5E64 - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   HEMAGGLUTININ-ESTERASE-FUSION PROTEIN STRUCTURE OF INFLUENZA D VIRUS

Authors :   H. Song, J. Qi, Y. Shi, G. F. Gao

Date :   09 Oct 15 (Deposition) - 23 Mar 16 (Release) - 23 Mar 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

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

Keywords :   Influenza Virus, Hef, Surface, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Song, J. Qi, Z. Khedri, S. Diaz, H. Yu, X. Chen, A. Varki, Y. Shi, G. F. Gao
An Open Receptor-Binding Cavity Of Hemagglutinin-Esterase-Fusion Glycoprotein From Newly-Identified Influenza D Virus: Basis For Its Broad Cel Tropism
Plos Pathog. V. 12 05505 2016
PubMed-ID: 26954772 | Reference-DOI: 10.1371/JOURNAL.PPAT.1005505

Molecule 1 - HEMAGGLUTININ-ESTERASE
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	TRICHOPLUSIA NI
	Expression System Cell Line	:	HI5
	Expression System Plasmid	:	PFASTBAC1
	Expression System Taxid	:	7111
	Expression System Vector Type	:	BACULOVIRUS
	Fragment	:	UNP RESIDUES 19-445
	Gene	:	HEF
	Organism Scientific	:	INFLUENZA D VIRUS (D/SWINE/OKLAHOMA/1334/2011)
	Organism Taxid	:	1173138
	Strain	:	D/SWINE/OKLAHOMA/1334/2011

Molecule 2 - HEMAGGLUTININ-ESTERASE
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	SPODOPTERA FRUGIPERDA
	Expression System Taxid	:	7108
	Fragment	:	UNP RESIDUES 456-621
	Gene	:	HEF
	Organism Scientific	:	INFLUENZA D VIRUS (D/SWINE/OKLAHOMA/1334/2011)
	Organism Taxid	:	1173138
	Strain	:	D/SWINE/OKLAHOMA/1334/2011

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 32)

No.	Name	Count	Type	Full Name
1	BMA	3	Ligand/Ion	BETA-D-MANNOSE
2	CAC	2	Ligand/Ion	CACODYLATE ION
3	MAN	9	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	18	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (4, 54)

No.	Name	Count	Type	Full Name
1	BMA	6	Ligand/Ion	BETA-D-MANNOSE
2	CAC	3	Ligand/Ion	CACODYLATE ION
3	MAN	18	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	27	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (4, 42)

No.	Name	Count	Type	Full Name
1	BMA	3	Ligand/Ion	BETA-D-MANNOSE
2	CAC	3	Ligand/Ion	CACODYLATE ION
3	MAN	9	Ligand/Ion	ALPHA-D-MANNOSE
4	NAG	27	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:56 , SER A:57 , SER A:84 , GLY A:85 , ASN A:117 , TRP A:322 , HIS A:359	binding site for residue CAC A 715
02	AC2	SOFTWARE	ASP C:56 , SER C:57 , GLY C:85 , ASN C:117 , HIS C:359	binding site for residue CAC C 711
03	AC3	SOFTWARE	ASN A:12 , GLU A:13 , SER A:14 , MET A:28 , HOH A:804 , HOH A:811 , GLY B:19 , GLY B:20 , GLY B:23	binding site for Poly-Saccharide residues NAG A 713 through NAG A 714 bound to ASN A 12
04	AC4	SOFTWARE	ASN A:130 , GLN A:133 , LYS A:218 , ASN A:220 , ASN A:330 , GLU A:334 , LEU A:337 , GLN A:338 , LYS A:346 , NAG A:707 , NAG A:708 , MAN A:711 , HOH A:809 , HOH A:810 , HOH A:829 , HOH A:833 , HOH A:851 , HOH A:873 , HOH A:880 , HOH A:888 , HOH A:922 , HOH A:934 , HOH A:942 , HOH A:950 , HOH A:974 , HOH A:975	binding site for Poly-Saccharide residues NAG A 701 through MAN A 706 bound to ASN A 130
05	AC5	SOFTWARE	ASN A:330 , GLU A:333 , GLU A:334 , LEU A:337 , NAG A:702 , BMA A:703 , MAN A:705 , HOH A:810 , HOH A:873 , HOH A:895 , HOH A:899 , HOH A:922 , HOH A:979 , ASN C:47 , GLN C:48 , LYS C:49	binding site for Poly-Saccharide residues NAG A 707 through MAN A 712 bound to ASN A 330
06	AC6	SOFTWARE	ASN B:58 , ASN B:61 , GLU B:65	binding site for Mono-Saccharide NAG B 703 bound to ASN B 58
07	AC7	SOFTWARE	SER A:19 , GLY A:20 , ASN A:24 , GLN A:424 , GLN B:55 , LEU B:56 , ASP B:59 , ASN B:107 , ASN B:111 , HOH B:824 , HOH B:827	binding site for Poly-Saccharide residues NAG B 701 through NAG B 702 bound to ASN B 107
08	AC8	SOFTWARE	ASP A:64 , ASN C:12 , SER C:14 , MET C:28 , HOH C:810 , GLY D:19 , ALA D:22 , GLY D:23	binding site for Poly-Saccharide residues NAG C 709 through NAG C 710 bound to ASN C 12
09	AC9	SOFTWARE	ASN C:130 , GLN C:133 , LYS C:218 , ASN C:220 , ASN C:330 , GLU C:334 , GLN C:338 , LYS C:346 , NAG C:707 , NAG C:708 , HOH C:802 , HOH C:809 , HOH C:819 , HOH C:833 , HOH C:847 , HOH C:851 , HOH C:880 , HOH C:920 , HOH C:931 , HOH C:934 , HOH C:943 , HOH C:963	binding site for Poly-Saccharide residues NAG C 701 through MAN C 706 bound to ASN C 130
10	AD1	SOFTWARE	LYS A:49 , ASN C:330 , GLU C:333 , GLU C:334 , LEU C:337 , NAG C:702 , BMA C:703 , MAN C:704 , MAN C:705 , HOH C:803 , HOH C:833 , HOH C:942 , HOH C:943	binding site for Poly-Saccharide residues NAG C 707 through NAG C 708 bound to ASN C 330
11	AD2	SOFTWARE	ASN D:58 , ASN D:61 , GLU D:65 , HOH D:817	binding site for Mono-Saccharide NAG D 703 bound to ASN D 58
12	AD3	SOFTWARE	SER C:19 , GLY C:20 , PHE C:21 , ASN C:24 , GLN C:424 , GLY C:426 , GLN D:55 , LEU D:56 , ASP D:59 , ASN D:107 , ASN D:111 , HOH D:803	binding site for Poly-Saccharide residues NAG D 701 through NAG D 702 bound to ASN D 107

