2AMT - JenaLib

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Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   STRUCTURE OF 2C-METHYL-D-ERYTHRITOL 2,4-CLYCODIPHOSPHATE SYNTHASE COMPLEXED WITH A CDP DERIVED FLUORESCENT INHIBITOR

Authors :   N. L. Ramsden, W. N. Hunter

Date :   10 Aug 05 (Deposition) - 28 Feb 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C  (1x)
Biol. Unit 2: D,E,F  (1x)

Keywords :   Isoprenoid, Lyase, Isoprene Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. M. Crane, J. Kaiser, N. L. Ramsden, S. Lauw, F. Rohdich, W. Eisenreich, W. N. Hunter, A. Bacher, F. Diederich
Fluorescent Inhibitors For Ispf, An Enzyme In The Non-Mevalonate Pathway For Isoprenoid Biosynthesis And A Potential Target For Antimalarial Therapy.
Angew. Chem. Int. Ed. Engl. V. 45 1069 2006
PubMed-ID: 16392111 | Reference-DOI: 10.1002/ANIE.200503003
(for further references see the PDB file header)

Molecule 1 - 2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE
	Chains	:	A, B, C, D, E, F
	EC Number	:	4.6.1.12
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	ISPF, MECS
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	MECPS, MECDP-SYNTHASE

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B	C
Biological Unit 2 (1x)	:				D	E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 14)

No.	Name	Count	Type	Full Name
1	1AA	6	Ligand/Ion	5'-O-[({[(2-{[(2-AMINOPHENYL)CARBONYL]OXY}ETHYL)OXY]PHOSPHINATO}OXY)PHOSPHINATO]CYTIDINE
2	GPP	2	Ligand/Ion	GERANYL DIPHOSPHATE
3	ZN	6	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	1AA	3	Ligand/Ion	5'-O-[({[(2-{[(2-AMINOPHENYL)CARBONYL]OXY}ETHYL)OXY]PHOSPHINATO}OXY)PHOSPHINATO]CYTIDINE
2	GPP	1	Ligand/Ion	GERANYL DIPHOSPHATE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	1AA	3	Ligand/Ion	5'-O-[({[(2-{[(2-AMINOPHENYL)CARBONYL]OXY}ETHYL)OXY]PHOSPHINATO}OXY)PHOSPHINATO]CYTIDINE
2	GPP	1	Ligand/Ion	GERANYL DIPHOSPHATE
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:8 , HIS A:10 , HIS A:34 , HIS A:42 , 1AA A:1901	BINDING SITE FOR RESIDUE ZN A 1900
02	AC2	SOFTWARE	ASP B:8 , HIS B:10 , HIS B:42 , 1AA C:2901	BINDING SITE FOR RESIDUE ZN B 2900
03	AC3	SOFTWARE	ASP C:8 , HIS C:10 , HIS C:42 , 1AA C:3901	BINDING SITE FOR RESIDUE ZN C 3900
04	AC4	SOFTWARE	ASP D:8 , HIS D:10 , HIS D:42 , 1AA E:4901	BINDING SITE FOR RESIDUE ZN D 4900
05	AC5	SOFTWARE	ASP E:8 , HIS E:10 , HIS E:42 , 1AA E:5901	BINDING SITE FOR RESIDUE ZN E 5900
06	AC6	SOFTWARE	1AA D:6901 , ASP F:8 , HIS F:10 , HIS F:42	BINDING SITE FOR RESIDUE ZN F 6900
07	AC7	SOFTWARE	ASP A:8 , HIS A:10 , HIS A:34 , ASP A:56 , GLY A:58 , PHE A:61 , ZN A:1900 , HOH A:7911 , ALA B:100 , PRO B:103 , LYS B:104 , MET B:105 , LEU B:106 , ALA B:131 , THR B:132 , THR B:133 , GLU B:135	BINDING SITE FOR RESIDUE 1AA A 1901
08	AC8	SOFTWARE	ASP B:8 , HIS B:34 , SER B:35 , HIS B:42 , ASP B:56 , ILE B:57 , GLY B:58 , LEU B:76 , ZN B:2900 , ALA C:100 , PRO C:103 , LYS C:104 , MET C:105 , LEU C:106 , ALA C:131 , THR C:132 , THR C:133 , HOH C:3942	BINDING SITE FOR RESIDUE 1AA C 2901
09	AC9	SOFTWARE	ALA A:100 , PRO A:103 , LYS A:104 , MET A:105 , LEU A:106 , ALA A:131 , THR A:132 , THR A:133 , GLU A:135 , ASP C:8 , HIS C:10 , ALA C:33 , HIS C:34 , SER C:35 , HIS C:42 , ASP C:56 , ILE C:57 , GLY C:58 , ASP C:63 , ZN C:3900 , HOH C:3927	BINDING SITE FOR RESIDUE 1AA C 3901
10	BC1	SOFTWARE	GLY A:138 , PHE A:139 , THR A:140 , ARG A:142 , PHE B:7 , GLY B:138 , PHE B:139 , ARG B:142 , PHE C:7 , GLY C:138 , PHE C:139 , ARG C:142 , GLU C:149	BINDING SITE FOR RESIDUE GPP A 7903
11	BC2	SOFTWARE	ASP D:8 , HIS D:10 , HIS D:34 , SER D:35 , ASP D:56 , GLY D:58 , ZN D:4900 , HOH D:8912 , ALA E:100 , PRO E:103 , LYS E:104 , MET E:105 , LEU E:106 , ALA E:131 , THR E:132 , THR E:133 , GLU E:135 , HOH E:5934	BINDING SITE FOR RESIDUE 1AA E 4901
12	BC3	SOFTWARE	ASP E:8 , HIS E:10 , HIS E:34 , SER E:35 , HIS E:42 , ASP E:56 , ILE E:57 , GLY E:58 , PHE E:61 , ASP E:63 , LEU E:76 , ZN E:5900 , HOH E:5903 , HOH E:5912 , ALA F:100 , PRO F:103 , LYS F:104 , MET F:105 , LEU F:106 , ALA F:131 , THR F:132 , THR F:133 , GLU F:135 , HOH F:6926	BINDING SITE FOR RESIDUE 1AA E 5901
13	BC4	SOFTWARE	ALA D:100 , PRO D:103 , LYS D:104 , MET D:105 , LEU D:106 , ALA D:131 , THR D:132 , THR D:133 , GLU D:135 , ASP F:8 , HIS F:10 , HIS F:34 , ASP F:56 , ILE F:57 , GLY F:58 , PHE F:61 , LEU F:76 , ZN F:6900 , HOH F:6903	BINDING SITE FOR RESIDUE 1AA D 6901
14	BC5	SOFTWARE	GLY D:138 , PHE D:139 , ARG D:142 , GLU D:149 , PHE E:7 , GLY E:138 , PHE E:139 , ARG E:142 , PHE F:7 , GLY F:138 , PHE F:139 , ARG F:142	BINDING SITE FOR RESIDUE GPP D 8903

