2FAH - JenaLib

Asym.Unit - manually (Jmol Viewer)

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 :   THE STRUCTURE OF MITOCHONDRIAL PEPCK, COMPLEX WITH MN AND GDP

Authors :   T. Holyoak, S. M. Sullivan, T. Nowak

Date :   07 Dec 05 (Deposition) - 27 Jun 06 (Release) - 29 Apr 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.09

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 :   Phosphoenolpyruvate Carboxykinase, Pepck, Pck, Pep, Gdp, Kinase, Phosphoryl Transfer, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Holyoak, S. M. Sullivan, T. Nowak
Structural Insights Into The Mechanism Of Pepck Catalysis
Biochemistry V. 45 8254 2006
PubMed-ID: 16819824 | Reference-DOI: 10.1021/BI060269G

Molecule 1 - PHOSPHOENOLPYRUVATE CARBOXYKINASE
	Chains	:	A, B, C, D
	EC Number	:	4.1.1.32
	Organism Common	:	CHICKEN
	Organism Scientific	:	GALLUS GALLUS
	Organism Taxid	:	9031
	Other Details	:	LIVER MITOCHONDRIAL ISOZYME
	Synonym	:	PHOSPHOENOLPYRUVATE CARBOXYLASE, PEPCK-M

		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 (4, 19)

No.	Name	Count	Type	Full Name
1	20S	2	Ligand/Ion	BETA-D-FRUCTOFURANOSYL 6-O-OCTANOYL-ALPHA-D-GLUCOPYRANOSIDE
2	GDP	4	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
3	MLA	5	Ligand/Ion	MALONIC ACID
4	MN	8	Ligand/Ion	MANGANESE (II) ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	20S	-1	Ligand/Ion	BETA-D-FRUCTOFURANOSYL 6-O-OCTANOYL-ALPHA-D-GLUCOPYRANOSIDE
2	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
3	MLA	1	Ligand/Ion	MALONIC ACID
4	MN	-1	Ligand/Ion	MANGANESE (II) ION

Biological Unit 2 (2, 3)

No.	Name	Count	Type	Full Name
1	20S	-1	Ligand/Ion	BETA-D-FRUCTOFURANOSYL 6-O-OCTANOYL-ALPHA-D-GLUCOPYRANOSIDE
2	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
3	MLA	2	Ligand/Ion	MALONIC ACID
4	MN	-1	Ligand/Ion	MANGANESE (II) ION

Biological Unit 3 (3, 3)

No.	Name	Count	Type	Full Name
1	20S	1	Ligand/Ion	BETA-D-FRUCTOFURANOSYL 6-O-OCTANOYL-ALPHA-D-GLUCOPYRANOSIDE
2	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
3	MLA	1	Ligand/Ion	MALONIC ACID
4	MN	-1	Ligand/Ion	MANGANESE (II) ION

Biological Unit 4 (3, 3)

No.	Name	Count	Type	Full Name
1	20S	1	Ligand/Ion	BETA-D-FRUCTOFURANOSYL 6-O-OCTANOYL-ALPHA-D-GLUCOPYRANOSIDE
2	GDP	1	Ligand/Ion	GUANOSINE-5'-DIPHOSPHATE
3	MLA	1	Ligand/Ion	MALONIC ACID
4	MN	-1	Ligand/Ion	MANGANESE (II) ION

