4Q5J - 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)

Title :   CRYSTAL STRUCTURE OF SEMET DERIVATIVE BRI1 IN COMPLEX WITH BKI1

Authors :   J. Wang, J. Wang, L. Chen, J. W. Wu, Z. X. Wang

Date :   17 Apr 14 (Deposition) - 29 Oct 14 (Release) - 29 Oct 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.77

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

Keywords :   Kinase Domain, Atp Binding, Phosphorylation, Semet Labelled, Membrane, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Wang, J. Jiang, J. Wang, L. Chen, S. L. Fan, J. W. Wu, X. Wang, Z. X. Wang
Structural Insights Into The Negative Regulation Of Bri1 Signaling By Bri1-Interacting Protein Bki1
Cell Res. 2014
PubMed: search | Reference-DOI: 10.1038/CR.2014.132

Molecule 1 - PROTEIN BRASSINOSTEROID INSENSITIVE 1
	Chains	:	A, B
	EC Number	:	2.7.10.1, 2.7.11.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-DUET
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	KINASE DOMAIN, UNP RESIDUES 863-1180
	Gene	:	AT4G39400, BRI1, F23K16.30
	Organism Common	:	MOUSE-EAR CRESS,THALE-CRESS
	Organism Scientific	:	ARABIDOPSIS THALIANA
	Organism Taxid	:	3702
	Synonym	:	ATBRI1, BRASSINOSTEROID LRR RECEPTOR KINASE

Molecule 2 - BRI1 KINASE INHIBITOR 1
	Chains	:	F, E
	Engineered	:	YES
	Fragment	:	C-TERMINAL PEPTIDE, UNP RESIDUES 306-325
	Organism Common	:	MOUSE-EAR CRESS,THALE-CRESS
	Organism Scientific	:	ARABIDOPSIS THALIANA
	Organism Taxid	:	3702
	Other Details	:	THIS SEQUENCE OCCURS NATURALLY IN ARABIDOPSIS THALIANA.
	Synthetic	:	YES

		1	2	3	4
Asymmetric Unit	:	A	B	E	F
Biological Unit 1 (1x)	:	A		E
Biological Unit 2 (1x)	:		B		F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 34)

No.	Name	Count	Type	Full Name
1	ANP	2	Ligand/Ion	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2	MSE	24	Mod. Amino Acid	SELENOMETHIONINE
3	SEP	6	Mod. Amino Acid	PHOSPHOSERINE
4	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 1 (4, 17)

No.	Name	Count	Type	Full Name
1	ANP	1	Ligand/Ion	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
3	SEP	3	Mod. Amino Acid	PHOSPHOSERINE
4	TPO	1	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 2 (4, 17)

No.	Name	Count	Type	Full Name
1	ANP	1	Ligand/Ion	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
3	SEP	3	Mod. Amino Acid	PHOSPHOSERINE
4	TPO	1	Mod. Amino Acid	PHOSPHOTHREONINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:889 , SER A:891 , GLY A:892 , GLY A:893 , ALA A:909 , LYS A:911 , TYR A:956 , GLU A:957 , PHE A:958 , MSE A:959 , SER A:963 , ASP A:966 , LYS A:1011 , SER A:1013 , ASN A:1014 , LEU A:1016 , ASP A:1027	BINDING SITE FOR RESIDUE ANP A 1201
2	AC2	SOFTWARE	GLY B:892 , GLY B:893 , VAL B:897 , ALA B:909 , LYS B:911 , GLU B:957 , MSE B:959 , GLY B:962 , SER B:963 , ASP B:966 , LYS B:1011 , SER B:1013 , ASN B:1014 , LEU B:1016 , ASP B:1027	BINDING SITE FOR RESIDUE ANP B 1201

(no "SS Bond" information available for 4Q5J)

Asymmetric Unit

No.	Residues
1	Ser A:1002	-	Pro A:1003
2	Ser B:1002	-	Pro B:1003

(no "SAP(SNP)/Variant" information available for 4Q5J)

(no "PROSITE Motif" information available for 4Q5J)

(no "Exon" information available for 4Q5J)

