1YP4 - JenaLib

Asym./Biol. Unit - manually (Jmol Viewer)

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF POTATO TUBER ADP-GLUCOSE PYROPHOSPHORYLASE IN COMPLEX WITH ADP-GLUCOSE

Authors :   X. Jin, M. A. Ballicora, J. Preiss, J. H. Geiger

Date :   29 Jan 05 (Deposition) - 15 Mar 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym./Biol. Unit : A,B,C,D

Keywords :   Adp-Glucose Pyrophosphorylase/Adp-Glucose Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   X. Jin, M. A. Ballicora, J. Preiss, J. H. Geiger
Crystal Structure Of Potato Tuber Adp-Glucose Pyrophosphorylase.
Embo J. V. 24 694 2005
PubMed-ID: 15692569 | Reference-DOI: 10.1038/SJ.EMBOJ.7600551
(for further references see the PDB file header)

Molecule 1 - GLUCOSE-1-PHOSPHATE ADENYLYLTRANSFERASE SMALL SUBUNIT
	Chains	:	A, B, C, D
	EC Number	:	2.7.7.27
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMLAUGH10
	Expression System Strain	:	AC70R1-504
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	POTATO
	Organism Scientific	:	SOLANUM TUBEROSUM
	Organism Taxid	:	4113
	Synonym	:	ADP-GLUCOSE SYNTHASE, ADP-GLUCOSE PYROPHOSPHORYLASE, AGPASE B, ALPHA-D-GLUCOSE-1-PHOSPHATE ADENYL TRANSFERASE

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 19)

No.	Name	Count	Type	Full Name
1	ADP	2	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	ADQ	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE-GLUCOSE
3	SO4	16	Ligand/Ion	SULFATE ION

Asymmetric Unit (19, 19)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:41 , ARG A:53 , SER A:80 , ARG A:83 , ASP A:370 , LYS A:404 , LYS A:441	BINDING SITE FOR RESIDUE SO4 A 1000
02	AC2	SOFTWARE	ARG B:41 , ARG B:53 , SER B:80 , ASP B:370 , LYS B:404 , LYS B:441 , HOH B:1113	BINDING SITE FOR RESIDUE SO4 B 1001
03	AC3	SOFTWARE	ARG C:41 , ARG C:53 , SER C:80 , ASP C:370 , LYS C:404 , LYS C:441	BINDING SITE FOR RESIDUE SO4 C 1002
04	AC4	SOFTWARE	ARG D:41 , ARG D:53 , SER D:80 , ASP D:370 , LYS D:404 , LYS D:441	BINDING SITE FOR RESIDUE SO4 D 1003
05	AC5	SOFTWARE	ARG B:83 , LYS C:69 , HIS C:134 , THR C:135	BINDING SITE FOR RESIDUE SO4 C 1005
06	AC6	SOFTWARE	LYS D:69 , HIS D:134 , THR D:135	BINDING SITE FOR RESIDUE SO4 D 1004
07	AC7	SOFTWARE	LYS B:69 , GLU B:99 , HIS B:134 , THR B:135 , ARG C:87	BINDING SITE FOR RESIDUE SO4 B 1006
08	AC8	SOFTWARE	LYS A:69 , GLU A:133 , HIS A:134 , THR A:135 , HOH A:1049	BINDING SITE FOR RESIDUE SO4 A 1007
09	AC9	SOFTWARE	ARG A:53 , ARG A:83 , HIS A:84 , GLN A:314 , ARG A:316 , HOH A:1071 , HOH A:1115 , HOH A:1124	BINDING SITE FOR RESIDUE SO4 A 1008
10	BC1	SOFTWARE	ARG B:53 , HIS B:84 , GLN B:314 , ARG B:316 , HOH B:1109 , HOH B:1125 , HOH B:1126	BINDING SITE FOR RESIDUE SO4 B 1009
11	BC2	SOFTWARE	ARG C:53 , HIS C:84 , GLN C:314 , ARG C:316 , HOH C:1055 , HOH C:1057 , HOH C:1103	BINDING SITE FOR RESIDUE SO4 C 1010
12	BC3	SOFTWARE	ARG D:53 , HIS D:84 , GLN D:314 , ARG D:316 , HOH D:1055 , HOH D:1102	BINDING SITE FOR RESIDUE SO4 D 1011
13	BC4	SOFTWARE	GLY A:29 , GLY A:31 , THR A:32 , ARG A:33 , LYS A:43 , ADP A:557	BINDING SITE FOR RESIDUE SO4 A 1020
14	BC5	SOFTWARE	GLY B:29 , ALA B:30 , GLY B:31 , ARG B:33 , LYS B:43 , ADQ B:506	BINDING SITE FOR RESIDUE SO4 B 1021
15	BC6	SOFTWARE	GLY C:29 , ALA C:30 , GLY C:31 , THR C:32 , LYS C:43	BINDING SITE FOR RESIDUE SO4 C 1022
16	BC7	SOFTWARE	GLY D:29 , ALA D:30 , GLY D:31 , THR D:32 , ARG D:33	BINDING SITE FOR RESIDUE SO4 D 1023
17	BC8	SOFTWARE	LEU B:26 , GLY B:27 , GLY B:28 , GLY B:29 , ARG B:33 , LYS B:43 , LEU B:73 , GLN B:118 , GLY B:119 , THR B:120 , ALA B:123 , ASP B:145 , HIS B:146 , PHE B:181 , GLY B:182 , GLU B:197 , LYS B:198 , SER B:229 , TRP B:278 , ASP B:280 , SO4 B:1021 , HOH B:1081 , HOH B:1103	BINDING SITE FOR RESIDUE ADQ B 506
18	BC9	SOFTWARE	LEU A:26 , GLY A:28 , GLY A:29 , LEU A:73 , GLN A:118 , THR A:120 , ALA A:123 , ALA A:143 , GLY A:144 , ASP A:145 , ASP A:253 , GLY A:255 , SER A:256 , SO4 A:1020 , HOH A:1022 , HOH A:1138 , HOH A:1142	BINDING SITE FOR RESIDUE ADP A 557
19	CC1	SOFTWARE	LEU C:26 , GLY C:28 , GLY C:29 , LYS C:43 , LEU C:73 , GLN C:118 , THR C:120 , ALA C:123 , ALA C:143 , GLY C:144 , ASP C:145 , GLY C:255 , SER C:256 , HOH C:1081	BINDING SITE FOR RESIDUE ADP C 558

