5F0X - JenaLib

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Title :   CRYSTAL STRUCTURE OF HUMAN GRP78 (70KDA HEAT SHOCK PROTEIN 5 / BIP) ATPASE DOMAIN IN COMPLEX WITH 2'-DEOXY-ADP AND INORGANIC PHOSPHATE

Authors :   S. J. Hughes, T. Antoshchenko, J. H. Song, J. Pizarro, H. W. Park

Date :   28 Nov 15 (Deposition) - 15 Jun 16 (Release) - 15 Jun 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Chaperone, Atpase Domain, Nucleotide-Binding, Endoplasmic Reticulum (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. J. Hughes, T. Antoshchenko, Y. Chen, H. Lu, J. C. Pizarro, H. W. Park
Probing The Atp Site Of Grp78 With Nucleotide Triphosphate Analogs.
Plos One V. 11 54862 2016
PubMed-ID: 27144892 | Reference-DOI: 10.1371/JOURNAL.PONE.0154862

Molecule 1 - 78 KDA GLUCOSE-REGULATED PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	ATPASE DOMAIN (UNP RESIDUES 26-407)
	Gene	:	HSPA5, GRP78
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	GRP-78, ENDOPLASMIC RETICULUM LUMENAL CA(2+)-BINDING PROTEIN GRP78, HEAT SHOCK 70 KDA PROTEIN 5, IMMUNOGLOBULIN HEAVY CHAIN- BINDING PROTEIN, BIP

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 7)

No.	Name	Count	Type	Full Name
1	DAT	1	Ligand/Ion	2'-DEOXYADENOSINE-5'-DIPHOSPHATE
2	DTP	2	Ligand/Ion	2'-DEOXYADENOSINE 5'-TRIPHOSPHATE
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	DAT	-1	Ligand/Ion	2'-DEOXYADENOSINE-5'-DIPHOSPHATE
2	DTP	1	Ligand/Ion	2'-DEOXYADENOSINE 5'-TRIPHOSPHATE
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (3, 3)

No.	Name	Count	Type	Full Name
1	DAT	1	Ligand/Ion	2'-DEOXYADENOSINE-5'-DIPHOSPHATE
2	DTP	1	Ligand/Ion	2'-DEOXYADENOSINE 5'-TRIPHOSPHATE
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	PO4	1	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PO4 A:502 , HOH A:605 , HOH A:615 , HOH A:662 , HOH A:665	binding site for residue MG A 501
2	AC2	SOFTWARE	GLY A:36 , THR A:37 , LYS A:96 , GLU A:201 , THR A:229 , MG A:501 , HOH A:605 , HOH A:615 , HOH A:626 , HOH A:816	binding site for residue PO4 A 502
3	AC3	SOFTWARE	ARG A:60 , ARG A:297 , SER A:300 , GLY A:364 , SER A:365 , ARG A:367 , ASN A:389 , HOH A:610 , HOH A:617 , HOH A:650 , HOH A:700 , HOH A:749 , HOH A:814	binding site for residue DTP A 503
4	AC4	SOFTWARE	PO4 B:502 , DAT B:504 , HOH B:614 , HOH B:621 , HOH B:627 , HOH B:651	binding site for residue MG B 501
5	AC5	SOFTWARE	GLY B:36 , THR B:37 , LYS B:96 , PRO B:173 , GLU B:201 , THR B:229 , MG B:501 , DAT B:504 , HOH B:601 , HOH B:614 , HOH B:621 , HOH B:627 , HOH B:747	binding site for residue PO4 B 502
6	AC6	SOFTWARE	LYS A:271 , ARG A:279 , GLU B:158 , GLY B:162 , LYS B:163 , LYS B:164 , HIS B:265 , LYS B:268 , LEU B:269 , LYS B:271 , ARG B:279 , HOH B:608 , HOH B:617 , HOH B:694 , HOH B:753	binding site for residue DTP B 503
7	AC7	SOFTWARE	THR B:37 , THR B:38 , TYR B:39 , GLY B:226 , GLY B:227 , GLY B:255 , LYS B:296 , ARG B:297 , SER B:300 , GLY B:363 , GLY B:364 , SER B:365 , ARG B:367 , ASP B:391 , MG B:501 , PO4 B:502 , HOH B:601 , HOH B:603 , HOH B:621 , HOH B:625 , HOH B:627 , HOH B:651 , HOH B:685 , HOH B:732 , HOH B:749 , HOH B:811 , HOH B:864	binding site for residue DAT B 504

