3KHF - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURE OF THE PDZ DOMAIN OF HUMAN MICROTUBULE ASSOCIATED SERINE/THREONINE KINASE 3 (MAST3)

Authors :   A. Roos, J. Elkins, P. Savitsky, J. Wang, E. Ugochukwu, J. Murray, C. Bountra, C. H. Arrowsmith, J. Weigelt, A. Edwards, F. Von Delft, S. Knapp, Structural Genomics Consortium (Sgc)

Date :   30 Oct 09 (Deposition) - 08 Dec 09 (Release) - 08 Dec 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.20

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

Keywords :   Mast3, Microtubule Associated Serine/Threonine Kinase 3, Kinase, Pdz Domain, Structural Genomics, Structural Genomics , Structural Genomics Consortium, Sgc, Atp- Binding, Magnesium, Nucleotide-Binding, Phosphoprotein, Polymorphism, Serine/Threonine-Protein Kinase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Roos, J. Elkins, P. Savitsky, J. Wang, E. Ugochukwu, F. Von Delft, S. Knapp
The Crystal Structure Of The Pdz Domain Of Human Microtubule Associated Serine/Threonine Kinase 3 (Mast3)
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - MICROTUBULE-ASSOCIATED SERINE/THREONINE-PROTEIN KINASE 3
	Chains	:	A, B
	EC Number	:	2.7.11.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PNIC28-BSA4
	Expression System Strain	:	BL21(DE3)-R3-PRARE2
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	MAST3
	Gene	:	KIAA0561, MAST3
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 3)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL

Biological Unit 3 (1, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HOH A:81 , VAL A:1015 , HOH B:195 , LYS B:1029	BINDING SITE FOR RESIDUE EDO B 1
2	AC2	SOFTWARE	HOH A:41 , HOH A:106 , GLU A:1021 , SER B:955 , LYS B:958 , ASN B:1028	BINDING SITE FOR RESIDUE EDO B 2
3	AC3	SOFTWARE	HOH B:97 , ASN B:1007 , GLY B:1008 , SER B:1031	BINDING SITE FOR RESIDUE CL B 1045

(no "SS Bond" information available for 3KHF)

(no "Cis Peptide Bond" information available for 3KHF)

(no "SAP(SNP)/Variant" information available for 3KHF)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PDZ	PS50106	PDZ domain profile.	MAST3_HUMAN	950-1038	2	A:950-1038 B:950-1038

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PDZ	PS50106	PDZ domain profile.	MAST3_HUMAN	950-1038	1	A:950-1038 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PDZ	PS50106	PDZ domain profile.	MAST3_HUMAN	950-1038	1	- B:950-1038

Biological Unit 3 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PDZ	PS50106	PDZ domain profile.	MAST3_HUMAN	950-1038	2	A:950-1038 B:950-1038