Asymmetric/Biological Unit

No.	Residues
1	B:12	-	D:12

Asymmetric/Biological Unit

No.	Residues
1	Asp A:14	-	Pro A:15
2	Tyr A:35	-	Pro A:36
3	Lys A:297	-	Pro A:298
4	Asp B:14	-	Pro B:15
5	Tyr B:35	-	Pro B:36
6	Lys B:297	-	Pro B:298
7	Asp C:14	-	Pro C:15
8	Tyr C:35	-	Pro C:36
9	Asp D:14	-	Pro D:15
10	Tyr D:35	-	Pro D:36

Asymmetric/Biological Unit (1, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_GLGS_SOLTU_001 *	I	520	V	GLGS_SOLTU	---	---	A/B/C/D	I	450	V
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (3, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ADP_GLC_PYROPHOSPH_1	PS00808	ADP-glucose pyrophosphorylase signature 1.	GLGS_SOLTU	97-116	4	A:27-46 B:27-46 C:27-46 D:27-46
2	ADP_GLC_PYROPHOSPH_2	PS00809	ADP-glucose pyrophosphorylase signature 2.	GLGS_SOLTU	186-194	4	A:116-124 B:117-124 C:116-124 D:118-124
3	ADP_GLC_PYROPHOSPH_3	PS00810	ADP-glucose pyrophosphorylase signature 3.	GLGS_SOLTU	298-308	4	A:228-238 B:228-238 C:228-238 D:228-238

(no "Exon" information available for 1YP4)

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:432
 aligned with GLGS_SOLTU | P23509 from UniProtKB/Swiss-Prot  Length:521

    Alignment length:441
                                    90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520 
           GLGS_SOLTU    81 TCLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNMGGYKNEGFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 521
               SCOP domains d1yp4a2 A:11-316 Glucose-1-phosphate adenylyltransferase small subunit, catalyti         c domain                                                                                                                                                                                                                 d1yp4a1 A:317-451 Glucose-1-phosphate adenylyltransferase small subunit, C-terminal domain                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhheeeeeeee.............hhhh.ee...ee.hhhhhhhhhhh...eeeeeeee.hhhhhhhhhhhh.---------.eeeeeeee..........hhhhhhhhhhhhhh.....eeeeee..ee...hhhhhhhhhhhh...eeeeeeeehhhhhh..eeeee.....eeeeee..hhhhhhh...hhhhhh.hhhhhhhh.eeeeeeeeeeehhhhhhhhhh..........hhhhhhhhh...eeeee.....ee..hhhhhhhhhhhhhh........................eeeeeeeeeeeee....eeeeeeee..ee....ee...eeee..ee.......hhhhhhhhhhhh..........eee.eee....ee....ee........ee.hhh.eeee..eeee....ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V- SAPs(SNPs)
                    PROSITE ----------------ADP_GLC_PYROPHOSPH_1---------------------------------------------------------------------ADP_GLC_P-------------------------------------------------------------------------------------------------------ADP_GLC_PYR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yp4 A  11 TCLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYA---------GFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 451
                                    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       330       340       350       360       370       380       390       400       410       420       430       440       450 
                                                                                                          90       100