(no "SS Bond" information available for 5F0X)

(no "Cis Peptide Bond" information available for 5F0X)

(no "SAP(SNP)/Variant" information available for 5F0X)

(no "PROSITE Motif" information available for 5F0X)

(no "Exon" information available for 5F0X)

Asymmetric Unit

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	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
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Chain A from PDB  Type:PROTEIN  Length:382
                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....eeeeeee....eee.........ee..eee.....eeehhhhhhh...hhhhh..hhhhh......hhhhhhhhhhh..eeeee..eeeeeee.....eeeehhhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhh.......eeeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eeeeehhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5f0x A  26 DVGTVVGIDLGTTYSCVGVFKNGRVEIIANDQGNRITPSYVAFTPEGERLIGDAAKNQLTSNPENTVFDAKRLIGRTWNDPSVQQDIKFLPFKVVEKKTKPYIQVDIGGGQTKTFAPEEISAMVLTKMKETAEAYLGKKVTHAVVTVPAYFNDAQRQATKDAGTIAGLNVMRIINEPTAAAIAYGLDKREGEKNILVFDLGGGTFDVSLLTIDNGVFEVVATNGDTHLGGEDFDQRVMEHFIKLYKKKTGKDVRKDNRAVQKLRREVEKAKRALSSQHQARIEIESFYEGEDFSETLTRAKFEELNMDLFRSTMKPVQKVLEDSDLKKSDIDEIVLVGGSTRIPKIQQLVKEFFNGKEPSRGINPDEAVAYGAAVQAGVLSG 407
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405

Chain B from PDB  Type:PROTEIN  Length:380
                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee....eeeeeeee..eeee.........ee..eee.....eeehhhhhh....hhh.ee.hhhhh......hhhhhhhhhhh..eeeee..eeeeeee...eeeehhhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhh........eeeeeeee....eeeeeeeee..eeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.eeeeehhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5f0x B  26 DVGTVVGIDLGTTYSCVGVFKNGRVEIIANDQGNRITPSYVAFTPEGERLIGDAAKNQLTSNPENTVFDAKRLIGRTWNDPSVQQDIKFLPFKVVEKKTKPYIQVDIGQTKTFAPEEISAMVLTKMKETAEAYLGKKVTHAVVTVPAYFNDAQRQATKDAGTIAGLNVMRIINEPTAAAIAYGLDKREGEKNILVFDLGGGTFDVSLLTIDNGVFEVVATNGDTHLGGEDFDQRVMEHFIKLYKKKTGKDVRKDNRAVQKLRREVEKAKRALSSQHQARIEIESFYEGEDFSETLTRAKFEELNMDLFRSTMKPVQKVLEDSDLKKSDIDEIVLVGGSTRIPKIQQLVKEFFNGKEPSRGINPDEAVAYGAAVQAGVLSG 407
                                    35        45        55        65        75        85        95       105       115       125       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407
                                                                                                                                     133|                                                                                                                                                                                                                                                                               
                                                                                                                                      136

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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 5F0X)

(no "CATH Domain" information available for 5F0X)

(no "Pfam Domain" information available for 5F0X)

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	GRP78_HUMAN \| P11021	:	3iuc 3ldl 3ldn 3ldo 3ldp 5e84 5e85 5e86 5evz 5ex5 5exw 5ey4 5f1x 5f2r

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Ligands, Modified Residues, Ions (4, 7)

Sites (7, 7)

SS Bonds (0, 0)

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