1IV2 - JenaLib

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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-CYCLODIPHOSPHATE SYNTHASE (BOUND FORM CDP)

Authors :   H. Kishida, T. Wada, S. Unzai, T. Kuzuyama, T. Terada, M. Sirouzu, S. Yokoyama, J. R. H. Tame, S. -Y. Park, Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   11 Mar 02 (Deposition) - 11 Sep 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.55

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, Non-Mevalonate, Synthase, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Kishida, T. Wada, S. Unzai, T. Kuzuyama, M. Takagi, T. Terada, M. Shirouzu, S. Yokoyama, J. R. Tame, S. Y. Park
Structure And Catalytic Mechanism Of 2-C-Methyl-D-Erythritol 2, 4-Cyclodiphosphate (Mecdp) Synthase, An Enzyme In The Non-Mevalonate Pathway Of Isoprenoid Synthesis.
Acta Crystallogr. , Sect. D V. 59 23 2003
PubMed-ID: 12499535 | Reference-DOI: 10.1107/S0907444902017705
(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
	Expression System Plasmid	:	PET11B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	THERMUS THERMOPHILUS
	Organism Taxid	:	274

		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 (2, 18)

No.	Name	Count	Type	Full Name
1	CDP	6	Ligand/Ion	CYTIDINE-5'-DIPHOSPHATE
2	MG	12	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 3)

No.	Name	Count	Type	Full Name
1	CDP	3	Ligand/Ion	CYTIDINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	CDP	3	Ligand/Ion	CYTIDINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (18, 18)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:8 , HIS A:10 , HIS A:42 , CDP A:1601	BINDING SITE FOR RESIDUE MG A 1561
02	AC2	SOFTWARE	ASP B:208 , HIS B:210 , HIS B:242 , CDP B:1602	BINDING SITE FOR RESIDUE MG B 1562
03	AC3	SOFTWARE	CDP B:1603 , ASP C:408 , HIS C:410 , HIS C:442	BINDING SITE FOR RESIDUE MG C 1563
04	AC4	SOFTWARE	ASP D:1008 , HIS D:1010 , HIS D:1042 , CDP D:1604	BINDING SITE FOR RESIDUE MG D 1564
05	AC5	SOFTWARE	HOH E:453 , ASP E:1208 , HIS E:1210 , HIS E:1242 , CDP E:1605	BINDING SITE FOR RESIDUE MG E 1565
06	AC6	SOFTWARE	CDP E:1606 , ASP F:1408 , HIS F:1410 , HIS F:1442	BINDING SITE FOR RESIDUE MG F 1566
07	AC7	SOFTWARE	CDP A:1601 , HOH A:1638 , HOH A:1662 , HOH A:1668 , GLU C:535	BINDING SITE FOR RESIDUE MG A 1571
08	AC8	SOFTWARE	GLU A:135 , HOH A:1674 , CDP B:1602 , HOH B:1674	BINDING SITE FOR RESIDUE MG B 1572
09	AC9	SOFTWARE	GLU B:335 , CDP B:1603 , HOH B:1690	BINDING SITE FOR RESIDUE MG B 1573
10	BC1	SOFTWARE	HOH D:364 , CDP D:1604 , GLU F:1535	BINDING SITE FOR RESIDUE MG F 1574
11	BC2	SOFTWARE	GLU D:1135 , CDP E:1605	BINDING SITE FOR RESIDUE MG E 1575
12	BC3	SOFTWARE	HOH E:285 , GLU E:1335 , CDP E:1606	BINDING SITE FOR RESIDUE MG E 1576
13	BC4	SOFTWARE	ASP A:8 , HIS A:10 , HIS A:42 , ASP A:56 , GLY A:58 , MG A:1561 , MG A:1571 , HOH A:1608 , HOH A:1638 , HOH A:1650 , HOH A:1664 , HOH A:1666 , HOH A:1681 , HOH A:1696 , LEU C:500 , PRO C:503 , LYS C:504 , LEU C:505 , GLY C:506 , ARG C:509 , PHE C:531 , LYS C:532 , THR C:533 , GLU C:535	BINDING SITE FOR RESIDUE CDP A 1601
14	BC5	SOFTWARE	LEU A:100 , PRO A:103 , LYS A:104 , LEU A:105 , GLY A:106 , ARG A:109 , PHE A:131 , LYS A:132 , THR A:133 , GLU A:135 , HOH A:1674 , ASP B:208 , HIS B:210 , HIS B:242 , ASP B:256 , ILE B:257 , GLY B:258 , MG B:1562 , MG B:1572 , HOH B:1611 , HOH B:1646 , HOH B:1674 , HOH B:1680	BINDING SITE FOR RESIDUE CDP B 1602
15	BC6	SOFTWARE	LEU B:300 , PRO B:303 , LYS B:304 , LEU B:305 , GLY B:306 , ARG B:309 , PHE B:331 , LYS B:332 , THR B:333 , GLU B:335 , MG B:1573 , HOH B:1620 , HOH B:1672 , HOH B:1686 , HOH B:1690 , ASP C:408 , HIS C:410 , HIS C:442 , ASP C:456 , GLY C:458 , MG C:1563 , HOH C:1605	BINDING SITE FOR RESIDUE CDP B 1603
16	BC7	SOFTWARE	HOH D:63 , HOH D:180 , HOH D:364 , ASP D:1008 , HIS D:1010 , HIS D:1042 , ASP D:1056 , GLY D:1058 , MG D:1564 , LEU F:1500 , PRO F:1503 , LYS F:1504 , LEU F:1505 , GLY F:1506 , ARG F:1509 , PHE F:1531 , LYS F:1532 , THR F:1533 , GLU F:1535 , MG F:1574	BINDING SITE FOR RESIDUE CDP D 1604
17	BC8	SOFTWARE	LEU D:1100 , PRO D:1103 , LYS D:1104 , LEU D:1105 , GLY D:1106 , ARG D:1109 , PHE D:1131 , LYS D:1132 , THR D:1133 , GLU D:1135 , HOH E:30 , HOH E:287 , HOH E:427 , HOH E:453 , ASP E:1208 , HIS E:1210 , HIS E:1242 , ASP E:1256 , GLY E:1258 , MG E:1565 , MG E:1575	BINDING SITE FOR RESIDUE CDP E 1605
18	BC9	SOFTWARE	HOH E:57 , HOH E:239 , HOH E:285 , LEU E:1300 , PRO E:1303 , LYS E:1304 , LEU E:1305 , GLY E:1306 , ARG E:1309 , PHE E:1331 , LYS E:1332 , THR E:1333 , GLU E:1335 , MG E:1576 , HOH F:313 , HOH F:469 , ASP F:1408 , HIS F:1410 , HIS F:1442 , ASP F:1456 , ILE F:1457 , GLY F:1458 , MG F:1566	BINDING SITE FOR RESIDUE CDP E 1606