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

Asymmetric Unit

No.	Residues
1	Ala A:102	-	Pro A:103
2	Ala B:102	-	Pro B:103
3	Gly C:16	-	Pro C:17
4	Ala C:102	-	Pro C:103
5	Gly D:16	-	Pro D:17
6	Ala E:102	-	Pro E:103
7	Gly F:16	-	Pro F:17
8	Ala F:102	-	Pro F:103

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

Asymmetric Unit (1, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ISPF	PS01350	2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase signature.	ISPF_ECOLI	35-50	6	A:35-50 B:35-50 C:35-50 D:35-50 E:35-50 F:35-50

Biological Unit 1 (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ISPF	PS01350	2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase signature.	ISPF_ECOLI	35-50	3	A:35-50 B:35-50 C:35-50 - - -

Biological Unit 2 (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ISPF	PS01350	2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase signature.	ISPF_ECOLI	35-50	3	- - - D:35-50 E:35-50 F:35-50

(no "Exon" information available for 2AMT)

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:156
 aligned with ISPF_ECOLI | P62617 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
           ISPF_ECOLI     1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
               SCOP domains d2amta_ A: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                         SCOP domains
               CATH domains 2amtA00 A:1-156  [code=3.30.1330.50, no name defined]                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee......eee..eee............hhhhhhhhhhhhhhh...hhhhhh...hhhhh..hhhhhhhhhhhhhhh...eeeeeeeeee........hhhhhhhhhhhhh..hhh.eeeeee....hhhhhh..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------ISPF            ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2amt A   1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain B from PDB  Type:PROTEIN  Length:156
 aligned with ISPF_ECOLI | P62617 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
           ISPF_ECOLI     1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
               SCOP domains d2amtb_ B: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                         SCOP domains
               CATH domains 2amtB00 B:1-156  [code=3.30.1330.50, no name defined]                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeee.....eee..eee.....ee.....hhhhhhhhhhhhhhh...hhhhhh...hhhhh..hhhhhhhhhhhhhhhh..eeeeeeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeeee....hhhhhh..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------ISPF            ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2amt B   1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain C from PDB  Type:PROTEIN  Length:156
 aligned with ISPF_ECOLI | P62617 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
           ISPF_ECOLI     1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
               SCOP domains d2amtc_ C: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                         SCOP domains
               CATH domains 2amtC00 C:1-156  [code=3.30.1330.50, no name defined]                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee....eee..eee....ee......hhhhhhhhhhhhhhhh...........hhhhh..hhhhhhhhhhhhhhhh..eeeeeeeeee.....hhhhhhhhhhhhhhhh..hhh.eeeeee....hhhhhh..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------ISPF            ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2amt C   1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain D from PDB  Type:PROTEIN  Length:156
 aligned with ISPF_ECOLI | P62617 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
           ISPF_ECOLI     1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
               SCOP domains d2amtd_ D: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                         SCOP domains
               CATH domains 2amtD00 D:1-156  [code=3.30.1330.50, no name defined]                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeee.....eee..eee.....ee.....hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhhh..eeeeeeeeee........hhhhhhhhhhhhh..hhh.eeeeee....hhhhhh..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------ISPF            ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2amt D   1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain E from PDB  Type:PROTEIN  Length:156
 aligned with ISPF_ECOLI | P62617 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
           ISPF_ECOLI     1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
               SCOP domains d2amte_ E: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                         SCOP domains
               CATH domains 2amtE00 E:1-156  [code=3.30.1330.50, no name defined]                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee......eee..eee............hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhhh..eeeeeeeeee........hhhhhhhhhhhhhh.hhh.eeeeee....hhhhhh..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------ISPF            ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2amt E   1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

