4B8Z - 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)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF HUMAN GDP-L-FUCOSE SYNTHASE WITH BOUND NADP AND GDP, RHOMBOHEDRAL CRYSTAL FORM

Authors :   M. Vollmar, T. Krojer, N. Shafqat, A. Rojkova, G. Bunkoczi, W. W. Yue, K. F. Von Delft, J. Weigelt, C. H. Arrowsmith, C. Bountra, A. Edwards, U. Oppermann

Date :   31 Aug 12 (Deposition) - 06 Feb 13 (Release) - 06 Feb 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.75

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Vollmar, T. Krojer, N. Shafqat, A. Rojkova, G. Bunkoczi, W. W. Yue, K. Kavanagh, F. Von Delft, J. Weigelt, C. H. Arrowsmith, C. Bountra, A. Edwards, U. Oppermann
Crystal Structure Of Human Gdp-L-Fucose Synthase With Bound Nadp And Gdp, Rhombohedral Crystal Form
To Be Published
PubMed: search

Molecule 1 - GDP-L-FUCOSE SYNTHASE
	Chains	:	A, B, C, D
	EC Number	:	1.1.1.271
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PNIC28-BSA4
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	R3
	Fragment	:	RESIDUES 7-320
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	GDP-4-KETO-6-DEOXY-D-MANNOSE-3,5-EPIMERASE-4-REDUCTASE, PROTEIN FX, RED CELL NADP(H)-BINDING PROTEIN, SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 4E MEMBER 1

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 8)

No.	Name	Count	Type	Full Name
1	GDP	4	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	NAP	4	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	NAP	1	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	NAP	1	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	NAP	1	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
2	NAP	1	Ligand/Ion	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:14 , SER A:16 , GLY A:17 , LEU A:18 , VAL A:19 , SER A:42 , SER A:43 , ALA A:46 , ASP A:47 , LEU A:48 , LEU A:69 , ALA A:71 , VAL A:73 , MET A:93 , CYS A:112 , LEU A:113 , SER A:114 , TYR A:143 , LYS A:147 , PRO A:170 , THR A:171 , ASN A:172 , VAL A:173	BINDING SITE FOR RESIDUE NAP A 900
2	AC2	SOFTWARE	GLY A:75 , LEU A:76 , ASN A:172 , GLY A:185 , HIS A:186 , VAL A:187 , GLY A:190 , LYS A:194 , TRP A:208 , GLY A:209 , PRO A:213 , ARG A:215 , ILE A:252 , SER A:276 , ASP A:277 , LYS A:282 , HOH A:2003	BINDING SITE FOR RESIDUE GDP A 901
3	AC3	SOFTWARE	GLY B:14 , SER B:16 , GLY B:17 , LEU B:18 , VAL B:19 , SER B:42 , SER B:43 , ALA B:46 , ASP B:47 , LEU B:48 , LEU B:69 , ALA B:70 , ALA B:71 , VAL B:73 , MET B:93 , CYS B:112 , LEU B:113 , SER B:114 , TYR B:143 , LYS B:147 , PRO B:170 , THR B:171 , VAL B:173 , HIS B:186 , ARG B:320 , HOH B:2001	BINDING SITE FOR RESIDUE NAP B 900
4	AC4	SOFTWARE	GLY B:75 , LEU B:76 , PHE B:77 , ASN B:172 , GLY B:185 , HIS B:186 , VAL B:187 , LYS B:194 , TRP B:208 , GLY B:209 , PRO B:213 , ARG B:215 , ILE B:252 , SER B:276 , ASP B:277 , LYS B:282	BINDING SITE FOR RESIDUE GDP B 901
5	AC5	SOFTWARE	GLY C:14 , SER C:16 , GLY C:17 , LEU C:18 , VAL C:19 , SER C:42 , SER C:43 , ALA C:46 , ASP C:47 , LEU C:48 , LEU C:69 , ALA C:70 , ALA C:71 , VAL C:73 , MET C:93 , CYS C:112 , LEU C:113 , SER C:114 , TYR C:143 , LYS C:147 , PRO C:170 , THR C:171 , VAL C:173 , HIS C:186 , ARG C:320 , HOH C:2001	BINDING SITE FOR RESIDUE NAP C 900
6	AC6	SOFTWARE	GLY C:75 , LEU C:76 , PHE C:77 , ASN C:172 , GLY C:185 , HIS C:186 , VAL C:187 , LYS C:194 , TRP C:208 , GLY C:209 , PRO C:213 , ARG C:215 , SER C:276 , ASP C:277 , LYS C:282	BINDING SITE FOR RESIDUE GDP C 901
7	AC7	SOFTWARE	GLY D:14 , SER D:16 , GLY D:17 , LEU D:18 , VAL D:19 , SER D:42 , SER D:43 , ALA D:46 , ASP D:47 , LEU D:48 , LEU D:69 , ALA D:70 , ALA D:71 , VAL D:73 , MET D:93 , CYS D:112 , LEU D:113 , SER D:114 , TYR D:143 , LYS D:147 , PRO D:170 , THR D:171 , ASN D:172 , VAL D:173 , HIS D:186 , ARG D:320	BINDING SITE FOR RESIDUE NAP D 900
8	AC8	SOFTWARE	GLY D:75 , LEU D:76 , PHE D:77 , ASN D:172 , GLY D:185 , HIS D:186 , VAL D:187 , LYS D:194 , TRP D:208 , PRO D:213 , ARG D:215 , SER D:276 , ASP D:277 , LYS D:282	BINDING SITE FOR RESIDUE GDP D 901