Asymmetric Unit (19, 19)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LYS A:263 , HIS A:283 , ASP A:330 , MLA A:2001 , HOH A:2138	BINDING SITE FOR RESIDUE MN A 2002
02	AC2	SOFTWARE	THR A:310 , GLY A:353 , VAL A:354 , GDP A:2000	BINDING SITE FOR RESIDUE MN A 2003
03	AC3	SOFTWARE	LYS B:263 , HIS B:283 , SER B:305 , ASP B:330 , MLA B:3001 , HOH B:6054	BINDING SITE FOR RESIDUE MN B 3002
04	AC4	SOFTWARE	THR B:310 , GLY B:353 , VAL B:354 , GDP B:3000	BINDING SITE FOR RESIDUE MN B 3003
05	AC5	SOFTWARE	LYS C:263 , HIS C:283 , ASP C:330 , MLA C:4003 , HOH C:6005	BINDING SITE FOR RESIDUE MN C 4001
06	AC6	SOFTWARE	THR C:310 , GLY C:353 , VAL C:354 , GDP C:4000 , HOH C:6321	BINDING SITE FOR RESIDUE MN C 4002
07	AC7	SOFTWARE	LYS D:263 , HIS D:283 , SER D:305 , ASP D:330 , MLA D:5001 , HOH D:6202	BINDING SITE FOR RESIDUE MN D 5002
08	AC8	SOFTWARE	THR D:310 , GLY D:353 , VAL D:354 , GDP D:5000	BINDING SITE FOR RESIDUE MN D 5003
09	AC9	SOFTWARE	PRO A:304 , ALA A:306 , CYS A:307 , GLY A:308 , LYS A:309 , THR A:310 , ASN A:311 , PRO A:356 , ARG A:455 , TRP A:535 , PHE A:536 , PHE A:544 , GLY A:548 , PHE A:549 , ASN A:552 , MN A:2003 , HOH A:2036 , HOH A:2050 , HOH A:2075 , HOH A:2078 , HOH A:2139 , HOH A:2141 , HOH A:2241 , HOH A:2246	BINDING SITE FOR RESIDUE GDP A 2000
10	BC1	SOFTWARE	PRO B:304 , ALA B:306 , CYS B:307 , GLY B:308 , LYS B:309 , THR B:310 , ASN B:311 , PRO B:356 , ARG B:455 , TRP B:535 , PHE B:536 , PHE B:544 , GLY B:548 , PHE B:549 , ASN B:552 , MN B:3003 , HOH B:6031 , HOH B:6037 , HOH B:6063 , HOH B:6068 , HOH B:6100 , HOH B:6148 , HOH B:6155 , HOH B:6263 , HOH B:6297	BINDING SITE FOR RESIDUE GDP B 3000
11	BC2	SOFTWARE	PRO C:304 , ALA C:306 , CYS C:307 , GLY C:308 , LYS C:309 , THR C:310 , ASN C:311 , VAL C:354 , PRO C:356 , ARG C:455 , TRP C:535 , PHE C:536 , PHE C:544 , GLY C:548 , PHE C:549 , ASN C:552 , MN C:4002 , HOH C:6013 , HOH C:6046 , HOH C:6061 , HOH C:6114 , HOH C:6124 , HOH C:6132 , HOH C:6273 , HOH C:6282 , HOH C:6321 , HOH C:6349	BINDING SITE FOR RESIDUE GDP C 4000
12	BC3	SOFTWARE	PRO D:304 , ALA D:306 , CYS D:307 , GLY D:308 , LYS D:309 , THR D:310 , ASN D:311 , PRO D:356 , ARG D:455 , TRP D:535 , PHE D:536 , PHE D:544 , GLY D:548 , PHE D:549 , ASN D:552 , MN D:5003 , HOH D:6033 , HOH D:6039 , HOH D:6059 , HOH D:6079 , HOH D:6130 , HOH D:6164 , HOH D:6201 , HOH D:6236 , HOH D:6249	BINDING SITE FOR RESIDUE GDP D 5000
13	BC4	SOFTWARE	ARG A:105 , TYR A:254 , GLY A:256 , LYS A:263 , SER A:305 , ARG A:424 , MN A:2002 , HOH A:2138 , HOH A:2141 , HOH A:2253	BINDING SITE FOR RESIDUE MLA A 2001
14	BC5	SOFTWARE	ARG B:105 , TYR B:254 , GLY B:256 , LYS B:263 , SER B:305 , ARG B:424 , MN B:3002 , HOH B:6037 , HOH B:6054	BINDING SITE FOR RESIDUE MLA B 3001
15	BC6	SOFTWARE	ARG C:105 , LYS C:263 , SER C:305 , ASP C:330 , ARG C:424 , MN C:4001 , HOH C:6005 , HOH C:6136 , HOH C:6207 , HOH C:6273	BINDING SITE FOR RESIDUE MLA C 4003
16	BC7	SOFTWARE	ARG D:105 , TYR D:254 , GLY D:256 , LYS D:263 , SER D:305 , ARG D:424 , ALA D:486 , MN D:5002 , HOH D:6201 , HOH D:6202 , HOH D:6257	BINDING SITE FOR RESIDUE MLA D 5001
17	BC8	SOFTWARE	GLU B:636 , LYS B:640 , HOH B:6278 , GLY C:468 , TRP C:469 , ARG C:470 , LEU C:527 , HOH C:6014 , HOH C:6027	BINDING SITE FOR RESIDUE MLA B 6001
18	BC9	SOFTWARE	PHE A:467 , HIS A:471 , GLU A:630 , GLY A:633 , ARG A:637 , HOH A:2007 , HOH A:2063 , PHE D:467 , ARG D:470 , PRO D:571 , TRP D:576 , GLU D:630 , ARG D:637 , HOH D:6008 , HOH D:6029 , HOH D:6052 , HOH D:6163 , HOH D:6243	BINDING SITE FOR RESIDUE 20S D 6002
19	CC1	SOFTWARE	PHE B:467 , ARG B:470 , TRP B:576 , GLU B:630 , ARG B:637 , HOH B:6233 , PHE C:467 , GLU C:630 , GLY C:633 , ARG C:637 , HOH C:6004 , HOH C:6014 , HOH C:6027 , HOH C:6076 , HOH C:6087 , HOH C:6153	BINDING SITE FOR RESIDUE 20S C 6003

