2DUQ - JenaLib

Asymmetric Unit (17, 17)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:131 , ASN A:166 , HIS A:190 , GLY A:260 , ASP A:261 , LEU A:262 , HOH A:396 , HOH A:493 , HOH A:496 , LYS B:125 , LEU B:128	BINDING SITE FOR RESIDUE MAN A 16
02	AC2	SOFTWARE	LYS A:125 , ASP B:131 , ASN B:166 , HIS B:190 , GLY B:260 , ASP B:261 , LEU B:262 , HOH B:311 , HOH B:392 , HOH B:412 , HOH B:460	BINDING SITE FOR RESIDUE MAN B 17
03	AC3	SOFTWARE	ASP A:162 , TYR A:164 , ASN A:166 , ASP A:193 , HOH A:319 , HOH A:339	BINDING SITE FOR RESIDUE CA A 1
04	AC4	SOFTWARE	ASP B:162 , TYR B:164 , ASN B:166 , ASP B:193 , HOH B:335 , HOH B:337	BINDING SITE FOR RESIDUE CA B 2
05	AC5	SOFTWARE	ARG A:56 , LEU A:60 , ILE A:61 , GLN A:65	BINDING SITE FOR RESIDUE CL A 3
06	AC6	SOFTWARE	ARG B:56 , ILE B:61 , TYR B:64 , GLY B:66	BINDING SITE FOR RESIDUE CL B 4
07	AC7	SOFTWARE	ARG A:209 , ASP A:210	BINDING SITE FOR RESIDUE CL A 5
08	AC8	SOFTWARE	ARG B:209 , ASP B:210	BINDING SITE FOR RESIDUE CL B 6
09	AC9	SOFTWARE	THR A:228 , LEU A:230 , HOH A:350	BINDING SITE FOR RESIDUE CL A 7
10	BC1	SOFTWARE	GLY B:68 , SER B:70 , MET B:72	BINDING SITE FOR RESIDUE CL B 8
11	BC2	SOFTWARE	ASN A:166 , LYS B:126	BINDING SITE FOR RESIDUE CL A 9
12	BC3	SOFTWARE	ARG B:207	BINDING SITE FOR RESIDUE CL B 10
13	BC4	SOFTWARE	ASN B:166 , HOH B:412	BINDING SITE FOR RESIDUE CL B 11
14	BC5	SOFTWARE	ARG A:89 , HOH A:378	BINDING SITE FOR RESIDUE CL A 12
15	BC6	SOFTWARE	ASP A:189 , GLY A:194 , TRP A:196 , THR A:197 , HOH A:394	BINDING SITE FOR RESIDUE CL A 13
16	BC7	SOFTWARE	THR B:228 , LEU B:230 , LYS B:237 , HOH B:406	BINDING SITE FOR RESIDUE CL B 14
17	BC8	SOFTWARE	HIS A:129 , ARG A:207	BINDING SITE FOR RESIDUE CL A 15

SS Bonds (2, 2)

Cis Peptide Bonds (6, 6)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (7, 14)

Sequences/Alignments

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:244
 aligned with LMAN2_CANLF | P49256 from UniProtKB/Swiss-Prot  Length:356

    Alignment length:249
                                    62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292         
          LMAN2_CANLF    53 HLKREHSLIKPYQGVGSSSMPLWDFQGSTILTSQYVRLTPDERSKEGSIWNHQPCFLKDWEMHVHFKVHGTGKKNLHGDGIALWYTRDRLVPGPVFGSKDNFHGLAIFLDTYPNDETTERVFPYISVMVNNGSLSYDHSKDGRWTELAGCTADFRNRDHDTFLAVRYSRGRLTVMTDLEDKNEWKNCIDITGVRLPTGYYFGASAGTGDLSDNHDIISMKLFQLMVEHTPDEENIDWTKIEPSVNFLKS 301
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhh................eeeee.eee....eeee.....eeeeeee........eeeeeeeeee.........eeeeeeee................eeeeeeee.............eeeeeeee......hhh..hhh.eeeee.........eeeeeeee..eeeeeee.......eeeeeee.ee.....eeeeeeee.....eeeeeeeeeee......-----..hhh...ee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE L_LECTIN_LIKE  PDB: - UniProt: 52-276                                                                                                                                                                                           ------------------------- PROSITE
           Transcript 1 (1) Exon 1.1       ---------------------------------------Exon 1.3  PDB: A:107-146                --------------------------Exon 1.5  PDB: A:173-226 UniProt: 173-226             Exon 1.6  PDB: A:227-265               ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) --------------Exon 1.2  PDB: A:67-106 UniProt: 67-106 ---------------------------------------Exon 1.4  PDB: A:146-172   --------------------------------------------------------------------------------------------Exon 1.7  PDB: A:265-301 (gaps)       Transcript 1 (2)
                 2duq A  53 HLKREHSLIKPYQGVGSSSMPLWDFQGSTILTSQYVRLTPDERSKEGSIWNHQPCFLKDWEMHVHFKVHGTGKKNLHGDGIALWYTRDRLVPGPVFGSKDNFHGLAIFLDTYPNDETTERVFPYISVMVNNGSLSYDHSKDGRWTELAGCTADFRNRDHDTFLAVRYSRGRLTVMTDLEDKNEWKNCIDITGVRLPTGYYFGASAGTGDLSDNHDIISMKLFQLMVEHT-----IDWTKIEPSVNFLKS 301
                                    62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272        |-    |  292         
                                                                                                                                                                                                                                                              281   287