Asymmetric Unit

No.	Residues
1	A:6	-	B:138
2	A:106	-	A:151
3	A:126	-	A:175
4	A:200	-	A:242
5	A:219	-	A:306
6	A:227	-	A:279
7	A:336	-	A:342
8	A:378	-	A:404
9	B:146	-	B:150
10	C:6	-	D:138
11	C:106	-	C:151
12	C:126	-	C:175
13	C:200	-	C:242
14	C:219	-	C:306
15	C:227	-	C:279
16	C:336	-	C:342
17	C:378	-	C:404
18	D:146	-	D:150

Asymmetric Unit

No.	Residues
1	Phe A:66	-	Pro A:67
2	Ser A:182	-	Pro A:183
3	Leu A:371	-	Gly A:372
4	Pro A:398	-	Pro A:399
5	Gly B:34	-	Gly B:35
6	Gly B:128	-	Gly B:129
7	Phe C:66	-	Pro C:67
8	Ser C:182	-	Pro C:183
9	Pro C:197	-	Gln C:198
10	Leu C:371	-	Gly C:372
11	Pro C:398	-	Pro C:399
12	Gly D:34	-	Gly D:35
13	Gly D:128	-	Gly D:129

(no "SAP(SNP)/Variant" information available for 5E64)

(no "PROSITE Motif" information available for 5E64)

(no "Exon" information available for 5E64)

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:424
                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee....eee.....eeeeeeeee..................eeeee.hhhh............hhhhhh.eee....hhhhhhhh.........eee..eeeee.....hhhhh......hhhhhhhhhhhhhhhhhhh..eeeee...eeee.....ee..hhhhh.......eeee.............eeeeeee..ee..ee..eeeee..eee..hhhhhh.......eeeee.....eeeeee..............eee..eeee..eeeeeee...eeee...eeee.......eeee...........hhhhhhhhh...eeee...............hhhhhhhhhhhhh....eee..eee.....ee.......eeee..ee.hhhhh.eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e64 A   3 ELICIVQRVNESFSLHSGFGGNVYSMKTEPMTGFTNVTKGASVINQKDWIGFGDSRTDLTNDQFPASSDVPLAVAKKFRSLSGASLMLSAFGPPGKVDYLYQGCGKEKVFYEGVNWSPEAGIDCFGSNWTQTKKDFYSRIYEAARSSTCMTLVNSLDTKISSTTATAGTASSCSSSWMKSPLWYAESSVNPPQVCGTEQSATFTLPTSFGIYKCNKHVVQLCYFVYENKAKFNTFGCGDYYQNYYDGNGNLIGGMDNRVAAYRGIANAGVKIECPSKILNPGTYSIKSTPRFLLVPKRSYCFDTDGGYPIQVVQSEWSASRRSDNATEEACLQTEGCIFIKKTTPYVGEADDNHGDIEMRQLLSGLGNNDTVCVSQSGYTKGETPFVKDYLSPPKYGRCQLKTDSGRIPTLPSGLIIPQAGTDS 429
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192||     205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425    
                                                                                                                                                                                                                        193|                                                                                                                                                                                                                                        
                                                                                                                                                                                                                         197