(no "SS Bond" information available for 2FAH)

Asymmetric Unit

No.	Residues
1	Ser A:171	-	Pro A:172
2	Pro A:172	-	Leu A:173
3	Val A:196	-	Gly A:197
4	Leu A:219	-	Pro A:220
5	Asn A:540	-	Glu A:541
6	Glu A:541	-	Gly A:542
7	Leu B:219	-	Pro B:220
8	His B:412	-	Gly B:413
9	Gly B:491	-	Gly B:492
10	Glu B:541	-	Gly B:542
11	Leu C:219	-	Pro C:220
12	Pro D:168	-	Pro D:169
13	Leu D:219	-	Pro D:220
14	Gly D:491	-	Gly D:492

(no "SAP(SNP)/Variant" information available for 2FAH)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPCK_GTP	PS00505	Phosphoenolpyruvate carboxykinase (GTP) signature.	PCKGM_CHICK	303-311	4	A:303-311 B:303-311 C:303-311 D:303-311

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPCK_GTP	PS00505	Phosphoenolpyruvate carboxykinase (GTP) signature.	PCKGM_CHICK	303-311	1	A:303-311 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPCK_GTP	PS00505	Phosphoenolpyruvate carboxykinase (GTP) signature.	PCKGM_CHICK	303-311	1	- B:303-311 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPCK_GTP	PS00505	Phosphoenolpyruvate carboxykinase (GTP) signature.	PCKGM_CHICK	303-311	1	- - C:303-311 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PEPCK_GTP	PS00505	Phosphoenolpyruvate carboxykinase (GTP) signature.	PCKGM_CHICK	303-311	1	- - - D:303-311

(no "Exon" information available for 2FAH)

