4H58 - JenaLib

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)

Biological Unit 3 (Jmol Viewer)

Title :   BRAF IN COMPLEX WITH COMPOUND 3

Authors :   M. Vasbinder, B. Aquila, M. Augustin, T. Chueng, D. Cook, L. Drew, B. Fau S. Glossop, R. Godin, M. Grondine, E. Hennessy, J. Johannes, S. Lee, P. M. Moertl, C. Omer, S. Palakurthi, T. Pontz, J. Read, L. Sha, M. Shen, S. Steinbacher, H. Wang, A. Wu, M. Ye, B. Bagal

Date :   18 Sep 12 (Deposition) - 27 Feb 13 (Release) - 27 Mar 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.10

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)

Keywords :   Protein Kinase, Structure Based Drug Discovery, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. M. Vasbinder, B. Aquila, M. Augustin, H. Chen, T. Cheung, D. Cook, L. Drew, B. P. Fauber, S. Glossop, M. Grondine, E. Hennessy, J. Johannes, S. Lee, P. Lyne, M. Mortl, C. Omer, S. Palakurthi, T. Pontz J. Read, L. Sha, M. Shen, S. Steinbacher, H. Wang, A. Wu, M. Ye
Discovery And Optimization Of A Novel Series Of Potent Mutant B-Raf(V600E) Selective Kinase Inhibitors.
J. Med. Chem. V. 56 1996 2013
PubMed-ID: 23398453 | Reference-DOI: 10.1021/JM301658D

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE B-RAF
	Chains	:	A, B, C
	EC Number	:	2.7.11.1
	Engineered	:	YES
	Expression System	:	SPODOPTERA FRUGIPERDA
	Expression System Common	:	FALL ARMYWORM
	Expression System Taxid	:	7108
	Fragment	:	PROTEIN KINASE DOMAIN (UNP RESIDUES 448-722)
	Gene	:	BRAF, BRAF1, RAFB1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	PROTO-ONCOGENE B-RAF, P94, V-RAF MURINE SARCOMA VIRAL ONCOGENE HOMOLOG B1

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	10Z	1	Ligand/Ion	N-(4-{[(2-METHOXYETHYL)AMINO]METHYL}PHENYL)-6-(PYRIDIN-4-YL)QUINAZOLIN-2-AMINE
2	CL	1	Ligand/Ion	CHLORIDE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	10Z	1	Ligand/Ion	N-(4-{[(2-METHOXYETHYL)AMINO]METHYL}PHENYL)-6-(PYRIDIN-4-YL)QUINAZOLIN-2-AMINE
2	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	10Z	-1	Ligand/Ion	N-(4-{[(2-METHOXYETHYL)AMINO]METHYL}PHENYL)-6-(PYRIDIN-4-YL)QUINAZOLIN-2-AMINE
2	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	10Z	-1	Ligand/Ion	N-(4-{[(2-METHOXYETHYL)AMINO]METHYL}PHENYL)-6-(PYRIDIN-4-YL)QUINAZOLIN-2-AMINE
2	CL	-1	Ligand/Ion	CHLORIDE ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:470 , LEU A:513 , THR A:528 , TRP A:530 , CYS A:531 , HIS A:538 , PHE A:582	BINDING SITE FOR RESIDUE 10Z A 801

(no "SS Bond" information available for 4H58)

Asymmetric Unit

No.	Residues
1	Lys A:521	-	Pro A:522
2	Lys B:521	-	Pro B:522
3	Lys C:521	-	Pro C:522

(no "SAP(SNP)/Variant" information available for 4H58)

(no "PROSITE Motif" information available for 4H58)

(no "Exon" information available for 4H58)