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:298
                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhh...ee.hhhhhhhhh...hhh.eee....eeeeeee.....eeeeeee.....hhhhhhhhhhhhh.......eeeeeee..eeeeeee.............hhhhhhhhhhhhhhhhhhhhhh...eee....hhh.eee.....eee......eee......ee...........hhhhhhh.eehhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh.....hhhhhhhh..hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4q5j A  852 DLEVLFQGPHmAFEKPLRKLTFADLLQATNGFHNDSLIGSGGFGDVYKAILKDGSAVAIKKLIHVSDREFmAEmETIGKIKHRNLVPLLGYCKVGDERLLVYEFmKYGSLEDVLKLNWSTRRKIAIGSARGLAFLHHNCSPHIIHRDmKSSNVLLDENLEARVSDFGmARLmSAmDtHLsVsTLAGTPGYVPPEYYQsFRCSTKGDVYSYGVVLLELLTGKRPTDSPDFGDNNLVGWVKQHAKLRISDVFDPELmKEDPALEIELLQHLKVAVACLDDRAWRRPTmVQVmAmFKEIQA 1160
                                   861|      871       881       891       901       911     ||924|  |   934       944       954    |  964   ||  982       992      1002      1012      1022      1032 |  | 1042 |    1052      1062      1072      1082      1092      1102      1112    | 1122      1132      1142     |1152 |      
                                    862-MSE                                                917|   |  |                            959-MSE  968|                             1010-MSE            1030-MSE  | |  | |            1060-SEP                                                 1117-MSE                       1148-MSE |      
                                                                                            921   |  |                                      977                                                     1034-MSE|  | |                                                                                                        1152-MSE    
                                                                                                925-MSE                                                                                                1037-MSE| |                                                                                                          1154-MSE  
                                                                                                   928-MSE                                                                                               1039-TPO|                                                                                                                    
                                                                                                                                                                                                            1042-SEP                                                                                                                  
                                                                                                                                                                                                              1044-SEP

Chain B from PDB  Type:PROTEIN  Length:294
                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............ee.hhhhhhhhh.......eeee...eeeeeee.....eeeeeee...hhhhhhhhhhhhh.......eeeeeee..eeeeeee.....hhhhhhh...hhhhhhhhhhhhhhhhhhhhhh...eee........eee.....eee......eee......ee...........hhhhhhh.eehhhhhhhhhhhhhhhhhhh............hhhhhhhhh...hhhhh.hhhhhhhh..hhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4q5j B  852 DLEVLFQGPHmPLRKLTFADLLQATNGFHNDSLIGSGGFGDVYKAILKDGSAVAIKKLIHDREFmAEmETIGKIKHRNLVPLLGYCKVGDERLLVYEFmKYGSLEDVLHVKLNWSTRRKIAIGSARGLAFLHHNCSPHIIHRDmKSSNVLLDENLEARVSDFGmARLmSAmDtHLsVsTLAGTPGYVPPEYYQsFRCSTKGDVYSYGVVLLELLTGKRPTDSPDFGDNNLVGWVKQHAKLRISDVFDPELmKEDPALEIELLQHLKVAVACLDDRAWRRPTmVQVmAmFKEIQA 1160
                                   861||     875       885       895       905       915|   |  930       940       950       960       976       986       996      1006   |  1016      1026   |  1036| |  |1046      1056   |  1066      1076      1086      1096      1106      1116|     1126      1136      1146 |   |1156    
                                    862-MSE                                          915|   |  |                            959-MSE   969|                              1010-MSE            1030-MSE  | |  | |            1060-SEP                                                 1117-MSE                       1148-MSE |      
                                     867                                              921   |  |                                       976                                                      1034-MSE|  | |                                                                                                        1152-MSE    
                                                                                          925-MSE                                                                                                  1037-MSE| |                                                                                                          1154-MSE  
                                                                                             928-MSE                                                                                                 1039-TPO|                                                                                                                    
                                                                                                                                                                                                        1042-SEP                                                                                                                  
                                                                                                                                                                                                          1044-SEP

Chain E from PDB  Type:PROTEIN  Length:15
                                                
               SCOP domains --------------- SCOP domains
               CATH domains --------------- CATH domains
               Pfam domains --------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------- SAPs(SNPs)
                    PROSITE --------------- PROSITE
                 Transcript --------------- Transcript
                4q5j E  308 MEELQAAIQAAIAHC  322
                                   317

Chain F from PDB  Type:PROTEIN  Length:16
                                                 
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                4q5j F  307 TMEELQAAIQAAIAHC  322
                                   316

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 4Q5J)

(no "CATH Domain" information available for 4Q5J)

(no "Pfam Domain" information available for 4Q5J)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		ANP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MSE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SEP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		TPO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ser A:1002 - Pro A:1003	[ RasMol ]
		Ser B:1002 - Pro B:1003	[ 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
	4q5j
		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
	BKI1_ARATH \| Q9FMZ0
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	BRI1_ARATH \| O22476
		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)
	2.7.10.1
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc
	2.7.11.1
		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
	BKI1_ARATH \| Q9FMZ0
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	BRI1_ARATH \| O22476
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	BKI1_ARATH \| Q9FMZ0	:	4oh4
	BRI1_ARATH \| O22476	:	3rgx 3rgz 3riz 3rj0 4lsa 4lsx 4m7e 4oh4 5lpb 5lpv 5lpw 5lpy 5lpz

4oh4	4OH4 IS THE NATIVE PROTEIN WHILE THIS ONE IS SEMET LABELLED.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 34)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (38, 43)

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