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:608
 aligned with PCKGM_CHICK | P21642 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:608
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633        
          PCKGM_CHICK    34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDRSPVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
               SCOP domains d2faha1 A:34-278 automated matches                                                                                                                                                                                                                   d2faha2 A:279-641 automated matches                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2fahA01 A:34-81,A:108-277                       --2fahA02             ----2fahA01 A:34-81,A:108-277 Phosphoenolpyruvate Carboxykinase, domain 1                                                                                                     -2fahA03 A:279-349,A:435-639  [code=3.90.228.20, no name defined]       -2fahA02 A:84-103,A:351-432 Phosphoenolpyruvate Carboxykinase, domain 2            --2fahA03 A:279-349,A:435-639  [code=3.90.228.20, no name defined]                                                                                                                                             -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh..eee.......eee.........hhh.eeee..hhhhhh..............eehhhhhhhhhhhhh.......eeeeeeeee........eeeeeee.hhhhhhhhhhhh..hhhhhh......eeeeee.................hhhhheeeeehhh.eeeee...hhhhhh..hhhhhhhhhhhhhhhhh.eee..eeeeee.....eeeeeee.....hhhhhhh........eeeeee...eeeee.....eeee....eeeee........hhhhhhhh....eee..eee....ee.............ee.....ee.............eeeee.hhh............eeeeeeeee.........eee..hhhhhhhhhhh.eee...........eee.hhhh......hhhhhhhhhhhhh........eeeee..............hhhhhhhhhhhhhhhhh....eeee..eeee.............hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PEPCK_GTP------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fah A  34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDPSRVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633

Chain B from PDB  Type:PROTEIN  Length:608
 aligned with PCKGM_CHICK | P21642 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:608
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633        
          PCKGM_CHICK    34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDRSPVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
               SCOP domains d2fahb1 B:34-278 automated matches                                                                                                                                                                                                                   d2fahb2 B:279-641 automated matches                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2fahB01 B:34-81,B:108-277                       --2fahB02             ----2fahB01 B:34-81,B:108-277 Phosphoenolpyruvate Carboxykinase, domain 1                                                                                                     -2fahB03 B:279-349,B:435-639  [code=3.90.228.20, no name defined]       -2fahB02 B:84-103,B:351-432 Phosphoenolpyruvate Carboxykinase, domain 2            --2fahB03 B:279-349,B:435-639  [code=3.90.228.20, no name defined]                                                                                                                                             -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh..eee.......eee.........hhh.eeee..hhhhhh..............eehhhhhhhhhhhhh.......eeeeeeeee........eeeeeee.hhhhhhhhhhhhee.hhhhhhh....eeeeee.................hhhhheeeeehhh.eeeee...hhhhhh..hhhhhhhhhhhhhhhhh.eee..eeeeee.....eeeeeee.....hhhhhhh........eeeeee...eeeee.....eeee....eeeee........hhhhhhhh....eee..eee....ee.............ee.....ee.............eeeee.hhh............eeeeeeeee.........eee..hhhhhhhhhhh.eee...........eee.hhhh......hhhhhhhhhhhhh........eeeee..............hhhhhhhhhhhhhhhhh....eeee..eeee.............hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PEPCK_GTP------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fah B  34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDPSRVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633

Chain C from PDB  Type:PROTEIN  Length:608
 aligned with PCKGM_CHICK | P21642 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:608
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633        
          PCKGM_CHICK    34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDRSPVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
               SCOP domains d2fahc1 C:34-278 automated matches                                                                                                                                                                                                                   d2fahc2 C:279-641 automated matches                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2fahC01 C:34-81,C:108-277                       --2fahC02             ----2fahC01 C:34-81,C:108-277 Phosphoenolpyruvate Carboxykinase, domain 1                                                                                                     -2fahC03 C:279-349,C:435-639  [code=3.90.228.20, no name defined]       -2fahC02 C:84-103,C:351-432 Phosphoenolpyruvate Carboxykinase, domain 2            --2fahC03 C:279-349,C:435-639  [code=3.90.228.20, no name defined]                                                                                                                                             -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh..eee.......eee.........hhh.eeee..hhhhhh..............eehhhhhhhhhhhhh.......eeeeeeeee........eeeeeee.hhhhhhhhhhhh..hhhhhhhh....eeeeee.................hhhhheeeeehhh.eeeee...hhhhhh..hhhhhhhhhhhhhhhhh.eee..eeeeee.....eeeeeee.....hhhhhhh........eeeeee...eeeee.....eeee....eeeee........hhhhhhhh....eee..eee....ee.............ee.....ee.............eeeee.hhh............eeeeeeeee.........eee..hhhhhhhhhhh.eee...........eee.hhhhhhhh..hhhhhhhhhhhhh........eeeee..............hhhhhhhhhhhhhhhhh....eeee..eeee.............hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PEPCK_GTP------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fah C  34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDPSRVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633

