRLCPDAFSYVLDKPTTVTCPGSSNYRVTFCPTA 207
               SCOP domains d3e3sa_ A: automated matches                                                                                                                                                                                    SCOP domains
               CATH domains 3e3sA00 A:1-207 Thaumatin                                                                                                                                                                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....eeeeeeeee....eeeee.......eeeeee...ee.....ee.....................eeeeeeee..eeeeeee........eeeee.......eee..hhhhhhhhhhh.......hhhhhhhhhhhhh.......hhhhhhhhhhh.............eeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) THAUMATIN_2  PDB: A:1-207 UniProt: 1-207                                                                                                                                                                        PROSITE (1)
                PROSITE (2) -------------------------------------------------------------THAUMATIN_1     ---------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3e3s A   1 ATFEIVNRCSYTVWAAASKGDAALDAGGRQLNSGESWTINVEPGTNGGKIWARTDCYFDDSGSGICKTGDCGGLLRCKRFGRPPTTLAEFSLNQYGKDYIDISNIKGFNVPMDFSPTTRGCRGVRCAADIVGQCPAKLKAPGGGCNDACTVFQTSEYCCTTGKCGPTEYSRFFKRLCPDAFSYVLDKPTTVTCPGSSNYRVTFCPTA 207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200

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: All beta proteins (24004)

Fold: Osmotin, thaumatin-like protein (82)

Superfamily: Osmotin, thaumatin-like protein (82)

Family: Osmotin, thaumatin-like protein (80)

Protein domain: automated matches (30)

Ketemfe (Thaumatococcus daniellii) [TaxId: 4621] (25)

d3e3sa_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Thaumatin (38)

Homologous Superfamily: Thaumatin (38)

Katemfe,miracle fruit (Thaumatococcus daniellii) (1)

3e3sA00

A:1-207

(no "Pfam Domain" information available for 3E3S)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (THM1_THADA | P02883)

cellular component
	GO:0031410		cytoplasmic vesicle		A vesicle found in the cytoplasm of a cell.

Chain A (Q8RVT0_THADA | Q8RVT0)

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Pro A:83 - Pro A:84	[ RasMol ]

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3e3d	STRUCTURE OF HEW LYSOZYME WITH THE MAGIC TRIANGLE I3C
3e3t	STRUCTURE OF PORCINE PANCREATIC ELASTASE WITH THE MAGIC TRIANGLE I3C

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (9, 9)

SS Bonds (8, 8)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 1)

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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