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:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains d4h58a_ A: automated matches                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeeeee.....eeeeee...eeeeeee.......hhhhhhhhhhhhhh.........eeeee....eeeeee.....hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eeeehhheeee......ee........hhhhhhh......hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh....hhhhh....hhhhhhhhhhhhh.hhhhh.hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h58 A 447 DDWEIPDGQITVGQRIGSGSFGTVYKGKWHGDVAVKMLNVTAPTPQQLQAFKNEVGVLRKTRHVNILLFMGYSTKPQLAIVTQWCEGSSLYHHLHIIETKFEMIKLIDIARQTAQGMDYLHAKSIIHRDLKSNNIFLHEDLTVKIGDFGLATVKSGSILWMAPEVIRMQDKNPYSFQSDVYAFGIVLYELMTGQLPYSNINNRDQIIFMVGRGYLSPDLSKVRSNCPKAMKRLMAECLKKKRDERPLFPQILASIELLARSLP 721
                                   456       466       476       486       496       506       516       526       536       546       556       566       576       586       596   ||  618       628       638       648       658       668       678       688       698       708       718   
                                                                                                                                                                                   600|                                                                                                            
                                                                                                                                                                                    613

Chain B from PDB  Type:PROTEIN  Length:262
                                                                                                                                                                                                                                                                                                      
               SCOP domains d4h58b_ B: automated matches                                                                                                                                                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeee..eeeeeee...eeeeee......hhhhhhhhhhhhhhhh.........eeeee.....eeeee.....hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeehhheeee...............hhhhhhh......hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh..............hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h58 B 447 DDWEIPDGQITVGQRIGSGSFGTVYKGKWHGDVAVKMLNVTAPTPQQLQAFKNEVGVLRKTRHVNILLFMGYSTKPQLAIVTQWCEGSSLYHHLHIIETKFEMIKLIDIARQTAQGMDYLHAKSIIHRDLKSNNIFLHEDLTVKIGDFGLATLSGSILWMAPEVIRMQDKNPYSFQSDVYAFGIVLYELMTGQLPYSNINNRDQIIFMVGRGYLSPDLSKVRSNCPKAMKRLMAECLKKKRDERPLFPQILASIELLARSLP 721
                                   456       466       476       486       496       506       516       526       536       546       556       566       576       586       596 ||    619       629       639       649       659       669       679       689       699       709       719  
                                                                                                                                                                                 598|                                                                                                             
                                                                                                                                                                                  612

Chain C from PDB  Type:PROTEIN  Length:272
                                                                                                                                                                                                                                                                                                                
               SCOP domains d4h58c_ C: automated matches                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeee.....eeeeee...eeeeee......hhhhhhhhhhhhhhhh.........eeeee.....eeeee...eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh...........eeee...eeee..hhhhh.....................hhhhhh.....hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh....hhhhh....hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h58 C 448 DWEIPDGQITVGQRIGSGSFGTVYKGKWHGDVAVKMLNVTAPTPQQLQAFKNEVGVLRKTRHVNILLFMGYSTKPQLAIVTQWCEGSSLYHHLHIIETKFEMIKLIDIARQTAQGMDYLHAKSIIHRDLKSNNIFLHEDLTVKIGDFGLATVKSRWSGSHQFEQLSGSILWMAPEVIRMQNPYSFQSDVYAFGIVLYELMTGQLPYSNINNRDQIIFMVGRGYLSPDLSKVRSNCPKAMKRLMAECLKKKRDERPLFPQILASIELLARSLP 721
                                   457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627|      639       649       659       669       679       689       699       709       719  
                                                                                                                                                                                                             627|                                                                                           
                                                                                                                                                                                                              630

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: Protein kinase-like (PK-like) (2589)

Superfamily: Protein kinase-like (PK-like) (2589)

Family: Protein kinases, catalytic subunit (1977)

Protein domain: automated matches (542)

Human (Homo sapiens) [TaxId: 9606] (452)

1a	d4h58a_	A:
1b	d4h58b_	B:
1c	d4h58c_	C:

(no "CATH Domain" information available for 4H58)

(no "Pfam Domain" information available for 4H58)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		10Z	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Lys A:521 - Pro A:522	[ RasMol ]
		Lys B:521 - Pro B:522	[ RasMol ]
		Lys C:521 - Pro C:522	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]

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	4h58
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		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
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	2.7.11.1
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(no "Related Entries Specified in the PDB File" available for 4H58)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (1, 3)

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Gene Ontology (64, 64)

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