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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   MOAC IN COMPLEX WITH CPMP CRYSTALLIZED IN SPACE GROUP P212121

Authors :   N. K. Tonthat, B. M. Hover, K. Yokoyama, M. A. Schumacher

Date :   26 Mar 14 (Deposition) - 29 Apr 15 (Release) - 03 Jun 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.19

Chains :   Asym./Biol. Unit : A,B,C,D,E,F

Keywords :   Moac, Molybdenum Cofactor, Moco, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. M. Hover, N. K. Tonthat, M. A. Schumacher, K. Yokoyama
Mechanism Of Pyranopterin Ring Formation In Molybdenum Cofactor Biosynthesis.
Proc. Natl. Acad. Sci. Usa V. 112 6347 2015
PubMed-ID: 25941396 | Reference-DOI: 10.1073/PNAS.1500697112

Molecule 1 - MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN MOAC
	Chains	:	A, B, C, D, E, F
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	83333

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

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 9)

No.	Name	Count	Type	Full Name
1	8CS	4	Ligand/Ion	(2R,4AR,5AR,11AR,12AS)-8-AMINO-2-HYDROXY-4A,5A,9,11,11A,12A-HEXAHYDRO[1,3,2]DIOXAPHOSPHININO[4',5':5,6]PYRANO[3,2-G]PTERIDINE-10,12(4H,6H)-DIONE 2-OXIDE
2	DTT	1	Ligand/Ion	2,3-DIHYDROXY-1,4-DITHIOBUTANE
3	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
4	GOL	2	Ligand/Ion	GLYCEROL

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:21 , CYS A:76 , HIS A:77 , LEU A:79 , THR A:109 , GLY A:110 , GLU A:112 , MET A:113 , GLU A:114 , LYS B:131	BINDING SITE FOR RESIDUE 8CS A 201
2	AC2	SOFTWARE	LYS A:51 , LYS A:131 , LYS B:21 , CYS B:76 , HIS B:77 , LEU B:79 , LYS B:108 , THR B:109 , GLY B:110 , GLU B:112 , MET B:113 , GLU B:114 , LYS B:147	BINDING SITE FOR RESIDUE 8CS B 201
3	AC3	SOFTWARE	LYS C:21 , ARG C:26 , LYS C:147 , GLY C:150 , LYS C:151 , SER C:152	BINDING SITE FOR RESIDUE EDO C 201
4	AC4	SOFTWARE	HIS C:6 , CYS C:76 , HIS C:77 , THR C:109 , ASP E:128 , LYS E:131	BINDING SITE FOR RESIDUE GOL C 202
5	AC5	SOFTWARE	HIS D:6 , CYS D:76 , HIS D:77 , THR D:109 , ASP F:128 , LYS F:131	BINDING SITE FOR RESIDUE GOL D 201
6	AC6	SOFTWARE	LYS C:51 , LYS C:131 , LYS E:21 , CYS E:76 , HIS E:77 , LEU E:79 , THR E:109 , GLY E:110 , GLU E:112 , MET E:113 , GLU E:114	BINDING SITE FOR RESIDUE 8CS E 201
7	AC7	SOFTWARE	LYS D:51 , LYS D:131 , CYS F:76 , HIS F:77 , LEU F:79 , THR F:109 , GLY F:110 , GLU F:112 , MET F:113 , GLU F:114	BINDING SITE FOR RESIDUE 8CS F 201
8	AC8	SOFTWARE	ARG F:68 , ASP F:71	BINDING SITE FOR RESIDUE EDO F 202

(no "SS Bond" information available for 4PYD)

Asymmetric/Biological Unit

No.	Residues
1	Ser A:19	-	Ala A:20
2	Gly A:140	-	Pro A:141
3	Gly B:140	-	Pro B:141
4	Gly C:140	-	Pro C:141
5	Gly D:140	-	Pro D:141
6	Gly E:140	-	Pro E:141
7	Gly F:140	-	Pro F:141

(no "SAP(SNP)/Variant" information available for 4PYD)

(no "PROSITE Motif" information available for 4PYD)

(no "Exon" information available for 4PYD)