(no "SS Bond" information available for 1IV2)

Asymmetric Unit

No.	Residues
1	Arg A:102	-	Pro A:103
2	Arg B:302	-	Pro B:303
3	Arg C:502	-	Pro C:503
4	Arg D:1102	-	Pro D:1103
5	Arg E:1302	-	Pro E:1303
6	Arg F:1502	-	Pro F:1503

(no "SAP(SNP)/Variant" information available for 1IV2)

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_THET8	35-50	6	A:35-50 B:235-250 C:435-450 D:1035-1050 E:1235-1250 F:1435-1450

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_THET8	35-50	3	A:35-50 B:235-250 C:435-450 - - -

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_THET8	35-50	3	- - - D:1035-1050 E:1235-1250 F:1435-1450

(no "Exon" information available for 1IV2)

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:150
 aligned with ISPF_THET8 | Q8RQP5 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
          ISPF_THET8      2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREALRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLLRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
               SCOP domains d1iv2a_ A: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                   SCOP domains
               CATH domains 1iv2A00 A:2-151  [code=3.30.1330.50, no name defined]                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee....ee..ee....eeee.....hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhhh...eeeeeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeeee........eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------ISPF            ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1iv2 A    2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151

Chain B from PDB  Type:PROTEIN  Length:150
 aligned with ISPF_THET8 | Q8RQP5 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
          ISPF_THET8      2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREALRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLLRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
               SCOP domains d1iv2b_ B: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                   SCOP domains
               CATH domains 1iv2B00 B:202-351  [code=3.30.1330.50, no name defined]                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee...eee..eee...eeee.....hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhhh...eeeeeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeeee........eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------ISPF            ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1iv2 B  202 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  351
                                   211       221       231       241       251       261       271       281       291       301       311       321       331       341       351

Chain C from PDB  Type:PROTEIN  Length:150
 aligned with ISPF_THET8 | Q8RQP5 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
          ISPF_THET8      2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREALRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLLRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
               SCOP domains d1iv2c_ C: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                   SCOP domains
               CATH domains 1iv2C00 C:402-551  [code=3.30.1330.50, no name defined]                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee...eee..eee...eeee.....hhhhhhhhhhhhhh....hhhhhh...hhhhh..hhhhhhhhhhhhhhhh...eeeeeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeeee........eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------ISPF            ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1iv2 C  402 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  551
                                   411       421       431       441       451       461       471       481       491       501       511       521       531       541       551