Chain B from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.......eeeeee.........ee.....hhhhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............eee.......hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e64 B   9 FGLLFVGFVAGGVAGGYFWGRSNGGGGGASVSSTQAGFDKIGKDIQQLRNDTNAAIEGFNGRIAHDEQAIKNLAKEIEDARAEALVGELGIIRSLIVANISMNLKESLYELANQITKRGGGIAQEAGPGCWYVDSENCDASCKEYIFNF 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148

Chain C from PDB  Type:PROTEIN  Length:421
                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee....eee.....eeeeeeeee..................eeeee.hhhh............hhhhhh.eee....hhhhhhhh.........eee..eeeee.....hhhhh......hhhhhhhhhhhhhhhhhhh..eeeee...eeee.....ee..hhhhh.......eeee.............eeeeeee..ee..ee..eeeee..eee............eeeee.....eeeeee..............eee..eeee..eeeeeee...eeee...eeee.......eeee...........hhhhhhhhh...eeee...............hhhhhhhhhhhhh....eee...ee.....ee.......eeee..ee.hhhhh.eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e64 C   3 ELICIVQRVNESFSLHSGFGGNVYSMKTEPMTGFTNVTKGASVINQKDWIGFGDSRTDLTNDQFPASSDVPLAVAKKFRSLSGASLMLSAFGPPGKVDYLYQGCGKEKVFYEGVNWSPEAGIDCFGSNWTQTKKDFYSRIYEAARSSTCMTLVNSLDTKISSTTATAGTASSCSSSWMKSPLWYAESSVNPPQVCGTEQSATFTLPTSFGIYKCNKHVVQLCYFVYENFNTFGCGDYYQNYYDGNGNLIGGMDNRVAAYRGIANAGVKIECPSKILNPGTYSIKSTPRFLLVPKRSYCFDTDGGYPIQVVQSEWSASRRSDNATEEACLQTEGCIFIKKTTPYVGEADDNHGDIEMRQLLSGLGNNDTVCVSQSGYTKGETPFVKDYLSPPKYGRCQLKTDSGRIPTLPSGLIIPQAGTDS 429
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192||     205       215       225       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428 
                                                                                                                                                                                                                        193|                                 233|                                                                                                                                                                                                
                                                                                                                                                                                                                         197                                  237

Chain D from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.......eeeee.................hhhhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........eee.......hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e64 D   9 FGLLFVGFVAGGVAGGYFWGRSNGGGGGASVSSTQAGFDKIGKDIQQLRNDTNAAIEGFNGRIAHDEQAIKNLAKEIEDARAEALVGELGIIRSLIVANISMNLKESLYELANQITKRGGGIAQEAGPGCWYVDSENCDASCKEYIFNF 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 5E64)

(no "CATH Domain" information available for 5E64)

(no "Pfam Domain" information available for 5E64)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		BMA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CAC	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Cis Peptide Bonds
		Gly B:128 - Gly B:129	[ RasMol ]
		Gly B:34 - Gly B:35	[ RasMol ]
		Gly D:128 - Gly D:129	[ RasMol ]
		Gly D:34 - Gly D:35	[ RasMol ]
		Leu A:371 - Gly A:372	[ RasMol ]
		Leu C:371 - Gly C:372	[ RasMol ]
		Phe A:66 - Pro A:67	[ RasMol ]
		Phe C:66 - Pro C:67	[ RasMol ]
		Pro A:398 - Pro A:399	[ RasMol ]
		Pro C:197 - Gln C:198	[ RasMol ]
		Pro C:398 - Pro C:399	[ RasMol ]
		Ser A:182 - Pro A:183	[ RasMol ]
		Ser C:182 - Pro C:183	[ RasMol ]

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	5e64
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	K9LG83_9ORTO \| K9LG83
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	K9LG83_9ORTO \| K9LG83	:	5e5w 5e62 5e65 5e66

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 32)

Sites (12, 12)

SS Bonds (18, 18)

Cis Peptide Bonds (13, 13)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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