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:142
                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeee.hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.........eeeeeeeeehhh.eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeee...ee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyd A  13 AHMVDVSAKAETVREARAEAFVTMRSETLAMIIDGRHHKGDVFATARIAGIQAAKRTWDLIPLCHPLMLSKVEVNLQAEPEHNRVRIETLCRLTGKTGVEMEALTAASVAALTIYDMCKAVQKDMVIGPVRLLAKSGGDFKV 157
                                    22        32        42        52        62        72        82        92       102       112       122       132       142      |155  
                                                                                                                                                                  149|    
                                                                                                                                                                   153

Chain B from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................eeeeeeeeeeee.hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.........eeeeeeeeehhh.eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyd B   7 INAAGEAHMVDVSAKAETVREARAEAFVTMRSETLAMIIDGKGDVFATARIAGIQAAKRTWDLIPLCHPLMLSKVEVNLQAEPEHNRVRIETLCRLTGKTGVEMEALTAASVAALTIYDMCKAVQKDMVIGPVRLLAKSG 149
                                    16        26        36        46||      59        69        79        89        99       109       119       129       139       149
                                                                   47|                                                                                                  
                                                                    51

Chain C from PDB  Type:PROTEIN  Length:154
                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................eeeeeeeeeeee.hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.........eeeeeeeeehhh.eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh......ee...eeeeee......ee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyd C   4 LTHINAAGEAHMVDVSAKAETVREARAEAFVTMRSETLAMIIDGRHHKGDVFATARIAGIQAAKRTWDLIPLCHPLMLSKVEVNLQAEPEHNRVRIETLCRLTGKTGVEMEALTAASVAALTIYDMCKAVQKDMVIGPVRLLAKSGGKSGDFKV 157
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain D from PDB  Type:PROTEIN  Length:150
                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...................eeeeeeeeeeee.hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.........eeeeeeeeehhh.eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4pyd D   5 THINAAGEAHMVDVSAKAETVREARAEAFVTMRSETLAMIIDGRHHKGDVFATARIAGIQAAKRTWDLIPLCHPLMLSKVEVNLQAEPEHNRVRIETLCRLTGKTGVEMEALTAASVAALTIYDMCKAVQKDMVIGPVRLLAKSGGKDFK 156
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144      |156
                                                                                                                                                                            151|  
                                                                                                                                                                             154

Chain E from PDB  Type:PROTEIN  Length:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeeeeeeeeeee...........hhhhhhhhhhhhhhhhhhhh.........eeeeeeeee....eeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyd E   9 AAGEAHMVDVSAKAETVREARAEAFVTMRSETLAMIIDVFATARIAGIQAAKRTWDLIPLCHPLMLSKVEVNLQAEPEHNRVRIETLCRLTGKTGVEMEALTAASVAALTIYDMCKAVQKDMVIGPVRLLAKS 148
                                    18        28        38      ||55        65        75        85        95       105       115       125       135       145   
                                                               45|                                                                                               
                                                                53

Chain F from PDB  Type:PROTEIN  Length:122
                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.........eeeeeeeeehhh.eeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhh......eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pyd F  24 TVREARAEAFVTMRSETLAMIIDGRHHKGDVFATARIAGIQAAKRTWDLIPLCHPLMLSKVEVNLQAEPEHNRVRIETLCRLTGKTGVEMEALTAASVAALTIYDMCKAVQKDMVIGPVRLL 145
                                    33        43        53        63        73        83        93       103       113       123       133       143

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 '\|'

(no "SCOP Domain" information available for 4PYD)

(no "CATH Domain" information available for 4PYD)

(no "Pfam Domain" information available for 4PYD)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Gly A:140 - Pro A:141	[ RasMol ]
		Gly B:140 - Pro B:141	[ RasMol ]
		Gly C:140 - Pro C:141	[ RasMol ]
		Gly D:140 - Pro D:141	[ RasMol ]
		Gly E:140 - Pro E:141	[ RasMol ]
		Gly F:140 - Pro F:141	[ RasMol ]
		Ser A:19 - Ala A:20	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 9)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (7, 7)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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