1MFU - JenaLib

Asymmetric Unit (20, 20)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:105 , ASP A:147 , AGL A:499 , HOH A:970	BINDING SITE FOR RESIDUE HMC A 498
02	AC2	SOFTWARE	GLN A:63 , SER A:163 , HMC A:498 , GLC A:500	BINDING SITE FOR RESIDUE AGL A 499
03	AC3	SOFTWARE	TRP A:58 , TRP A:59 , TYR A:62 , GLN A:63 , ASP A:300 , AGL A:499 , HMC A:501 , AGL A:502 , HOH A:863	BINDING SITE FOR RESIDUE GLC A 500
04	AC4	SOFTWARE	TRP A:58 , TYR A:62 , HIS A:101 , ARG A:195 , ASP A:197 , GLU A:233 , HIS A:299 , ASP A:300 , GLC A:500 , AGL A:502	BINDING SITE FOR RESIDUE HMC A 501
05	AC5	SOFTWARE	ALA A:198 , HIS A:201 , GLU A:233 , ASP A:300 , GLC A:500 , HMC A:501 , GLC A:503 , HOH A:744	BINDING SITE FOR RESIDUE AGL A 502
06	AC6	SOFTWARE	GLC A:503	BINDING SITE FOR RESIDUE GLC A 504
07	AC7	SOFTWARE	TYR A:151 , LYS A:200 , GLU A:240 , AGL A:502 , GLC A:504 , HOH A:982	BINDING SITE FOR RESIDUE GLC A 503
08	AC8	SOFTWARE	AGL A:550 , HOH A:961	BINDING SITE FOR RESIDUE HMC A 549
09	AC9	SOFTWARE	LYS A:261 , TRP A:284 , HMC A:549 , GLC A:551	BINDING SITE FOR RESIDUE AGL A 550
10	BC1	SOFTWARE	ARG A:20 , TYR A:276 , ASP A:358 , VAL A:361 , LYS A:363 , GLU A:364 , GLC A:551 , HOH A:817 , HOH A:832 , HOH A:952	BINDING SITE FOR RESIDUE GLC A 552
11	BC2	SOFTWARE	GLU A:272 , TYR A:276 , ASN A:279 , AGL A:550 , GLC A:552	BINDING SITE FOR RESIDUE GLC A 551
12	BC3	SOFTWARE	TRP A:203 , GLC A:575	BINDING SITE FOR RESIDUE GLC A 576
13	BC4	SOFTWARE	LYS A:140 , TRP A:203 , GLY A:205 , ASP A:206 , GLC A:576 , HOH A:789 , HOH A:867 , HOH A:933	BINDING SITE FOR RESIDUE GLC A 575
14	BC5	SOFTWARE	VAL A:349 , TRP A:352 , ASP A:370 , THR A:371 , ARG A:384 , ARG A:387 , ASP A:451 , AGL A:600 , HOH A:927	BINDING SITE FOR RESIDUE HMC A 599
15	BC6	SOFTWARE	ASN A:53 , PRO A:54 , ARG A:382 , TRP A:383 , ARG A:384 , GLN A:385 , HMC A:599 , GLC A:601	BINDING SITE FOR RESIDUE AGL A 600
16	BC7	SOFTWARE	ALA A:313 , GLC A:601 , HOH A:901	BINDING SITE FOR RESIDUE GLC A 602
17	BC8	SOFTWARE	ALA A:313 , LYS A:317 , THR A:372 , TRP A:383 , GLN A:385 , AGL A:600 , GLC A:602 , HOH A:758 , HOH A:846 , HOH A:901	BINDING SITE FOR RESIDUE GLC A 601
18	BC9	SOFTWARE	SER A:132 , TRP A:134 , ASP A:135 , LYS A:172 , TYR A:174 , HOH A:968 , HOH A:988	BINDING SITE FOR RESIDUE GLC A 625
19	CC1	SOFTWARE	ASN A:100 , ARG A:158 , ASP A:167 , HIS A:201 , HOH A:755 , HOH A:763 , HOH A:799	BINDING SITE FOR RESIDUE CA A 492
20	CC2	SOFTWARE	ARG A:195 , ASN A:298 , ARG A:332	BINDING SITE FOR RESIDUE CL A 493