Asymmetric Unit (4, 8)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000262811	1	ENSE00001184250	chr19:18208603-18208641	39	MAST3_HUMAN	1-13	13	0	-	-
1.2	ENST00000262811	2	ENSE00001184245	chr19:18218397-18218428	32	MAST3_HUMAN	14-24	11	0	-	-
1.3	ENST00000262811	3	ENSE00001125565	chr19:18232495-18232583	89	MAST3_HUMAN	24-54	31	0	-	-
1.4	ENST00000262811	4	ENSE00001056306	chr19:18232660-18232732	73	MAST3_HUMAN	54-78	25	0	-	-
1.5	ENST00000262811	5	ENSE00001056308	chr19:18233483-18233561	79	MAST3_HUMAN	78-104	27	0	-	-
1.6	ENST00000262811	6	ENSE00001056310	chr19:18234027-18234184	158	MAST3_HUMAN	105-157	53	0	-	-
1.7	ENST00000262811	7	ENSE00001056302	chr19:18234390-18234465	76	MAST3_HUMAN	157-182	26	0	-	-
1.8	ENST00000262811	8	ENSE00000871082	chr19:18234749-18234958	210	MAST3_HUMAN	183-252	70	0	-	-
1.9	ENST00000262811	9	ENSE00000871083	chr19:18235075-18235176	102	MAST3_HUMAN	253-286	34	0	-	-
1.10	ENST00000262811	10	ENSE00001056311	chr19:18235452-18235584	133	MAST3_HUMAN	287-331	45	0	-	-
1.11	ENST00000262811	11	ENSE00001056295	chr19:18239210-18239268	59	MAST3_HUMAN	331-350	20	0	-	-
1.12	ENST00000262811	12	ENSE00000871085	chr19:18239676-18239761	86	MAST3_HUMAN	351-379	29	0	-	-
1.13	ENST00000262811	13	ENSE00000690133	chr19:18241304-18241512	209	MAST3_HUMAN	379-449	71	0	-	-
1.14	ENST00000262811	14	ENSE00001661571	chr19:18242719-18242857	139	MAST3_HUMAN	449-495	47	0	-	-
1.15	ENST00000262811	15	ENSE00000871086	chr19:18245389-18245521	133	MAST3_HUMAN	495-539	45	0	-	-
1.16	ENST00000262811	16	ENSE00001773958	chr19:18245627-18245792	166	MAST3_HUMAN	540-595	56	0	-	-
1.17	ENST00000262811	17	ENSE00001113485	chr19:18246550-18246651	102	MAST3_HUMAN	595-629	35	0	-	-
1.18	ENST00000262811	18	ENSE00001113486	chr19:18248049-18248171	123	MAST3_HUMAN	629-670	42	0	-	-
1.19	ENST00000262811	19	ENSE00001056303	chr19:18249825-18249934	110	MAST3_HUMAN	670-706	37	0	-	-
1.20	ENST00000262811	20	ENSE00001056300	chr19:18252692-18252825	134	MAST3_HUMAN	707-751	45	0	-	-
1.21	ENST00000262811	21	ENSE00001056296	chr19:18254573-18254817	245	MAST3_HUMAN	751-833	83	0	-	-
1.22	ENST00000262811	22	ENSE00001056304	chr19:18255276-18255503	228	MAST3_HUMAN	833-909	77	0	-	-
1.23	ENST00000262811	23	ENSE00001056297	chr19:18255813-18256039	227	MAST3_HUMAN	909-984	76	2	A:948-984 (gaps) B:948-984	37 37
1.24	ENST00000262811	24	ENSE00001056312	chr19:18256553-18256675	123	MAST3_HUMAN	985-1025	41	2	A:985-1025 B:985-1025	41 41
1.25	ENST00000262811	25	ENSE00001056299	chr19:18257691-18257827	137	MAST3_HUMAN	1026-1071	46	2	A:1026-1040 B:1026-1040	15 15
1.26	ENST00000262811	26	ENSE00001056305	chr19:18258253-18258434	182	MAST3_HUMAN	1071-1132	62	2	A:1041-1044 B:1041-1044	4 4
1.27	ENST00000262811	27	ENSE00001184254	chr19:18260001-18262499	2499	MAST3_HUMAN	1132-1309	178	0	-	-

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:96
 aligned with MAST3_HUMAN | O60307 from UniProtKB/Swiss-Prot  Length:1309

    Alignment length:138
                                   957       967       977       987       997      1007      1017      1027      1037      1047      1057      1067      1077        
         MAST3_HUMAN    948 RPPIVIHSSGKKYGFSLRAIRVYMGDSDVYTVHHVVWSVEDGSPAQEAGLRAGDLITHINGESVLGLVHMDVVELLLKSGNKISLRTTALENTSIKVGPARKNVAKGRMARRSKRSRRRETQDRRKSLFKKISKQTSV 1085
               SCOP domains d3khfa_  A: automated matches                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee.-.....eeeeeeeee......eeeeeeeeee...hhhhhhh.....eeeee..ee....hhhhhhhhhhhh..eeeeeee.....-----------------------------------------.ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --PDZ  PDB: A:950-1038 UniProt: 950-1038                                                   ----------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.23  PDB: A:948-984 (gaps)     Exon 1.24  PDB: A:985-1025               Exon 1.25  PDB: A:1026-1040 UniProt: 1026-1071-------------- Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------------------------------------------------------------Exon 1.26       Transcript 1 (2)
                3khf A  948 RPPIVIHS-GKKYGFSLRAIRVYMGDSDVYTVHHVVWSVEDGSPAQEAGLRAGDLITHINGESVLGLVHMDVVELLLKSGNKISLRTTALENT-----------------------------------------ETSV 1044
                                   957       967       977       987       997      1007      1017      1027      1037  |      -         -         -         -    |   
                                 955 |                                                                               1040                                      1041   
                                   957