Chain D from PDB  Type:PROTEIN  Length:150
 aligned with ISPF_THET8 | Q8RQP5 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
          ISPF_THET8      2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREALRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLLRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
               SCOP domains d1iv2d_ D: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                   SCOP domains
               CATH domains 1iv2D00 D:1002-1151  [code=3.30.1330.50, no name defined]                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee...eee..eee...eeee.....hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhh....eeeeeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeeee........eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------ISPF            ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1iv2 D 1002 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD 1151
                                  1011      1021      1031      1041      1051      1061      1071      1081      1091      1101      1111      1121      1131      1141      1151

Chain E from PDB  Type:PROTEIN  Length:150
 aligned with ISPF_THET8 | Q8RQP5 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
          ISPF_THET8      2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREALRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLLRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
               SCOP domains d1iv2e_ E: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                   SCOP domains
               CATH domains 1iv2E00 E:1202-1351  [code=3.30.1330.50, no name defined]                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee...eee..eee...eeee.....hhhhhhhhhhhhhhh...hhhhhh..........hhhhhhhhhhhhhhhh...eeeeeeeee.....hhhhhhhhhhhhhhhh..hhh.eeeeee........eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------ISPF            ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1iv2 E 1202 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD 1351
                                  1211      1221      1231      1241      1251      1261      1271      1281      1291      1301      1311      1321      1331      1341      1351

Chain F from PDB  Type:PROTEIN  Length:150
 aligned with ISPF_THET8 | Q8RQP5 from UniProtKB/Swiss-Prot  Length:152

    Alignment length:150
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151
          ISPF_THET8      2 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREALRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLLRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD  151
               SCOP domains d1iv2f_ F: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF                                                                                   SCOP domains
               CATH domains 1iv2F00 F:1402-1551  [code=3.30.1330.50, no name defined]                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee...eee..eee...eee......hhhhhhhhhhhhhh....hhhhhh..........hhhhhhhhhhhhhhhh...eeeeeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeeee........eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------ISPF            ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1iv2 F 1402 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVLTLDRPKLGPHRKALVDSLSRLMRLPQDRIGLTFKTSEGLAPSHVQARAVVLLD 1551
                                  1411      1421      1431      1441      1451      1461      1471      1481      1491      1501      1511      1521      1531      1541      1551

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)

Thermus thermophilus [TaxId: 274] (4)

1a	d1iv2a_	A:
1b	d1iv2e_	E:
1c	d1iv2f_	F:
1d	d1iv2b_	B:
1e	d1iv2c_	C:
1f	d1iv2d_	D:

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)

Thermus thermophilus. Organism_taxid: 274. (4)

1a	1iv2A00	A:2-151
1b	1iv2E00	E:1202-1351
1c	1iv2F00	F:1402-1551
1d	1iv2B00	B:202-351
1e	1iv2C00	C:402-551
1f	1iv2D00	D:1002-1151

(no "Pfam Domain" information available for 1IV2)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (ISPF_THET8 | Q8RQP5)

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: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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
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.

Asymmetric Unit
	Complete Structure
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	Cis Peptide Bonds
		Arg A:102 - Pro A:103	[ RasMol ]
		Arg B:302 - Pro B:303	[ RasMol ]
		Arg C:502 - Pro C:503	[ RasMol ]
		Arg D:1102 - Pro D:1103	[ RasMol ]
		Arg E:1302 - Pro E:1303	[ RasMol ]
		Arg F:1502 - Pro F:1503	[ RasMol ]

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

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	1iv2
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	ISPF_THET8 \| Q8RQP5
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	4.6.1.12
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	ISPF_THET8 \| Q8RQP5
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UniProtKB/Swiss-Prot
	ISPF_THET8 \| Q8RQP5	:	1iv1 1iv3 1iv4

1iv1	1IV1 CONTAINS THE SAME PROTEIN, WILD TYPE.
1iv3	1IV3 CONTAINS THE SAME PROTEIN BOUND FORM MG ATOMS.
1iv4	1IV4 CONTAINS THE SAME PROTEIN BOUND FORM SUBSTRATE. RELATED ID: TTK003001861.2 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 18)

Sites (18, 18)

SS Bonds (0, 0)

Cis Peptide Bonds (6, 6)

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 (6, 6)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File