5IIT - JenaLib

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Title :   STRUCTURE OF SPX DOMAIN OF THE YEAST INORGANIC POLYPHOPHATE POLYMERASE VTC4 CRYSTALLIZED BY CARRIER-DRIVEN CRYSTALLIZATION IN FUSION WITH THE MACRO DOMAIN OF HUMAN HISTONE MACROH2A1.1

Authors :   R. Wild, M. Hothorn

Date :   01 Mar 16 (Deposition) - 27 Apr 16 (Release) - 28 Sep 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.13

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Helical Bundle, Alpha-Helical Hairpin, Inositol Phosphate Binding Protein, Protein-Protein Interaction, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Wild, R. Gerasimaite, J. Y. Jung, V. Truffault, I. Pavlovic, A. Schmidt, A. Saiardi, H. J. Jessen, Y. Poirier, M. Hothorn, A. Mayer
Control Of Eukaryotic Phosphate Homeostasis By Inositol Polyphosphate Sensor Domains.
Science V. 352 986 2016
PubMed-ID: 27080106 | Reference-DOI: 10.1126/SCIENCE.AAD9858

Molecule 1 - VACUOLAR TRANSPORTER CHAPERONE 4,CORE HISTONE MACRO-H2A.1
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PMH-MACROHC
	Expression System Taxid	:	469008
	Expression System Variant	:	RIL
	Expression System Vector Type	:	PLASMID
	Gene	:	VTC4, PHM3, YJL012C, J1345, H2AFY, MACROH2A1
	Organism Common	:	BAKER'S YEAST, HUMAN
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C), HOMO SAPIENS
	Organism Taxid	:	559292, 9606
	Other Details	:	ARTIFICIAL FUSION BETWEEN THE SPX DOMAIN (RESIDUES 1- 178) TO THE MACRO DOMAIN OF HUMAN HISTONE MACROH2A1.1 CONNECTED BY A AGS LINKER.
	Strain	:	ATCC 204508 / S288C
	Synonym	:	PHOSPHATE METABOLISM PROTEIN 3,MH2A1,HISTONE H2A.Y,H2A/Y, MEDULLOBLASTOMA ANTIGEN MU-MB-50.205

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 15)

No.	Name	Count	Type	Full Name
1	EDO	5	Ligand/Ion	1,2-ETHANEDIOL
2	MES	4	Ligand/Ion	2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (3, 4)

No.	Name	Count	Type	Full Name
1	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
2	MES	1	Ligand/Ion	2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (3, 3)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	MES	1	Ligand/Ion	2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 3 (3, 4)

No.	Name	Count	Type	Full Name
1	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
2	MES	1	Ligand/Ion	2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
2	MES	1	Ligand/Ion	2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	PRO A:216 , THR A:217 , ASN A:218 , GLY A:313 , GLY A:315 , ARG A:316 , ASN A:317 , EDO A:403	binding site for residue MES A 401
02	AC2	SOFTWARE	LYS A:129 , LYS A:132	binding site for residue SO4 A 402
03	AC3	SOFTWARE	GLY A:225 , GLU A:226 , VAL A:227 , ARG A:316 , MES A:401	binding site for residue EDO A 403
04	AC4	SOFTWARE	TYR A:124 , LYS A:157 , GLU A:158 , ASN A:159 , TYR A:160	binding site for residue EDO A 404
05	AC5	SOFTWARE	TYR B:124 , LYS B:157 , GLU B:158 , ASN B:159 , TYR B:160	binding site for residue EDO B 401
06	AC6	SOFTWARE	PRO B:216 , THR B:217 , GLY B:224 , ILE B:312 , GLY B:313 , GLY B:315 , ARG B:316 , ASN B:317 , SO4 B:403 , ARG C:316	binding site for residue MES B 402
07	AC7	SOFTWARE	GLY B:225 , GLU B:226 , GLY B:315 , ARG B:316 , MES B:402 , HOH B:541	binding site for residue SO4 B 403
08	AC8	SOFTWARE	GLY B:263 , LEU B:266 , ALA B:268 , HOH B:543 , HOH B:551	binding site for residue MG B 404
09	AC9	SOFTWARE	TYR B:222 , PRO C:216 , THR C:217 , ASN C:218 , TYR C:222 , SER C:276 , ILE C:312 , GLY C:313 , GLY C:315 , ARG C:316 , ASN C:317 , SO4 C:402 , EDO C:403	binding site for residue MES C 401
10	AD1	SOFTWARE	ARG B:316 , GLU C:226 , GLY C:315 , ARG C:316 , MES C:401 , EDO C:403	binding site for residue SO4 C 402
11	AD2	SOFTWARE	HIS C:215 , PRO C:216 , TYR C:222 , GLY C:225 , GLU C:226 , VAL C:227 , GLY C:228 , MES C:401 , SO4 C:402	binding site for residue EDO C 403
12	AD3	SOFTWARE	GLN C:42 , GLU C:45 , THR C:46 , PHE C:140	binding site for residue EDO C 404
13	AD4	SOFTWARE	GLY C:263 , LEU C:266 , ALA C:268 , LYS C:269 , HOH C:544	binding site for residue MG C 405
14	AD5	SOFTWARE	PRO D:216 , THR D:217 , TYR D:222 , GLY D:313 , GLY D:315 , ARG D:316 , ASN D:317	binding site for residue MES D 401
15	AD6	SOFTWARE	THR C:189 , LYS C:190 , SER D:188 , THR D:189	binding site for residue SO4 D 402