SS Bonds (5, 5)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (10, 10)

Asymmetric/Biological Unit (10, 10)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1c	ENST00000370083	1c	ENSE00001800716	chr1:104198377-104198550	174	AMY1_HUMAN	-	0	0	-	-
1.3	ENST00000370083	3	ENSE00001618329	chr1:104198907-104199120	214	AMY1_HUMAN	1-56	56	1	A:1-41	41
1.4b	ENST00000370083	4b	ENSE00002198690	chr1:104199466-104199612	147	AMY1_HUMAN	57-105	49	1	A:42-90	49
1.5	ENST00000370083	5	ENSE00001722064	chr1:104200416-104200613	198	AMY1_HUMAN	106-171	66	1	A:91-156	66
1.6b	ENST00000370083	6b	ENSE00002145789	chr1:104201062-104201292	231	AMY1_HUMAN	172-248	77	1	A:157-233	77
1.7	ENST00000370083	7	ENSE00001650327	chr1:104202032-104202165	134	AMY1_HUMAN	249-293	45	1	A:234-278	45
1.8	ENST00000370083	8	ENSE00001669527	chr1:104202982-104203104	123	AMY1_HUMAN	293-334	42	1	A:278-314 (gaps)	42
1.9	ENST00000370083	9	ENSE00001786647	chr1:104203199-104203298	100	AMY1_HUMAN	334-367	34	1	A:314-347	34
1.10a	ENST00000370083	10a	ENSE00001615366	chr1:104205279-104205397	119	AMY1_HUMAN	368-407	40	1	A:348-387	40
1.11	ENST00000370083	11	ENSE00001680728	chr1:104205508-104205633	126	AMY1_HUMAN	407-449	43	1	A:387-429	43
1.13a	ENST00000370083	13a	ENSE00001671242	chr1:104206953-104207173	221	AMY1_HUMAN	449-511	63	1	A:429-491	63

Sequences/Alignments

Asymmetric/Biological 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:491
 aligned with AMY1_HUMAN | P04745 from UniProtKB/Swiss-Prot  Length:511

