3KTF - JenaLib

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   STRUCTURE OF THE N-TERMINAL BRCT DOMAIN OF HUMAN MICROCEPHALIN (MCPH1).

Authors :   N. Singh, A. Heroux, J. R. Thompson, G. Mer

Date :   25 Nov 09 (Deposition) - 15 Dec 09 (Release) - 15 Dec 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Brct Domain, Mcph1, Microcephalin, Cytoplasm, Cytoskeleton, Dwarfism, Mental Retardation, Phosphoprotein, Polymorphism, Primary Microcephaly (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. Singh, A. Heroux, J. R. Thompson, G. Mer
Structure Of N-Terminal Brct Domain Of Human Microcephalin (Mcph1)
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - MICROCEPHALIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PGB1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	MCPH1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		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, 5)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	1	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	MSE	1	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:17 , SER A:18 , LYS A:53 , ASP B:87	BINDING SITE FOR RESIDUE CL A 102

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

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

Asymmetric Unit (1, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_046745	T	27	R	MCPH1_HUMAN	Disease (MCPH1)	---	A/B/C	T	27	R

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_046745	T	27	R	MCPH1_HUMAN	Disease (MCPH1)	---	A	T	27	R

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_046745	T	27	R	MCPH1_HUMAN	Disease (MCPH1)	---	B	T	27	R

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 3 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_046745	T	27	R	MCPH1_HUMAN	Disease (MCPH1)	---	C	T	27	R

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(no "PROSITE Motif" information available for 3KTF)

(no "Exon" information available for 3KTF)

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:97
 aligned with MCPH1_HUMAN | Q8NEM0 from UniProtKB/Swiss-Prot  Length:835

    Alignment length:97
                                    11        21        31        41        51        61        71        81        91       
           MCPH1_HUMAN    2 AAPILKDVVAYVEVWSSNGTENYSKTFTTQLVDMGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAANMNE 98
               SCOP domains ------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee........hhhhhhhhhhhh..ee.........eeeee..hhhhhhhhhhhh.eeehhhhhhhhhhhh...hhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------R----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                  3ktf A  2 AAPILKDVVAYVEVWSSNGTENYSKTFTTQLVDmGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAANmNE 98
                                    11        21        31   |    41        51        61        71        81        91    |  
                                                            35-MSE                                                       96-MSE

Chain B from PDB  Type:PROTEIN  Length:93
 aligned with MCPH1_HUMAN | Q8NEM0 from UniProtKB/Swiss-Prot  Length:835

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
           MCPH1_HUMAN    3 APILKDVVAYVEVWSSNGTENYSKTFTTQLVDMGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAAN 95
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee........hhhhhhhhhhhh..ee.........eeeee..hhhhhhhhhhhh.eeehhhhhhhhhhhh...hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------R-------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  3ktf B  3 APILKDVVAYVEVWSSNGTENYSKTFTTQLVDmGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAAN 95
                                    12        22        32  |     42        52        62        72        82        92   
                                                           35-MSE

Chain C from PDB  Type:PROTEIN  Length:92
 aligned with MCPH1_HUMAN | Q8NEM0 from UniProtKB/Swiss-Prot  Length:835

    Alignment length:92
                                    13        23        33        43        53        63        73        83        93  
           MCPH1_HUMAN    4 PILKDVVAYVEVWSSNGTENYSKTFTTQLVDMGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAAN 95
               SCOP domains -------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----PTCB-BRCT-3ktfC01 C:9-75                                           -------------------- Pfam domains (1)
           Pfam domains (2) -----PTCB-BRCT-3ktfC02 C:9-75                                           -------------------- Pfam domains (2)
           Pfam domains (3) -----PTCB-BRCT-3ktfC03 C:9-75                                           -------------------- Pfam domains (3)
         Sec.struct. author ......eeeeee.........hhhhhhhhhhh..eee........eeeee..hhhhhhhhhhhh.eeehhhhhhhhhhhh...hhhhh.... Sec.struct. author
                 SAPs(SNPs) -----------------------R-------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  3ktf C  4 PILKDVVAYVEVWSSNGTENYSKTFTTQLVDmGAKVSKTFNKQVTHVIFKDGYQSTWDKAQKRGVKLVSVLWVEKCRTAGAHIDESLFPAAN 95
                                    13        23        33 |      43        53        63        73        83        93  
                                                          35-MSE

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 3KTF)

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

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: BRCT-like (38)

Family: PTCB-BRCT (3)

Homo sapiens (Human) (3)

1a	PTCB-BRCT-3ktfC01	C:9-75
1b	PTCB-BRCT-3ktfC02	C:9-75
1c	PTCB-BRCT-3ktfC03	C:9-75

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (MCPH1_HUMAN | Q8NEM0)

molecular function
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	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).
biological process
	GO:0021987	cerebral cortex development	The progression of the cerebral cortex over time from its initial formation until its mature state. The cerebral cortex is the outer layered region of the telencephalon.
	GO:0071850	mitotic cell cycle arrest	The process in which the mitotic cell cycle is halted during one of the normal phases (G1, S, G2, M).
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005856	cytoskeleton	Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
	GO:0005815	microtubule organizing center	An intracellular structure that can catalyze gamma-tubulin-dependent microtubule nucleation and that can anchor microtubules by interacting with their minus ends, plus ends or sides.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.

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Biological Units
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Description

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Ligands, Modified Residues, Ions (2, 5)

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SS Bonds (0, 0)

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