5E66 - JenaLib

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Title :   THE COMPLEX STRUCTURE OF HEMAGGLUTININ-ESTERASE-FUSION MUTANT PROTEIN FROM THE INFLUENZA D VIRUS WITH RECEPTOR ANALOG 9-N-AC-SIA

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 :   3.10

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

Keywords :   Influenza, Complex, Hef, 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
	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
	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
Asymmetric Unit	:	A	B
Biological Unit 1 (3x)	:	A	B
Biological Unit 2 (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 16)

No.	Name	Count	Type	Full Name
1	5KQ	2	Ligand/Ion	(6R)-5-(ACETYLAMINO)-6-[(1S,2S)-3-(ACETYLAMINO)-1,2-DIHYDROXYPROPYL]-3,5-DIDEOXY-BETA-L-THREO-HEX-2-ULOPYRANOSONIC ACID
2	BMA	1	Ligand/Ion	BETA-D-MANNOSE
3	CAC	1	Ligand/Ion	CACODYLATE ION
4	MAN	3	Ligand/Ion	ALPHA-D-MANNOSE
5	NAG	9	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (5, 48)

No.	Name	Count	Type	Full Name
1	5KQ	6	Ligand/Ion	(6R)-5-(ACETYLAMINO)-6-[(1S,2S)-3-(ACETYLAMINO)-1,2-DIHYDROXYPROPYL]-3,5-DIDEOXY-BETA-L-THREO-HEX-2-ULOPYRANOSONIC ACID
2	BMA	3	Ligand/Ion	BETA-D-MANNOSE
3	CAC	3	Ligand/Ion	CACODYLATE ION
4	MAN	9	Ligand/Ion	ALPHA-D-MANNOSE
5	NAG	27	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (5, 16)

No.	Name	Count	Type	Full Name
1	5KQ	2	Ligand/Ion	(6R)-5-(ACETYLAMINO)-6-[(1S,2S)-3-(ACETYLAMINO)-1,2-DIHYDROXYPROPYL]-3,5-DIDEOXY-BETA-L-THREO-HEX-2-ULOPYRANOSONIC ACID
2	BMA	1	Ligand/Ion	BETA-D-MANNOSE
3	CAC	1	Ligand/Ion	CACODYLATE ION
4	MAN	3	Ligand/Ion	ALPHA-D-MANNOSE
5	NAG	9	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:57 , SER A:84 , GLY A:85 , VAL A:116 , ASN A:117 , TRP A:322 , HIS A:359 , 5KQ A:502	binding site for residue CAC A 501
2	AC2	SOFTWARE	GLU A:13 , SER A:14 , SER A:57 , ASN A:63 , GLN A:65 , SER A:69 , SER A:84 , ARG A:326 , ASP A:356 , HIS A:359 , CAC A:501	binding site for residue 5KQ A 502
3	AC3	SOFTWARE	PHE A:127 , THR A:171 , ALA A:172 , SER A:173 , PHE A:229 , TYR A:231 , VAL A:275 , PHE A:297	binding site for residue 5KQ A 513
4	AC4	SOFTWARE	ASN A:12 , GLU A:13 , SER A:14 , MET A:28 , GLN A:65 , GLY B:20 , VAL B:21 , ALA B:22 , GLY B:23	binding site for Poly-Saccharide residues NAG A 511 through NAG A 512 bound to ASN A 12
5	AC5	SOFTWARE	ASN A:130 , GLN A:133 , LYS A:218 , ASN A:220 , ASN A:330 , GLU A:334 , NAG A:509 , NAG A:510	binding site for Poly-Saccharide residues NAG A 503 through MAN A 508 bound to ASN A 130
6	AC6	SOFTWARE	ASN A:330 , GLU A:333 , GLU A:334 , LEU A:337 , NAG A:504 , BMA A:505 , MAN A:507	binding site for Poly-Saccharide residues NAG A 509 through NAG A 510 bound to ASN A 330
7	AC7	SOFTWARE	ASN B:58 , GLU B:65	binding site for Mono-Saccharide NAG B 703 bound to ASN B 58
8	AC8	SOFTWARE	SER A:19 , GLY A:20 , PHE A:21 , ASN A:24 , GLN A:424 , GLY A:426 , GLN B:55 , LEU B:56 , ASP B:59 , ASN B:107	binding site for Poly-Saccharide residues NAG B 701 through NAG B 702 bound to ASN B 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

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

(no "SAP(SNP)/Variant" information available for 5E66)

(no "PROSITE Motif" information available for 5E66)

(no "Exon" information available for 5E66)

Asymmetric Unit

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	UniProt sequence: complete aligned part

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Chain A from PDB  Type:PROTEIN  Length:424
                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...eee....ee......eeeeeeeee..................eeeee.................hhhhhh.eee....hhhhhhhh.........eee..eeeee.....hhhhh......hhhhhhhhhhhhhhhhhh...eeeee...eeee.....ee..hhhhh.......eeee.............eeeeeee..ee..ee..eeeee..eee..hhhhhhh......eeeee.....eeeeee..............eee..eeee..eeeeeee...eeee...eeee.......eeee...........hhhhhhhhh.....ee...............hhhhhhhhhhhhh....eee..eee.....ee.......eee...ee.hhhhh.eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e66 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.......ee..ee.........ee.....hhhhhhhhhhhh..hhhhhhhhhhh...eee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........................ee................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e66 B   9 FGLLFVGFVAGGVAGGYFWGRSNGGGGGASVSSTQAGFDKIGKDIQQLRNDTNAAIEGFNGRIAHDEQAIKNLAKEIEDARAEALVGELGIIRSLIVANISMNLKESLYELANQITKRGGGIAQEAGPGCWYVDSENCDASCKEYIFNF 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148

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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 5E66)

(no "CATH Domain" information available for 5E66)

(no "Pfam Domain" information available for 5E66)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		5KQ	[ 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 ]
		Leu A:371 - Gly A:372	[ RasMol ]
		Phe A:66 - Pro A:67	[ RasMol ]
		Pro A:398 - Pro A:399	[ RasMol ]
		Ser A:182 - Pro A:183	[ RasMol ]

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

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 16)

Sites (8, 8)

SS Bonds (9, 9)

Cis Peptide Bonds (6, 6)

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SAPs(SNPs)/Variants (0, 0)

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Gene Ontology (15, 15)

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