    Alignment length:496
                                    25        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       415       425       435       445       455       465       475       485       495       505      
           AMY1_HUMAN    16 QYSSNTQQGRTSIVHLFEWRWVDIALECERYLAPKGFGGVQVSPPNENVAIHNPFRPWWERYQPVSYKLCTRSGNEDEFRNMVTRCNNVGVRIYVDAVINHMCGNAVSAGTSSTCGSYFNPGSRDFPAVPYSGWDFNDGKCKTGSGDIENYNDATQVRDCRLSGLLDLALGKDYVRSKIAEYMNHLIDIGVAGFRIDASKHMWPGDIKAILDKLHNLNSNWFPEGSKPFIYQEVIDLGGEPIKSSDYFGNGRVTEFKYGAKLGTVIRKWNGEKMSYLKNWGEGWGFMPSDRALVFVDNHDNQRGHGAGGASILTFWDARLYKMAVGFMLAHPYGFTRVMSSYRWPRYFENGKDVNDWVGPPNDNGVTKEVTINPDTTCGNDWVCEHRWRQIRNMVNFRNVVDGQPFTNWYDNGSNQVAFGRGNRGFIVFNNDDWTFSLTLQTGLPAGTYCDVISGDKINGNCTGIKIYVSDDGKAHFSISNSAEDPFIAIHAESKL 511
               SCOP domains d1mfua2 A:1-403 Animal alpha-amylase                                                                                                                                                                                                                                                                                                                                                                                    d1mfua1 A:404-491 Animal alpha-amylase                                                   SCOP domains
               CATH domains -1mfuA01 A:2-398 Glycosidases                                                                                                                                                                                                                                                                                                                                                                                      1mfuA02 A:399-491 Golgi alpha-mannosidase II                                                  CATH domains
               Pfam domains --------------------Alpha-amylase-1mfuA02 A:21-331                                                                                                                                                                                                                                                               -----                          ---------------------------------------------------------------------Alpha-amylase_C-1mfuA01 A:401-490                                                         - Pfam domains
         Sec.struct. author ...........eeeee...hhhhhhhhhhhh.......eeee..............hhhhhhh...........hhhhhhhhhhhhhhh..eeeeee...eeee...........................hhhhh................hhhhhhhhhhh.eee....hhhhhhhhhhhhhhhhhhh..eeee.hhhhhhhhhhhhhhh................eeee..........hhhhhh...eee.hhhhhhhhhhhh.....hhhhhhhhhhhhh......eee.....hhhhh.-----...hhhhhhhhhhhhhhhhhh...eeeeee.......ee..ee........ee..ee................hhhhhhhhhhhhhhhhhhh...eeeeee....eeeeee...eeeeee.....eeeeee.....eeee......ee..ee...eeee....eeeeee.......eeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.3  PDB: A:1-41 UniProt: 1-56      Exon 1.4b  PDB: A:42-90 UniProt: 57-105          Exon 1.5  PDB: A:91-156 UniProt: 106-171                          Exon 1.6b  PDB: A:157-233 UniProt: 172-248                                   Exon 1.7  PDB: A:234-278 UniProt: 249-293    ----------------------------------------Exon 1.9  PDB: A:314-347          Exon 1.10a  PDB: A:348-387              -----------------------------------------Exon 1.13a  PDB: A:429-491 UniProt: 449-511                     Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.8  PDB: A:278-314 (gaps)           ------------------------------------------------------------------------Exon 1.11  PDB: A:387-429 UniProt: 407-449 -------------------------------------------------------------- Transcript 1 (2)
                 1mfu A   1 xYSSNTQQGRTSIVHLFEWRWVDIALECERYLAPKGFGGVQVSPPNENVAIHNPFRPWWERYQPVSYKLCTRSGNEDEFRNMVTRCNNVGVRIYVDAVINHMCGNAVSAGTSSTCGSYFNPGSRDFPAVPYSGWDFNDGKCKTGSGDIENYNDATQVRDCRLSGLLDLALGKDYVRSKIAEYMNHLIDIGVAGFRIDASKHMWPGDIKAILDKLHNLNSNWFPEGSKPFIYQEVIDLGGEPIKSSDYFGNGRVTEFKYGAKLGTVIRKWNGEKMSYLKNWGEGWGFMPSDRALVFVDNHDNQRGH-----SILTFWDARLYKMAVGFMLAHPYGFTRVMSSYRWPRYFENGKDVNDWVGPPNDNGVTKEVTINPDTTCGNDWVCEHRWRQIRNMVNFRNVVDGQPFTNWYDNGSNQVAFGRGNRGFIVFNNDDWTFSLTLQTGLPAGTYCDVISGDKINGNCTGIKIYVSDDGKAHFSISNSAEDPFIAIHAESKL 491
                            |       10        20        30        40        50        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    |    -|      315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485      
                            |                                                                                                                                                                                                                                                                                                             305   306                                                                                                                                                                                         
                            1-PCA

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 (2, 2)

CATH Domains (2, 2)

Pfam Domains (2, 2)

Gene Ontology (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (AMY1_HUMAN | P04745)

molecular function
	GO:0004556	alpha-amylase activity	Catalysis of the endohydrolysis of (1->4)-alpha-D-glucosidic linkages in polysaccharides containing three or more alpha-(1->4)-linked D-glucose units.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0043169	cation binding	Interacting selectively and non-covalently with cations, charged atoms or groups of atoms with a net positive charge.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0007586	digestion	The whole of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
cellular component
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

Visualization

Interactive Views

Asymmetric/Biological 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
		AGL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		GLC	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		HMC	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PCA	[ 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 ]
		BC9	[ RasMol ]	+environment [ RasMol ]
		CC1	[ RasMol ]	+environment [ RasMol ]
		CC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asn A:53 - Pro A:54	[ RasMol ]
		Val A:129 - Pro A:130	[ RasMol ]

Still Images

Databases and Analysis Tools

Databases

Access by PDB/NDB ID
	1mfu
		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
	AMY1_HUMAN \| P04745
		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)
	3.2.1.1
		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 (6, 21)

Sites (20, 20)