5UFU - JenaLib

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Title :   STRUCTURE OF AMPK BOUND TO ACTIVATOR

Authors :   M. F. Calabrese, R. G. Kurumbail

Date :   05 Jan 17 (Deposition) - 17 May 17 (Release) - 17 May 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.45

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

Keywords :   Kinase, Ampk, Activator, Allostery, Transferase-Activator Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. C. Cokorinos, J. Delmore, A. R. Reyes, B. Albuquerque, R. Kjbsted, N. O. Jrgensen, J. L. Tran, A. Jatkar, K. Cialdea, R. M. Esquejo, J. Meissen, M. F. Calabrese, J. Cordes, R. Moccia, D. Tess, C. T. Salatto, T. M. Coskran, A. C. Opsahl, D. Flynn, M. Blatnik, W. Li, E. Kindt, M. Foretz, B. Viollet, J. Ward, R. G. Kurumbail, A. S. Kalgutkar, J. F. P. Wojtaszewski, K. O. Cameron, R. A. Miller
Activation Of Skeletal Muscle Ampk Promotes Glucose Disposa And Glucose Lowering In Non-Human Primates And Mice.
Cell Metab. V. 25 1147 2017
PubMed-ID: 28467931 | Reference-DOI: 10.1016/J.CMET.2017.04.010

Molecule 1 - 5'-AMP-ACTIVATED PROTEIN KINASE CATALYTIC SUBUNIT ALPHA-1
	Chains	:	A
	EC Number	:	2.7.11.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	PRKAA1, AMPK1, PRKAA1
	Organism Common	:	RAT, MOUSE
	Organism Scientific	:	RATTUS NORVEGICUS, MUS MUSCULUS
	Organism Taxid	:	10116, 10090
	Synonym	:	AMPK SUBUNIT ALPHA-1,ACETYL-COA CARBOXYLASE KINASE,ACACA KINASE,HYDROXYMETHYLGLUTARYL-COA REDUCTASE KINASE,HMGCR KINASE,TAU- PROTEIN KINASE PRKAA1,AMPK SUBUNIT ALPHA-1,ACETYL-COA CARBOXYLASE KINASE,ACACA KINASE,HYDROXYMETHYLGLUTARYL-COA REDUCTASE KINASE,HMGCR KINASE,TAU-PROTEIN KINASE PRKAA1

Molecule 2 - 5'-AMP-ACTIVATED PROTEIN KINASE SUBUNIT BETA-1
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	PRKAB1
	Organism Common	:	RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	AMPKB,5'-AMP-ACTIVATED PROTEIN KINASE 40 KDA SUBUNIT

Molecule 3 - 5'-AMP-ACTIVATED PROTEIN KINASE SUBUNIT GAMMA-1
	Chains	:	C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	PRKAG1
	Organism Common	:	RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	AMPKG

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (7, 11)

No.	Name	Count	Type	Full Name
1	85V	1	Ligand/Ion	1,4:3,6-DIANHYDRO-2-O-(6-CHLORO-5-{4-[1-(HYDROXYMETHYL)CYCLOPROPYL]PHENYL}-1H-BENZIMIDAZOL-2-YL)-D-MANNITOL
2	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
3	AMP	2	Ligand/Ion	ADENOSINE MONOPHOSPHATE
4	CL	3	Ligand/Ion	CHLORIDE ION
5	SO4	2	Ligand/Ion	SULFATE ION
6	STU	1	Ligand/Ion	STAUROSPORINE
7	TPO	1	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 1 (6, 8)

No.	Name	Count	Type	Full Name
1	85V	1	Ligand/Ion	1,4:3,6-DIANHYDRO-2-O-(6-CHLORO-5-{4-[1-(HYDROXYMETHYL)CYCLOPROPYL]PHENYL}-1H-BENZIMIDAZOL-2-YL)-D-MANNITOL
2	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
3	AMP	2	Ligand/Ion	ADENOSINE MONOPHOSPHATE
4	CL	-1	Ligand/Ion	CHLORIDE ION
5	SO4	2	Ligand/Ion	SULFATE ION
6	STU	1	Ligand/Ion	STAUROSPORINE
7	TPO	1	Mod. Amino Acid	PHOSPHOTHREONINE

Biological Unit 2 (6, 16)

No.	Name	Count	Type	Full Name
1	85V	2	Ligand/Ion	1,4:3,6-DIANHYDRO-2-O-(6-CHLORO-5-{4-[1-(HYDROXYMETHYL)CYCLOPROPYL]PHENYL}-1H-BENZIMIDAZOL-2-YL)-D-MANNITOL
2	ADP	2	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
3	AMP	4	Ligand/Ion	ADENOSINE MONOPHOSPHATE
4	CL	-1	Ligand/Ion	CHLORIDE ION
5	SO4	4	Ligand/Ion	SULFATE ION
6	STU	2	Ligand/Ion	STAUROSPORINE
7	TPO	2	Mod. Amino Acid	PHOSPHOTHREONINE

