5AO5 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   ENDO180 D1-4, MONOCLINIC FORM

Authors :   P. Paracuellos, D. C. Briggs, F. Carafoli, T. Loncar, E. Hohenester

Date :   09 Sep 15 (Deposition) - 28 Oct 15 (Release) - 18 Nov 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.48

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

Keywords :   Endocytosis, Endocytic Receptor, Fibronectin Type Ii Domain, C-Type Lectin Domain, Collagen, Gelatin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Paracuellos, D. C. Briggs, F. Carafoli, T. Loncar, E. Hohenester
Insights Into Collagen Uptake By C-Type Mannose Receptors From The Crystal Structure Of Endo180 Domains 1-4.
Structure V. 23 2133 2015
PubMed-ID: 26481812 | Reference-DOI: 10.1016/J.STR.2015.09.004

Molecule 1 - C-TYPE MANNOSE RECEPTOR 2
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	HOMO SAPIENS
	Expression System Cell Line	:	HEK293
	Expression System Common	:	HUMAN
	Expression System Plasmid	:	PCEP-PU
	Expression System Taxid	:	9606
	Fragment	:	DOMAINS 1-4, RESIDUES 35-511
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	ENDO180, C-TYPE LECTIN DOMAIN FAMILY 13 MEMBER E, ENDOCYTIC RECEPTOR 180, MACROPHAGE MANNOSE RECEPTOR 2, UROKINASE-TYPE PLASMINOGEN ACTIVATOR RECEPTOR-ASSOCIATED PROTEIN, UPAR-ASSOCIATED PROTEIN, UROKINASE RECEPTOR-ASSOCIATED PROTEIN, CD280

		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 (2, 8)

No.	Name	Count	Type	Full Name
1	NA	4	Ligand/Ion	SODIUM ION
2	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	NA	-1	Ligand/Ion	SODIUM ION
2	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	NA	-1	Ligand/Ion	SODIUM ION
2	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:326 , ASP A:328 , GLU A:333 , ASN A:348 , HOH A:2078	BINDING SITE FOR RESIDUE NA A 901
2	AC2	SOFTWARE	GLU A:470 , ASN A:472 , ASP A:493 , HOH A:2090 , HOH A:2092	BINDING SITE FOR RESIDUE NA A 902
3	AC3	SOFTWARE	GLN B:326 , ASP B:328 , GLU B:333 , ASN B:348 , HOH B:2053	BINDING SITE FOR RESIDUE NA B 901
4	AC4	SOFTWARE	GLU B:470 , ASN B:472 , ASP B:493 , HOH B:2066 , HOH B:2067	BINDING SITE FOR RESIDUE NA B 902
5	AC5	SOFTWARE	THR A:216 , GLN A:217	BINDING SITE FOR RESIDUE SO4 A1512
6	AC6	SOFTWARE	ARG B:260 , ASP B:350 , CYS B:351 , ARG B:401 , HOH B:2052	BINDING SITE FOR RESIDUE SO4 B1511
7	AC7	SOFTWARE	GLY A:205 , ARG A:206 , TYR A:219	BINDING SITE FOR RESIDUE SO4 A1513
8	AC8	SOFTWARE	ARG B:206 , TRP B:212 , TYR B:219 , TRP B:225	BINDING SITE FOR RESIDUE SO4 B1512

Asymmetric Unit

No.	Residues
1	A:54	-	A:68
2	A:93	-	A:112
3	A:123	-	A:168
4	A:187	-	A:213
5	A:201	-	A:228
6	A:235	-	A:248
7	A:266	-	A:359
8	A:335	-	A:351
9	A:382	-	A:393
10	A:410	-	A:504
11	A:481	-	A:496
12	B:54	-	B:68
13	B:93	-	B:112
14	B:123	-	B:168
15	B:187	-	B:213
16	B:201	-	B:228
17	B:235	-	B:248
18	B:266	-	B:359
19	B:335	-	B:351
20	B:382	-	B:393
21	B:410	-	B:504
22	B:481	-	B:496

Asymmetric Unit

No.	Residues
1	Ile A:189	-	Pro A:190
2	Gln A:326	-	Pro A:327
3	Glu A:470	-	Pro A:471
4	Leu A:510	-	Ser A:511
5	Thr B:138	-	Gly B:156
6	Ile B:189	-	Pro B:190
7	Asn B:286	-	Gly B:287
8	Gln B:326	-	Pro B:327
9	Glu B:470	-	Pro B:471

(no "SAP(SNP)/Variant" information available for 5AO5)

(no "PROSITE Motif" information available for 5AO5)

(no "Exon" information available for 5AO5)