Chain D from PDB  Type:PROTEIN  Length:608
 aligned with PCKGM_CHICK | P21642 from UniProtKB/Swiss-Prot  Length:641

    Alignment length:608
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633        
          PCKGM_CHICK    34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDRSPVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
               SCOP domains d2fahd1 D:34-278 automated matches                                                                                                                                                                                                                   d2fahd2 D:279-641 automated matches                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2fahD01 D:34-81,D:108-277                       --2fahD02             ----2fahD01 D:34-81,D:108-277 Phosphoenolpyruvate Carboxykinase, domain 1                                                                                                     -2fahD03 D:279-349,D:435-639  [code=3.90.228.20, no name defined]       -2fahD02 D:84-103,D:351-432 Phosphoenolpyruvate Carboxykinase, domain 2            --2fahD03 D:279-349,D:435-639  [code=3.90.228.20, no name defined]                                                                                                                                             -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh..eee.......eee.........hhh.eeee..hhhhhh..............eehhhhhhhhhhhhh.......eeeeeeeee........eeeeeee.hhhhhhhhhhhhee.hhhhhh.....eeeeee.................hhhhheeeeehhh.eeeee...hhhhhh..hhhhhhhhhhhhhhhhh.eee..eeeeee.....eeeeeee.....hhhhhhh........eeeeee...eeeee.....eeee....eeeee........hhhhhhhh....eee..eee....ee.............ee.....ee.............eeeee.hhh............eeeeeeeee.........eee..hhhhhhhhhhh.eee...........eee.hhhh......hhhhhhhhhhhhh........eeeee..............hhhhhhhhhhhhhhhhh....eeee..eeee.hhhh........hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PEPCK_GTP------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fah D  34 LSTSLSALPAAARDFVEEAVRLCRPREVLLCDGSEEEGKELLRGLQDDGVLHPLPKYDNCWLARTDPRDVARVESKTVLVTPEQSDAVPPPPPSGGPPQLGNWMSPNAFQAAVQERFPGCMAGRPLYVIPFSMGPPTSPLAKLGVQVTDSPYVVLSMRIMTRVGPAVLQRLDDDFVRCLHSVGRPLPLTEPLVSSWPCDPSRVLVAHIPSERRIVSFGSGYGGNSLLGKKCFALRIASRMAQQQGWLAEHMLILGVTSPSGEKRYMAAAFPSACGKTNLAMMTPSLPGWRIHCVGDDIAWMKFDDEGRLRAINPERGFFGVAPGTSSRTNPNAMATIARNTIFTNVGLRSDGGVYWDGLDEPTEPGVTYTSWLGKPWKHGDPEPCAHPNSRFCAPADQCPIMDPRWDDPEGVPIDAIIFGGRRPRGVPLVVEAFGWRHGVFMGSAMRSEATAAAEHKGGRLMHDPFAMRPFFGYNAGRYLEHWLSTGLRSNARLPRLFHVNWFLRDNEGRFVWPGFGHNARVLAWIFGRIQGRDTARPTPIGWVPKEGDLDLGGLPGVDYSQLFPMEKGFWEEECRQLREYYGENFGADLPRDVMAELEGLEERVRKM 641
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633

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: PEP carboxykinase N-terminal domain (54)

Superfamily: PEP carboxykinase N-terminal domain (54)

Family: automated matches (6)

Protein domain: automated matches (6)

Chicken (Gallus gallus) [TaxId: 9031] (3)

1a	d2faha1	A:34-278
1b	d2fahb1	B:34-278
1c	d2fahc1	C:34-278
1d	d2fahd1	D:34-278

Fold: PEP carboxykinase-like (61)

Superfamily: PEP carboxykinase-like (61)

Family: automated matches (7)

Protein domain: automated matches (7)

Chicken (Gallus gallus) [TaxId: 9031] (3)

2a	d2faha2	A:279-641
2b	d2fahb2	B:279-641
2c	d2fahc2	C:279-641
2d	d2fahd2	D:279-641