Chain B from PDB  Type:PROTEIN  Length:433
 aligned with GLGS_SOLTU | P23509 from UniProtKB/Swiss-Prot  Length:521

    Alignment length:440
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521
           GLGS_SOLTU    82 CLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNMGGYKNEGFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 521
               SCOP domains d1yp4b2 B:12-316 Glucose-1-phosphate adenylyltransferase small subunit, catalytic     domain                                                                                                                                                                                                                     d1yp4b1 B:317-451 Glucose-1-phosphate adenylyltransferase small subunit, C-terminal domain                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhheeeeee...............hhhh.ee...ee.hhhhhhhhhh....eeeeee...hhhhhhhhhhhhhhhh----...eeeeee.......---..hhhhhhhhhhhhhh.....eeeeee..ee...hhhhhhhhhhhh...eeeeeeee...hhhh.eeeee.....eeeeee...hhhhhh...................eeeeeeeeeeehhhhhhhhhh..........hhhhhhhhh...eeeee.....ee..hhhhhhhhhhh...........................eeeeeeeeeeeee....eeeeeeee..ee....ee....eee..ee.........hhhhhhhhh.....ee....eee.eee....ee....ee........eeehhh.eeee..eeee....ee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V- SAPs(SNPs)
                    PROSITE ---------------ADP_GLC_PYROPHOSPH_1---------------------------------------------------------------------ADP_GLC_P-------------------------------------------------------------------------------------------------------ADP_GLC_PYR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yp4 B  12 CLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNM----NEGFVEVLAAQQSPEN---FQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 451
                                    21        31        41        51        61        71        81        91 |    |101       111 |   | 121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451
                                                                                                            93   98            113 117

Chain C from PDB  Type:PROTEIN  Length:434
 aligned with GLGS_SOLTU | P23509 from UniProtKB/Swiss-Prot  Length:521

    Alignment length:441
                                    90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520 
           GLGS_SOLTU    81 TCLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNMGGYKNEGFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 521
               SCOP domains d1yp4c2 C:11-316 Glucose-1-phosphate adenylyltransferase small subunit, catalytic        domain                                                                                                                                                                                                                   d1yp4c1 C:317-451 Glucose-1-phosphate adenylyltransferase small subunit, C-terminal domain                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhheeeeeeee..hhhhh......hhhh.ee...ee.hhhhhhhhhh....eeeeeeee.hhhhhhhhhhhh..-------..eeeeeeee..........hhhhhhhhhhhhhh.....eeeeee..ee...hhhhhhhhhhhh...eeeeeeeehhhhhh..eeeee.....eeeeee..hhhhhhh...hhhhhh.hhhhhhhh.eeeeeeeeeeehhhhhhhhhh..........hhhhhhhhh...eeeee.....ee..hhhhhhhhhhhhhh........................eeeeeeeeeeeee....eeeeeeee..ee....ee....eee..ee.......hhhhhhhhhhh.....ee....eee.eee....ee....ee.......eeeehhh.eeee..eeee....ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V- SAPs(SNPs)
                    PROSITE ----------------ADP_GLC_PYROPHOSPH_1---------------------------------------------------------------------ADP_GLC_P-------------------------------------------------------------------------------------------------------ADP_GLC_PYR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yp4 C  11 TCLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYAS-------EGFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 451
                                    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       330       340       350       360       370       380       390       400       410       420       430       440       450 
                                                                                                           91      99

Chain D from PDB  Type:PROTEIN  Length:426
 aligned with GLGS_SOLTU | P23509 from UniProtKB/Swiss-Prot  Length:521