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

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

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

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

(no "Exon" information available for 5IIT)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
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Chain A from PDB  Type:PROTEIN  Length:356
                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........eeeeeee.....eeeeee.hhhhh...eeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee.......eeeee........hhhhhhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhhhhh......eeeeee.hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5iit A  12 IRQYSYYYISYDDLKTELEDNLSKNNGQWTQELETDFLESLEIELDKVYTFCKVKHSEVFRRVKEVQEQVQHTVRLLDSNNPPTQLDFEILEEELSDIIADVHDLAKFSRLNYTGFQKIIKKHDKKTGFILKPVFQVRLDSKPFFKENYDELVVKISQLYDIARTSGAGSDGFTVLSTKSLFLGQKLQVVQADIASIDSDAVVHPTNTDFYIGGEVGNTLEKKGGKEFVEAVLELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDKKLKSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKL 367
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361

Chain B from PDB  Type:PROTEIN  Length:356
                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........eeeeeee.....eeeeee.hhhhh...eeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee.......eeeee........hhhhhhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhhhhh......eeeeee.hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5iit B  14 QYSYYYISYDDLKTELEDNLSKNNGQWTQELETDFLESLEIELDKVYTFCKVKHSEVFRRVKEVQEQVQHTVRLLDSNNPPTQLDFEILEEELSDIIADVHDLAKFSRLNYTGFQKIIKKHDKKTGFILKPVFQVRLDSKPFFKENYDELVVKISQLYDIARTSGAGSDGFTVLSTKSLFLGQKLQVVQADIASIDSDAVVHPTNTDFYIGGEVGNTLEKKGGKEFVEAVLELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDKKLKSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLEH 369
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363

Chain C from PDB  Type:PROTEIN  Length:357
                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........eeeeeee.....eeeeee.........eeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee.......eeeee........hhhhhhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5iit C  13 RQYSYYYISYDDLKTELEDNLSKNNGQWTQELETDFLESLEIELDKVYTFCKVKHSEVFRRVKEVQEQVQHTVRLLDSNNPPTQLDFEILEEELSDIIADVHDLAKFSRLNYTGFQKIIKKHDKKTGFILKPVFQVRLDSKPFFKENYDELVVKISQLYDIARTSGAGSDGFTVLSTKSLFLGQKLQVVQADIASIDSDAVVHPTNTDFYIGGEVGNTLEKKGGKEFVEAVLELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDKKLKSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLEH 369
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362

Chain D from PDB  Type:PROTEIN  Length:355
                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........eeeeeee.....eeeeee.........eeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee.......eeeeee.......hhhhhhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhhhhhhh......eeeee..hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5iit D  14 QYSYYYISYDDLKTELEDNLSKNNGQWTQELETDFLESLEIELDKVYTFCKVKHSEVFRRVKEVQEQVQHTVRLLDSNNPPTQLDFEILEEELSDIIADVHDLAKFSRLNYTGFQKIIKKHDKKTGFILKPVFQVRLDSKPFFKENYDELVVKISQLYDIARTSGAGSDGFTVLSTKSLFLGQKLQVVQADIASIDSDAVVHPTNTDFYIGGEVGNTLEKKGGKEFVEAVLELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDKKLKSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEMAKLE 368
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

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Ligands, Modified Residues, Ions (4, 15)

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