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Phosphoenolpyruvate Carboxykinase; domain 1 (42)

Homologous Superfamily: Phosphoenolpyruvate Carboxykinase, domain 1 (42)

Chicken (Gallus gallus) (3)

1a	2fahA01	A:34-81,A:108-277
1b	2fahB01	B:34-81,B:108-277
1c	2fahC01	C:34-81,C:108-277
1d	2fahD01	D:34-81,D:108-277

Architecture: Alpha-Beta Complex (3881)

Topology: Phosphoenolpyruvate Carboxykinase; domain 3 (62)

Homologous Superfamily: [code=3.90.228.20, no name defined] (42)

Chicken (Gallus gallus) (3)

2a	2fahA03	A:279-349,A:435-639
2b	2fahB03	B:279-349,B:435-639
2c	2fahC03	C:279-349,C:435-639
2d	2fahD03	D:279-349,D:435-639

Class: Mainly Beta (13760)

Architecture: Beta Complex (381)

Topology: Phosphoenolpyruvate Carboxykinase; domain 2 (42)

Homologous Superfamily: Phosphoenolpyruvate Carboxykinase, domain 2 (42)

Chicken (Gallus gallus) (3)

3a	2fahA02	A:84-103,A:351-432
3b	2fahB02	B:84-103,B:351-432
3c	2fahC02	C:84-103,C:351-432
3d	2fahD02	D:84-103,D:351-432

(no "Pfam Domain" information available for 2FAH)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (PCKGM_CHICK | P21642)

molecular function
	GO:0005525	GTP binding	Interacting selectively and non-covalently with GTP, guanosine triphosphate.
	GO:0016831	carboxy-lyase activity	Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0004613	phosphoenolpyruvate carboxykinase (GTP) activity	Catalysis of the reaction: GTP + oxaloacetate = GDP + phosphoenolpyruvate + CO2.
	GO:0004611	phosphoenolpyruvate carboxykinase activity	Catalysis of the reaction: source of phosphate + oxaloacetate = phosphoenolpyruvate + CO2 + other reaction products.
	GO:0017076	purine nucleotide binding	Interacting selectively and non-covalently with purine nucleotides, any compound consisting of a purine nucleoside esterified with (ortho)phosphate.
biological process
	GO:0006094	gluconeogenesis	The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol.
cellular component
	GO:0005759	mitochondrial matrix	The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes of the tricarboxylic acid cycle and, in some organisms, the enzymes concerned with fatty acid oxidation.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

Asymmetric Unit
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	Cis Peptide Bonds
		Asn A:540 - Glu A:541	[ RasMol ]
		Glu A:541 - Gly A:542	[ RasMol ]
		Glu B:541 - Gly B:542	[ RasMol ]
		Gly B:491 - Gly B:492	[ RasMol ]
		Gly D:491 - Gly D:492	[ RasMol ]
		His B:412 - Gly B:413	[ RasMol ]
		Leu A:219 - Pro A:220	[ RasMol ]
		Leu B:219 - Pro B:220	[ RasMol ]
		Leu C:219 - Pro C:220	[ RasMol ]
		Leu D:219 - Pro D:220	[ RasMol ]
		Pro A:172 - Leu A:173	[ RasMol ]
		Pro D:168 - Pro D:169	[ RasMol ]
		Ser A:171 - Pro A:172	[ RasMol ]
		Val A:196 - Gly A:197	[ RasMol ]

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Access by PDB/NDB ID
	2fah
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	PCKGM_CHICK \| P21642
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	4.1.1.32
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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	PCKGM_CHICK \| P21642
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UniProtKB/Swiss-Prot
	PCKGM_CHICK \| P21642	:	2faf 2qzy

2faf	HOLO-ENZYME COMPLEX WITH MN
2fag	COMPLEX WITH MN AND PEP

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 19)

Sites (19, 19)

SS Bonds (0, 0)

Cis Peptide Bonds (14, 14)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 8)

CATH Domains (3, 12)

Pfam Domains (0, 0)

Gene Ontology (11, 11)

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