    Alignment length:440
                                    91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521
           GLGS_SOLTU    82 CLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAYASNMGGYKNEGFVEVLAAQQSPENPDWFQGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 521
               SCOP domains d1yp4d2 D:12-316 Glucose-1-phosphate adenylyltransferase small subunit, cataly         tic domain                                                                                                                                                                                                                d1yp4d1 D:317-451 Glucose-1-phosphate adenylyltransferase small subunit, C-terminal domain                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------NTP_transferase-1yp4D01 D:22-297                                                                                                                                                                                                                                                    ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------NTP_transferase-1yp4D02 D:22-297                                                                                                                                                                                                                                                    ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) ----------NTP_transferase-1yp4D03 D:22-297                                                                                                                                                                                                                                                    ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) ----------NTP_transferase-1yp4D04 D:22-297                                                                                                                                                                                                                                                    ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author ....hhhhheeeeee...............hhhh.ee...ee.hhhhhhhhhh....eeeeee...hhhhhhhhhhhh---------..eeeeee......-----.hhhhhhhhhhhhhh.....eeeeee..ee...hhhhhhhhhhhh...eeeeeeeehhhhhh..eeee........eeee..hhhhhhhhh.hhhhhh.hhhhhhhh.eeeeeeeeeeehhhhhhhhhh..........hhhhhhhhh...eeeee.....ee..hhhhhhhhhhhhhh........................eeeeeeeeeeeee....eeeeeeee..ee....ee....eee..ee.......hhhhhhhhhhhh....ee....eee.eee....ee....ee........eeehhh.eeee..eeee....ee....ee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V- SAPs(SNPs)
                    PROSITE ---------------ADP_GLC_PYROPHOSPH_1---------------------------------------------------------------------ADP_GLC_P-------------------------------------------------------------------------------------------------------ADP_GLC_PYR--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yp4 D  12 CLDPDASRSVLGIILGGGAGTRLYPLTKKRAKPAVPLGANYRLIDIPVSNCLNSNISKIYVLTQFNSASLNRHLSRAY---------EGFVEVLAAQQSPE-----QGTADAVRQYLWLFEEHTVLEYLILAGDHLYRMDYEKFIQAHRETDADITVAALPMDEKRATAFGLMKIDEEGRIIEFAEKPQGEQLQAMKVDTTILGLDDKRAKEMPFIASMGIYVISKDVMLNLLRDKFPGANDFGSEVIPGATSLGMRVQAYLYDGYWEDIGTIEAFYNANLGITKKPVPDFSFYDRSAPIYTQPRYLPPSKMLDADVTDSVIGEGCVIKNCKIHHSVVGLRSCISEGAIIEDSLLMGADYYETDADRKLLAAKGSVPIGIGKNCHIKRAIIDKNARIGDNVKIINKDNVQEAARETDGYFIKSGIVTVIKDALIPSGIII 451
                                    21        31        41        51        61        71        81       | -       101       111|     |121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451
                                                                                                        89        99          112   118

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 "CATH Domain" information available for 1YP4)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GT-A (172)

Family: NTP_transferase (15)

Solanum tuberosum (Potato) (3)

1a	NTP_transferase-1yp4D01	D:22-297
1b	NTP_transferase-1yp4D02	D:22-297
1c	NTP_transferase-1yp4D03	D:22-297
1d	NTP_transferase-1yp4D04	D:22-297

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (GLGS_SOLTU | P23509)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	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:0008878	glucose-1-phosphate adenylyltransferase activity	Catalysis of the reaction: alpha-D-glucose 1-phosphate + ATP = ADP-glucose + diphosphate.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016779	nucleotidyltransferase activity	Catalysis of the transfer of a nucleotidyl group to a reactant.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0009058	biosynthetic process	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
	GO:0005978	glycogen biosynthetic process	The chemical reactions and pathways resulting in the formation of glycogen, a polydisperse, highly branched glucan composed of chains of D-glucose residues.
	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:0019252	starch biosynthetic process	The chemical reactions and pathways resulting in the formation of starch, the most important reserve polysaccharide in plants.
cellular component
	GO:0009501	amyloplast	A plastid whose main function is to synthesize and store starch.
	GO:0009507	chloroplast	A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
	GO:0009536	plastid	Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.

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
		ADP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ADQ	[ 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 ]
		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 ]

	Cis Peptide Bonds
		Asp A:14 - Pro A:15	[ RasMol ]
		Asp B:14 - Pro B:15	[ RasMol ]
		Asp C:14 - Pro C:15	[ RasMol ]
		Asp D:14 - Pro D:15	[ RasMol ]
		Lys A:297 - Pro A:298	[ RasMol ]
		Lys B:297 - Pro B:298	[ RasMol ]
		Tyr A:35 - Pro A:36	[ RasMol ]
		Tyr B:35 - Pro B:36	[ RasMol ]
		Tyr C:35 - Pro C:36	[ RasMol ]
		Tyr D:35 - Pro D:36	[ RasMol ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - sites 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
	1yp4
		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
	GLGS_SOLTU \| P23509
		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)
	2.7.7.27
		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
	GLGS_SOLTU \| P23509
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	GLGS_SOLTU \| P23509	:	1yp2 1yp3

1yp2	CRYSTAL STRUCTURE OF POTATO TUBER ADP-GLUCOSE PYROPHOSPHORYLASE
1yp3	CRYSTAL STRUCTURE OF POTATO TUBER ADP-GLUCOSE PYROPHOSPHORYLASE IN COMPLEX WITH ATP

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 19)

Sites (19, 19)

SS Bonds (1, 1)

Cis Peptide Bonds (10, 10)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 4)

PROSITE Motifs (3, 12)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 8)

CATH Domains (0, 0)

Pfam Domains (1, 4)

Gene Ontology (13, 13)

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