4G0N - JenaLib

Title :   CRYSTAL STRUCTURE OF WT H-RAS-GPPNHP BOUND TO THE RBD OF RAF KINASE

Authors :   S. K. Fetics, B. M. Kearney, G. Buhrman, C. Mattos

Date :   09 Jul 12 (Deposition) - 17 Jul 13 (Release) - 11 Mar 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.45

Chains :   Asym./Biol. Unit : A,B

Keywords :   H-Ras, Ras, Raf Kinase, Raf, Gtpase, Allosteric Regulation, Intrinsic Hydrolysis, Protein-Protein Interaction, Ras/Raf/Mek/Erk, Kinase, Gtp Binding, Protein Binding-Transferase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. K. Fetics, H. Guterres, B. M. Kearney, G. Buhrman, B. Ma, R. Nussinov C. Mattos
Allosteric Effects Of The Oncogenic Rasq61L Mutant On Raf-Rbd.
Structure V. 23 505 2015
PubMed-ID: 25684575 | Reference-DOI: 10.1016/J.STR.2014.12.017

Compounds

Molecule 1 - GTPASE HRAS
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 1-166
	Gene	:	HRAS, HRAS1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	H-RAS-1, HA-RAS, TRANSFORMING PROTEIN P21, C-H-RAS, P21RAS, GTPASE HRAS, N-TERMINALLY PROCESSED

Molecule 2 - RAF PROTO-ONCOGENE SERINE/THREONINE-PROTEIN KINASE
	Chains	:	B
	EC Number	:	2.7.11.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET302/NT-HIS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 54-131
	Gene	:	RAF1, RAF
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	PROTO-ONCOGENE C-RAF, CRAF, RAF-1

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 6)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:12 , GLY A:13 , VAL A:14 , GLY A:15 , LYS A:16 , SER A:17 , ALA A:18 , PHE A:28 , VAL A:29 , ASP A:30 , GLU A:31 , PRO A:34 , THR A:35 , GLY A:60 , ASN A:116 , LYS A:117 , ASP A:119 , LEU A:120 , SER A:145 , ALA A:146 , LYS A:147 , MG A:203 , HOH A:301 , HOH A:317 , HOH A:335 , HOH A:344 , HOH A:364 , HOH A:365	BINDING SITE FOR RESIDUE GNP A 201
2	AC2	SOFTWARE	ASP A:107 , TYR A:137 , ACT A:205 , HOH A:345 , HOH A:346 , HOH A:347	BINDING SITE FOR RESIDUE CA A 202
3	AC3	SOFTWARE	SER A:17 , THR A:35 , ASP A:57 , GNP A:201 , HOH A:335 , HOH A:344	BINDING SITE FOR RESIDUE MG A 203
4	AC4	SOFTWARE	HOH A:332 , HOH A:333	BINDING SITE FOR RESIDUE CA A 204
5	AC5	SOFTWARE	ARG A:97 , ASP A:107 , ASP A:108 , VAL A:109 , MET A:111 , TYR A:137 , CA A:202 , HOH A:345	BINDING SITE FOR RESIDUE ACT A 205
6	AC6	SOFTWARE	ARG A:68 , ASP A:92 , GLN A:95 , TYR A:96 , GLN A:99	BINDING SITE FOR RESIDUE DTU A 206

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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:164
                                                                                                                                                                                                    
               SCOP domains d4g0na_ A: cH-p21 Ras protein                                                                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhh...........eeeeeeeee..eeeeeeeee.......hhhhhhhhh.eeeeeee..hhhhhhhhhhhhhhhhhhhh.....eeeeee.........hhhhhhhhhhhhh..eee.......hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g0n A   1 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166
                                    10        20        30        40        50        60  ||    72        82        92       102       112       122       132       142       152       162    
                                                                                         63|                                                                                                    
                                                                                          66

Chain B from PDB  Type:PROTEIN  Length:78
                                                                                                              
               SCOP domains d4g0nb_ B: c-Raf1 RBD                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeee...eeeeee.....hhhhhhhhhhhh...hhh.eeeeee.......eee.....hhhhhh..eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------ Transcript
                 4g0n B  54 TSNTIRVFLPNKQRTVVNVRNGMSLHDCLMKALKVRGLQPECCAVFRLLHEHKGKKARLDWNTDAASLIGEELQVDFL 131
                                    63        73        83        93       103       113       123

Legend:		→ Mismatch	(orange background)
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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 (2, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (109, 125)

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	Ligands, Modified Residues, Ions
		ACT	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		DTU	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		GNP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4g0n)

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Description