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:435
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee....eeeeee..eeeee......hhhh.eeeehhheeee....eeee.........eee..............hhhhhhhhhhh...eee..............................eee..eee.............eee...hhhhhh.eee............eee....eeeeeeeeeeehhhhhhhhhhh...ee....hhhhhhhhhhhhh....eeeeeee........ee.......................eeeee.....eeeee.....eeeeeee..........eee..eeeeeeeeeehhhhhhhhhhhh..ee....hhhhhhhhhhhh.....eeeeeee........ee........................eeeeee....eeeeee....eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ao5 A  40 EPNVFLIFSHGLQGCLEAQGGQVRVTPACNTSLPAQRWKWVSRNRLFNLGTMQCLGTGWPGTASLGMYECDREALNLRWHCRTLGDQLSLLLGAGQWRIYGSEEDLCALPYHEVYTIQGNSHGKPCTIPFKYDNQWFHGCTSTGREDGHLWCATTQDYGKDERWGFCPIKSNDCETFWDKDQLTDSCYQFNFQSTLSWREAWASCEQQGADLLSITEIHEQTYINGLLTGYSSTLWIGLNDLDTSGGWQWSDNSPLKYLNWESDQPDNPSEENCGVIRTESSGGWQNRDCSIALPYVCKKKPKVECEPSWQPFQGHCYRLQAEKRSWQESKKACLRGGGDLVSIHSMAELEFITKQIKQEVEELWIGLNDLKLQMNFEWSDGSLVSFTHWHPFEPNNFRDSLEDCVTIWGPEGRWNDSPCNQSLPSICKKAGQLS 511
                                    49        59        69        79        89        99 ||    112       122       132   ||  161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361 ||    386       396       406       416       426       436       446       456       466       476       486       496       506     
                                                                                       101|                            136|                                                                                                                                                                                                            363|                                                                                                                                    
                                                                                        105                             156                                                                                                                                                                                                             379

Chain B from PDB  Type:PROTEIN  Length:434
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee....eeeeee..eeeee......hhhh.eeee...eeee....eeee........eee..............hhhhhhhhhhh.....eee..............................eee..eee.............eee...hhhhhh.eee............ee......eeeeeeeeeehhhhhhhhhhh...ee....hhhhhhhhhh.......eeeeeee........ee.......................eeeee.....eeeee.....eeeeeee.........eee..eeeeeeeeeehhhhhhhhhhhh..ee....hhhhhhhhhhhh......eeeeee........ee........................eeeee......eeeee....eeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ao5 B  40 EPNVFLIFSHGLQGCLEAQGGQVRVTPACNTSLPAQRWKWVSRNRLFNLGTMQCLGTGWPGASLGMYECDREALNLRWHCRTLGDQLSLLLGARTGQWRIYGSEEDLCALPYHEVYTIQGNSHGKPCTIPFKYDNQWFHGCTSTGREDGHLWCATTQDYGKDERWGFCPIKSNDCETFWDKDQLTDSCYQFNFQSTLSWREAWASCEQQGADLLSITEIHEQTYINGLLTGYSSTLWIGLNDLDTSGGWQWSDNSPLKYLNWESDQPDNPSEENCGVIRTESSGGWQNRDCSIALPYVCKKKKVECEPSWQPFQGHCYRLQAEKRSWQESKKACLRGGGDLVSIHSMAELEFITKQIKQEVEELWIGLNDLKLQMNFEWSDGSLVSFTHWHPFEPNNFRDSLEDCVTIWGPEGRWNDSPCNQSLPSICKKAGQL 510
                                    49        59        69        79        89        99||     113       123       133    || 160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360 ||    386       396       406       416       426       436       446       456       466       476       486       496       506    
                                                                                      100|                              138|                                                                                                                                                                                                           362|                                                                                                                                   
                                                                                       105                               156                                                                                                                                                                                                            379

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 5AO5)

(no "CATH Domain" information available for 5AO5)

(no "Pfam Domain" information available for 5AO5)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		NA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SO4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asn B:286 - Gly B:287	[ RasMol ]
		Gln A:326 - Pro A:327	[ RasMol ]
		Gln B:326 - Pro B:327	[ RasMol ]
		Glu A:470 - Pro A:471	[ RasMol ]
		Glu B:470 - Pro B:471	[ RasMol ]
		Ile A:189 - Pro A:190	[ RasMol ]
		Ile B:189 - Pro B:190	[ RasMol ]
		Leu A:510 - Ser A:511	[ RasMol ]
		Thr B:138 - Gly B:156	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	5ao5
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	MRC2_HUMAN \| Q9UBG0
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	MRC2_HUMAN \| Q9UBG0
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	MRC2_HUMAN \| Q9UBG0	:	5ao6 5e4k 5e4l 5ew6

5ao6	ENDO180 D1-4, TRIGONAL FORM

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (22, 22)

Cis Peptide Bonds (9, 9)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File