(no "SS Bond" information available for 4B8Z)

Asymmetric Unit

No.	Residues
1	Tyr A:124	-	Pro A:125
2	Tyr B:124	-	Pro B:125
3	Tyr C:124	-	Pro C:125
4	Tyr D:124	-	Pro D:125

(no "SAP(SNP)/Variant" information available for 4B8Z)

(no "PROSITE Motif" information available for 4B8Z)

(no "Exon" information available for 4B8Z)

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:308
 aligned with FCL_HUMAN | Q13630 from UniProtKB/Swiss-Prot  Length:321

    Alignment length:308
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307        
            FCL_HUMAN     8 MRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDN 315
               SCOP domains d4b8za_ A: automated matches                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhh.......eeee.........hhhhhhhhhhhh...eeee......hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhh.....................hhhhhhhhhhhhhhhhhhhhhhh.eeeeeee.eee...........hhhhhhhhhhhhhhhhh..eeee.....ee.eeehhhhhhhhhhhhhhh.....eee..hhhhheehhhhhhhhhhhh.....eeee.............hhhhhhhh......hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b8z A   8 MRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDN 315
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307

Chain B from PDB  Type:PROTEIN  Length:320
 aligned with FCL_HUMAN | Q13630 from UniProtKB/Swiss-Prot  Length:321

    Alignment length:320
                                    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       310       320
            FCL_HUMAN     1 MGEPQGSMRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDNYEQAR 320
               SCOP domains d4b8zb_ B: automated matches                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee...hhhhhhhhhhhhh......eeeee.........hhhhhhhhhhhh...eeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhh..................hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee.eee...........hhhhhhhhhhhhhhhhh..eeee.....ee.eeehhhhhhhhhhhhhhh.....eee..hhhhheehhhhhhhhhhhh.....eeee.............hhhhhhhh......hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b8z B  -7 ENLYFQSMRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDNYEQAR 320
                                  ||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       310       320
                                 -1|                                                                                                                                                                                                                                                                                                                        
                                   8

Chain C from PDB  Type:PROTEIN  Length:313
 aligned with FCL_HUMAN | Q13630 from UniProtKB/Swiss-Prot  Length:321

    Alignment length:313
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317   
            FCL_HUMAN     8 MRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDNYEQAR 320
               SCOP domains d4b8zc_ C: automated matches                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhh.......eeeee........hhhhhhhhhhhh...eeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhh.....................hhhhhhhhhhhhhhhhhhhhhhh.eeeeeee.eee...........hhhhhhhhhhhhhhhhh..eeee.....ee.eeehhhhhhhhhhhhhhh.....eee..hhhhheehhhhhhhhhhhh.....eeee.............hhhhhhhh......hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b8z C   8 MRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDNYEQAR 320
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317

Chain D from PDB  Type:PROTEIN  Length:313
 aligned with FCL_HUMAN | Q13630 from UniProtKB/Swiss-Prot  Length:321