Chain B from PDB  Type:PROTEIN  Length:97
 aligned with MAST3_HUMAN | O60307 from UniProtKB/Swiss-Prot  Length:1309

    Alignment length:138
                                   957       967       977       987       997      1007      1017      1027      1037      1047      1057      1067      1077        
         MAST3_HUMAN    948 RPPIVIHSSGKKYGFSLRAIRVYMGDSDVYTVHHVVWSVEDGSPAQEAGLRAGDLITHINGESVLGLVHMDVVELLLKSGNKISLRTTALENTSIKVGPARKNVAKGRMARRSKRSRRRETQDRRKSLFKKISKQTSV 1085
               SCOP domains d3khfb_ B: automated matches                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ---PDZ-3khfB01 B:951-1034                                                              --------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ---PDZ-3khfB02 B:951-1034                                                              --------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...eeee.......eeeeeeeeee....eeeeeeeeeee...hhhhhh.......eeee..ee....hhhhhhhhhhh...eeeeee......-----------------------------------------eeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --PDZ  PDB: B:950-1038 UniProt: 950-1038                                                   ----------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.23  PDB: B:948-984            Exon 1.24  PDB: B:985-1025               Exon 1.25  PDB: B:1026-1040 UniProt: 1026-1071-------------- Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------------------------------------------------------------Exon 1.26       Transcript 1 (2)
                3khf B  948 RPPIVIHSSGKKYGFSLRAIRVYMGDSDVYTVHHVVWSVEDGSPAQEAGLRAGDLITHINGESVLGLVHMDVVELLLKSGNKISLRTTALENT-----------------------------------------ETSV 1044
                                   957       967       977       987       997      1007      1017      1027      1037  |      -         -         -         -    |   
                                                                                                                     1040                                      1041

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	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: All beta proteins (24004)

Fold: PDZ domain-like (299)

Superfamily: PDZ domain-like (299)

Family: automated matches (94)

Protein domain: automated matches (94)

Human (Homo sapiens) [TaxId: 9606] (71)

1a	d3khfa_	A:
1b	d3khfb_	B:

(no "CATH Domain" information available for 3KHF)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PDZ-like (184)

Family: PDZ (172)

Homo sapiens (Human) (96)

1a	PDZ-3khfB01	B:951-1034
1b	PDZ-3khfB02	B:951-1034

Asymmetric Unit(hide GO term definitions)

Chain A,B (MAST3_HUMAN | O60307)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0004672	protein kinase activity	Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
	GO:0004674	protein serine/threonine kinase activity	Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0007010	cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures.
	GO:0035556	intracellular signal transduction	The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.
	GO:0018105	peptidyl-serine phosphorylation	The phosphorylation of peptidyl-serine to form peptidyl-O-phospho-L-serine.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
	GO:0006468	protein phosphorylation	The process of introducing a phosphate group on to a protein.
cellular component
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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	3khf
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	MAST3_HUMAN \| O60307	:	1v9v

2v90	CRYSTAL STRUCTURE OF THE 3RD PDZ DOMAIN OF INTESTINE- AND KIDNEY-ENRICHED PDZ DOMAIN IKEPP (PDZD3)
2vph	CRYSTAL STRUCTURE OF THE HUMAN PROTEIN TYROSINE PHOSPHATASE, NON-RECEPTOR TYPE 4, PDZ DOMAIN
2z17	CRYSTAL STUCTURE OF PDZ DOMAIN FROM HUMAN PLECKSTRIN HOMOLOGY, SEC7

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