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:22 , GLY A:23 , VAL A:24 , GLY A:25 , ALA A:43 , ILE A:77 , MET A:93 , GLU A:94 , TYR A:95 , VAL A:96 , GLY A:99 , GLU A:100 , GLU A:143 , ASN A:144 , LEU A:146 , ASP A:157	binding site for residue STU A 601
2	AC2	SOFTWARE	VAL A:11 , LEU A:18 , GLY A:19 , PHE A:27 , LYS A:29 , LYS A:31 , ILE A:46 , ASN A:48 , LYS A:51 , ASP A:88 , ASP A:217 , ARG B:83 , THR B:106 , ASP B:108 , VAL B:113 , ILE B:115	binding site for residue 85V A 602
3	AC3	SOFTWARE	SER A:97 , ALA A:149	binding site for residue CL A 603
4	AC4	SOFTWARE	VAL A:24	binding site for residue CL A 604
5	AC5	SOFTWARE	LYS A:34 , LYS A:41	binding site for residue SO4 A 606
6	AC6	SOFTWARE	HIS C:150 , THR C:199 , ILE C:203 , ALA C:204 , VAL C:224 , SER C:225 , ALA C:226 , ILE C:311 , SER C:313 , SER C:315 , ASP C:316	binding site for residue AMP C 401
7	AC7	SOFTWARE	ARG C:69 , ILE C:239 , SER C:241 , PHE C:243 , ASP C:244 , ARG C:268 , GLY C:274 , LEU C:276 , VAL C:296 , HIS C:297 , ARG C:298	binding site for residue AMP C 402
8	AC8	SOFTWARE	ARG C:69 , MET C:84 , THR C:86 , THR C:88 , ASP C:89 , TYR C:120 , PRO C:127 , LEU C:128 , VAL C:129 , ILE C:149 , HIS C:150 , ARG C:151	binding site for residue ADP C 403
9	AC9	SOFTWARE	ARG C:151 , THR C:167 , HIS C:297	binding site for residue SO4 C 404

(no "SS Bond" information available for 5UFU)

(no "Cis Peptide Bond" information available for 5UFU)

(no "SAP(SNP)/Variant" information available for 5UFU)

(no "PROSITE Motif" information available for 5UFU)

(no "Exon" information available for 5UFU)

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:369
                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee..eeeeeeeee....eeeeeee.....eeeeeeeehhhhhhh.hhhhhhhhhhhhhhh.......eeeeee...eeeeeee....eehhhhhhhh...hhhhhhhhhhhhhhhhhhhhh..ee........eee.....eee......ee.................hhhhhh.....hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh.........hhhhhhhhhhhh........hhhhhhhhhhhhh...........eee......hhhhhhhhhhhhhhhh.....eee..eeeeeee......eeeeeeeeee.....eeeeeeee......hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ufu A   9 GRVKIGHYILGDTLGVGTFGKVKVGKHELTGHKVAVKILNRQKIRSLDVVGKIRREIQNLKLFRHPHIIKLYQVISTPSDIFMVMEYVSGGELFDYICKNGRLDEKESRRLFQQILSGVDYCHRHMVVHRDLKPENVLLDAHMNAKIADFGLSNMMSDGEFLRtSCGSPNYAAPEVISGRLYAGPEVDIWSSGVILYALLCGTLPFDDDHVPTLFKKICDGIFYTPQYLNPSVISLLKHMLQVDPMKRATIKDIREHEWFKQDLPKYLFPEAKWHLGIRSQSRPNDIMAEVCRAIKQLDYEWKVVNPYYLRVRRKNPVTSTFSKMSLQLYQVDSRTYLLDFRSIDDERPGSHTIEFFEMCANLIKILAQ 548
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168   |   178       188       198       208       218       228       238       248       258       268       278||     402       412       422       432       442       452       462      |529       539         
                                                                                                                                                                                             172-TPO                                                                                                    279|                                                                        469|                     
                                                                                                                                                                                                                                                                                                         394                                                                         527

Chain B from PDB  Type:PROTEIN  Length:159
                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....eeeee.hhh...ee.ee...eeeeeeee..eeeeeeeee..eee......eee.....eeeeeeehhhhhhhhhhhhhhhhhh......hhhhhh...........hhhhh...eee.....eeeeeeeeee..eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ufu B  77 ARPTVFRWTGGGKEVYLSGSFNNWSKLPLTRDQNNFVAILDLPEGEHQYKFFVDGQWTHDPSEPIVTSQLGTVNNIIQVKKTDFEVFDALMVDSQKCKAPPILPPHLLQVILNPALLPEPNHVMLNHLYALSIKDGVMVLSATHRYKKKYVTTLLYKPI 270
                                    86        96       106       116       126       136       146       156       166      |203       213  ||   231       241       251       261         
                                                                                                                          173|            216|                                             
                                                                                                                           201             225

Chain C from PDB  Type:PROTEIN  Length:289
                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh..hhhhhh..eeeeeeee...hhhhhhhhhhhhh..eeeee......eeeeeehhhhhhhhhhh.......hhhhhh.hhhhhhhhhh...........hhhhhhhhhhhhh..eeeee......eeeeeehhhhhhhhhhhhhhh..hhhhhhhhhhhh.........ee...hhhhhhhhhhhhh..eeeee.....eeeeee...hhhhhhh........hhhhhhh.....ee....hhhhhhhhhhhh...eeeee.....eeeeeehhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ufu C  26 SVYTTFMKSHRCYDLIPTSSKLVVFDTSLQVKKAFFALVTNGVRAAPLWDSKKQSFVGMLTITDFINILHRYYKSALVQIYELEEHKIETWREVYLQDPLVCISPNASLFDAVSSLIRNKIHRLPVIDPESGNTLYILTHKRILKFLKLFITEFPKPEFMSKSLEELQIGTYANIAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVDIYSKFDVINLAAEKTYNNLDVSVTKALQHRGVLKCYLHETLEAIINRLVEAEVHRLVVVDEHDVVKGIVSLSDILQALV 322
                                    35        45        55        65        75        85        95       105       115       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268|      283       293       303       313         
                                                                                                                           123|                                                                                                                                          268|                                                
                                                                                                                            127                                                                                                                                           274

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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 '\|'

(no "SCOP Domain" information available for 5UFU)

(no "CATH Domain" information available for 5UFU)

(no "Pfam Domain" information available for 5UFU)

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(no "Related Entries Specified in the PDB File" available for 5UFU)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (7, 11)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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Gene Ontology (85, 180)

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