Chain B from PDB  Type:PROTEIN  Length:244
 aligned with LMAN2_CANLF | P49256 from UniProtKB/Swiss-Prot  Length:356

    Alignment length:250
                                    60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300
          LMAN2_CANLF    51 SEHLKREHSLIKPYQGVGSSSMPLWDFQGSTILTSQYVRLTPDERSKEGSIWNHQPCFLKDWEMHVHFKVHGTGKKNLHGDGIALWYTRDRLVPGPVFGSKDNFHGLAIFLDTYPNDETTERVFPYISVMVNNGSLSYDHSKDGRWTELAGCTADFRNRDHDTFLAVRYSRGRLTVMTDLEDKNEWKNCIDITGVRLPTGYYFGASAGTGDLSDNHDIISMKLFQLMVEHTPDEENIDWTKIEPSVNFLK 300
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhh................eeeee.eee....eeee.....eeeeeee........eeeeeeeeee.........eeeeeeee................eeeeeeee.............eeeeeeee......hhh..hhh.eeeee.........eeeeeeee..eeeeeee.......eeeeeee.ee.....eeeeeeee.....eeeeeeeeeee.....------..hhh...ee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -L_LECTIN_LIKE  PDB: B:52-276 UniProt: 52-276                                                                                                                                                                                     ------------------------ PROSITE
           Transcript 1 (1) Exon 1.1         ---------------------------------------Exon 1.3  PDB: B:107-146                --------------------------Exon 1.5  PDB: B:173-226 UniProt: 173-226             Exon 1.6  PDB: B:227-265               ----------------------------------- Transcript 1 (1)
           Transcript 1 (2) ----------------Exon 1.2  PDB: B:67-106 UniProt: 67-106 ---------------------------------------Exon 1.4  PDB: B:146-172   --------------------------------------------------------------------------------------------Exon 1.7  PDB: B:265-300 (gaps)      Transcript 1 (2)
                 2duq B  51 SEHLKREHSLIKPYQGVGSSSMPLWDFQGSTILTSQYVRLTPDERSKEGSIWNHQPCFLKDWEMHVHFKVHGTGKKNLHGDGIALWYTRDRLVPGPVFGSKDNFHGLAIFLDTYPNDETTERVFPYISVMVNNGSLSYDHSKDGRWTELAGCTADFRNRDHDTFLAVRYSRGRLTVMTDLEDKNEWKNCIDITGVRLPTGYYFGASAGTGDLSDNHDIISMKLFQLMVEH------IDWTKIEPSVNFLK 300
                                    60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280      |290       300
                                                                                                                                                                                                                                                               280    287

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (11, 11)

Asymmetric Unit(hide GO term definitions)

Chain A,B (LMAN2_CANLF | P49256)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0015031	protein transport	The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0030137	COPI-coated vesicle	A vesicle with a coat formed of the COPI coat complex proteins. COPI-coated vesicles are found associated with Golgi membranes at steady state, are involved in Golgi to endoplasmic reticulum (retrograde) vesicle transport, and possibly also in intra-Golgi transport.
	GO:0005794	Golgi apparatus	A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
	GO:0000139	Golgi membrane	The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
	GO:0031410	cytoplasmic vesicle	A vesicle found in the cytoplasm of a cell.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0048471	perinuclear region of cytoplasm	Cytoplasm situated near, or occurring around, the nucleus.

Visualization

Interactive Views

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
		CA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MAN	[ 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 ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]
		BC3	[ RasMol ]	+environment [ RasMol ]
		BC4	[ RasMol ]	+environment [ RasMol ]
		BC5	[ RasMol ]	+environment [ RasMol ]
		BC6	[ RasMol ]	+environment [ RasMol ]
		BC7	[ RasMol ]	+environment [ RasMol ]
		BC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Gly A:130 - Asp A:131	[ RasMol ]
		Gly B:130 - Asp B:131	[ RasMol ]
		Lys A:62 - Pro A:63	[ RasMol ]
		Lys B:62 - Pro B:63	[ RasMol ]
		Phe A:174 - Pro A:175	[ RasMol ]
		Phe B:174 - Pro B:175	[ RasMol ]

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

Still Images

Databases and Analysis Tools

Databases

Access by PDB/NDB ID
	2duq
		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
	LMAN2_CANLF \| P49256
		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

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 17)

Sites (17, 17)