Chain F from PDB  Type:PROTEIN  Length:156
 aligned with ISPF_ECOLI | P62617 from UniProtKB/Swiss-Prot  Length:159

    Alignment length:156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      
           ISPF_ECOLI     1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
               SCOP domains d2amtf_ F: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                         SCOP domains
               CATH domains 2amtF00 F:1-156  [code=3.30.1330.50, no name defined]                                                                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeee......eee..eee............hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhh...eeeeeeeeee........hhhhhhhhhhhhhh.hhh.eeeeee....hhhhhh..eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------ISPF            ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2amt F   1 MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Bacillus chorismate mutase-like (324)

Superfamily: IpsF-like (56)

Family: IpsF-like (35)

Protein domain: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF (27)

Escherichia coli [TaxId: 562] (13)

1a	d2amta_	A:
1b	d2amtb_	B:
1c	d2amtc_	C:
1d	d2amtd_	D:
1e	d2amte_	E:
1f	d2amtf_	F:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: 60s Ribosomal Protein L30; Chain: A; (235)

Homologous Superfamily: [code=3.30.1330.50, no name defined] (46)

Escherichia coli. Organism_taxid: 562. (9)

1a	2amtA00	A:1-156
1b	2amtB00	B:1-156
1c	2amtC00	C:1-156
1d	2amtD00	D:1-156
1e	2amtE00	E:1-156
1f	2amtF00	F:1-156

(no "Pfam Domain" information available for 2AMT)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (ISPF_ECOLI | P62617)

molecular function
	GO:0008685	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity	Catalysis of the reaction: 4-CDP-2-C-methyl-D-erythritol 2-phosphate = 2-C-methyl-D-erythritol 2,4-cyclic diphosphate + CMP.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0030145	manganese ion binding	Interacting selectively and non-covalently with manganese (Mn) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0019288	isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway	The chemical reactions and pathways resulting in the formation of isopentenyl diphosphate by the mevalonate-independent pathway. Isopentenyl diphosphate (IPP) is the fundamental unit in isoprenoid biosynthesis and is biosynthesized from pyruvate and glyceraldehyde 3-phosphate via intermediates, including 1-deoxy-D-xylulose 5-phosphate.
	GO:0008299	isoprenoid biosynthetic process	The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.
	GO:0016114	terpenoid biosynthetic process	The chemical reactions and pathways resulting in the formation of terpenoids, any member of a class of compounds characterized by an isoprenoid chemical structure.
	GO:0006744	ubiquinone biosynthetic process	The chemical reactions and pathways resulting in the formation of ubiquinone, a lipid-soluble electron-transporting coenzyme.

Asymmetric Unit
	Complete Structure
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	Ligands, Modified Residues, Ions
		1AA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		GPP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
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		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]
		BC3	[ RasMol ]	+environment [ RasMol ]
		BC4	[ RasMol ]	+environment [ RasMol ]
		BC5	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala A:102 - Pro A:103	[ RasMol ]
		Ala B:102 - Pro B:103	[ RasMol ]
		Ala C:102 - Pro C:103	[ RasMol ]
		Ala E:102 - Pro E:103	[ RasMol ]
		Ala F:102 - Pro F:103	[ RasMol ]
		Gly C:16 - Pro C:17	[ RasMol ]
		Gly D:16 - Pro D:17	[ RasMol ]
		Gly F:16 - Pro F:17	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2amt
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	ISPF_ECOLI \| P62617
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	4.6.1.12
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	ISPF_ECOLI \| P62617
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

1gx1	THE SAME PROTEIN COMPLEXED WITH CDP
1knj	THE SAME PROTEIN COMPLEXED WITH C5P AND CDI
1u3p	THE SAME PROTEIN BUT NATIVE
2ao4	THE SAME PROTEIN WITH A CDP DERIVED FLUORESCENT DERIVATIVE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 14)

Sites (14, 14)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 6)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 6)

CATH Domains (1, 6)

Pfam Domains (0, 0)

Gene Ontology (10, 10)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File