    Alignment length:313
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317   
            FCL_HUMAN     8 MRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDNYEQAR 320
               SCOP domains d4b8zd_ D: automated matches                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhhhh.......eeee.........hhhhhhhhhhhh...eeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhh.....................hhhhhhhhhhhhhhhhhhhhhhh.eeeeeee.eee...........hhhhhhhhhhhhhhhhh..eeee.....ee.eeehhhhhhhhhhhhhhh.....eee..hhhhheehhhhhhhhhhhh.....eeee.............hhhhhhhh......hhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4b8z D   8 MRILVTGGSGLVGKAIQKVVADGAGLPGEDWVFVSSKDADLTDTAQTRALFEKVQPTHVIHLAAMVGGLFRNIKYNLDFWRKNVHMNDNVLHSAFEVGARKVVSCLSTCIFPDKTTYPIDETMIHNGPPHNSNFGYSYAKRMIDVQNRAYFQQYGCTFTAVIPTNVFGPHDNFNIEDGHVLPGLIHKVHLAKSSGSALTVWGTGNPRRQFIYSLDLAQLFIWVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEVTFDTTKSDGQFKKTASNSKLRTYLPDFRFTPFKQAVKETCAWFTDNYEQAR 320
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: NAD(P)-binding Rossmann-fold domains (1604)

Superfamily: NAD(P)-binding Rossmann-fold domains (1604)

Family: automated matches (447)

Protein domain: automated matches (447)

Human (Homo sapiens) [TaxId: 9606] (32)

1a	d4b8za_	A:
1b	d4b8zb_	B:
1c	d4b8zc_	C:
1d	d4b8zd_	D:

(no "CATH Domain" information available for 4B8Z)

(no "Pfam Domain" information available for 4B8Z)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (FCL_HUMAN | Q13630)

molecular function
	GO:0042356	GDP-4-dehydro-D-rhamnose reductase activity	Catalysis of the reaction: GDP-6-deoxy-D-mannose + NAD(P)+ = GDP-4-dehydro-6-deoxy-D-mannose + NAD(P)H + H+. In the reverse reaction, a mixture of GDP-D-rhamnose and its C-4 epimer is formed.
	GO:0050577	GDP-L-fucose synthase activity	Catalysis of the reaction: GDP-L-fucose + NAD+ = GDP-4-dehydro-6-deoxy-D-mannose + NADH + H+.
	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:0050662	coenzyme binding	Interacting selectively and non-covalently with a coenzyme, any of various nonprotein organic cofactors that are required, in addition to an enzyme and a substrate, for an enzymatic reaction to proceed.
	GO:0009055	electron carrier activity	Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
	GO:0042351	'de novo' GDP-L-fucose biosynthetic process	The chemical reactions and pathways resulting in the formation of GDP-L-fucose from GDP-D-mannose via GDP-4-dehydro-6-deoxy-D-mannose, requiring the functions of GDP-mannose 4,6-dehydratase (EC:4.2.1.47) and GDP-L-fucose synthase (EC:1.1.1.271).
	GO:0019673	GDP-mannose metabolic process	The chemical reactions and pathways involving GDP-mannose, a substance composed of mannose in glycosidic linkage with guanosine diphosphate.
	GO:0019835	cytolysis	The rupture of cell membranes and the loss of cytoplasm.
	GO:0007159	leukocyte cell-cell adhesion	The attachment of a leukocyte to another cell via adhesion molecules.
	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.
	GO:0009226	nucleotide-sugar biosynthetic process	The chemical reactions and pathways resulting in the formation of nucleotide-sugars, any nucleotide-carbohydrate in which the distal phosphoric residue of a nucleoside 5'-diphosphate is in glycosidic linkage with a monosaccharide or monosaccharide derivative.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	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.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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		NAP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

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		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Tyr A:124 - Pro A:125	[ RasMol ]
		Tyr B:124 - Pro B:125	[ RasMol ]
		Tyr C:124 - Pro C:125	[ RasMol ]
		Tyr D:124 - Pro D:125	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]

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Access by PDB/NDB ID
	4b8z
		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
	FCL_HUMAN \| Q13630
		Comparative Protein Structure Models	:	ModBase
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		Protein-protein Interaction	:	DIP
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	1.1.1.271
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		Pathway	:	KEGG \| MetaCyc

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	FCL_HUMAN \| Q13630
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UniProtKB/Swiss-Prot
	FCL_HUMAN \| Q13630	:	4b8w 4bkp 4bl5 4e5y

4b8w	CRYSTAL STRUCTURE OF HUMAN GDP-L-FUCOSE SYNTHASE WITH BOUND NADP AND GDP, TETRAGONAL CRYSTAL FORM

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (17, 17)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File