1GZ4 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   MOLECULAR MECHANISM OF THE REGULATION OF HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME BY ATP AND FUMARATE

Authors :   Z. Yang, C. W. Lanks, L. Tong

Date :   15 May 02 (Deposition) - 25 Jul 02 (Release) - 23 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Allosteric Regulation, Energy Metabolism, Kinetics, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Z. Yang, C. W. Lanks, L. Tong
Molecular Mechanism For The Regulation Of Human Mitochondrial Nad(P)(+)-Dependent Malic Enzyme By Atp And Fumarate
Structure V. 10 951 2002
PubMed-ID: 12121650 | Reference-DOI: 10.1016/S0969-2126(02)00788-8

Molecule 1 - NAD-DEPENDENT MALIC ENZYME
	Chains	:	A, B, C, D
	EC Number	:	1.1.1.40
	Organelle	:	MITOCHONDRION
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME, NAD-ME, MALIC ENZYME 2

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

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (5, 76)

No.	Name	Count	Type	Full Name
1	ATP	8	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	FUM	4	Ligand/Ion	FUMARIC ACID
3	MN	4	Ligand/Ion	MANGANESE (II) ION
4	MSE	56	Mod. Amino Acid	SELENOMETHIONINE
5	TTN	4	Ligand/Ion	TARTRONATE

Asymmetric Unit (20, 20)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:255 , ASP A:256 , ASP A:279 , TTN A:603 , HOH A:2148	BINDING SITE FOR RESIDUE MN A 604
02	AC2	SOFTWARE	ARG B:165 , GLU B:255 , ASP B:256 , ASP B:279 , TTN B:603 , HOH B:2138	BINDING SITE FOR RESIDUE MN B 604
03	AC3	SOFTWARE	ARG C:165 , GLU C:255 , ASP C:256 , ASP C:279 , TTN C:603	BINDING SITE FOR RESIDUE MN C 604
04	AC4	SOFTWARE	ARG D:165 , GLU D:255 , ASP D:256 , ASP D:279 , TTN D:603 , HOH D:2147	BINDING SITE FOR RESIDUE MN D 604
05	AC5	SOFTWARE	ARG A:165 , ASN A:259 , LEU A:310 , GLY A:311 , ALA A:312 , GLY A:313 , GLU A:314 , ALA A:315 , ASP A:345 , LYS A:346 , VAL A:392 , ALA A:393 , GLY A:394 , ALA A:395 , SER A:420 , HOH A:2078 , HOH A:2143 , HOH A:2144	BINDING SITE FOR RESIDUE ATP A 601
06	AC6	SOFTWARE	HIS A:154 , LYS A:156 , GLY A:192 , ILE A:193 , ARG A:194 , ARG A:197 , ILE A:479 , LEU A:480 , ASN A:482 , ARG A:542 , TYR A:552 , ARG A:556 , HOH A:2145	BINDING SITE FOR RESIDUE ATP A 602
07	AC7	SOFTWARE	TYR A:112 , ARG A:165 , LEU A:167 , LYS A:183 , GLU A:255 , ASP A:256 , ASP A:279 , ASN A:421 , ASN A:466 , ASN A:467 , MN A:604 , HOH A:2146 , HOH A:2147	BINDING SITE FOR RESIDUE TTN A 603
08	AC8	SOFTWARE	GLN A:64 , ARG A:67 , ARG A:91 , LEU A:95 , HOH A:2023 , HOH A:2025 , HOH A:2149 , HOH A:2150 , PHE B:127 , ARG B:128 , HOH B:2030	BINDING SITE FOR RESIDUE FUM A 605
09	AC9	SOFTWARE	ARG B:165 , ASN B:259 , GLY B:311 , ALA B:312 , GLY B:313 , GLU B:314 , ALA B:315 , ASP B:345 , LYS B:346 , VAL B:392 , ALA B:393 , GLY B:394 , SER B:420 , HOH B:2130 , HOH B:2131 , HOH B:2132 , HOH B:2133 , HOH B:2134 , HOH B:2135 , HOH B:2136	BINDING SITE FOR RESIDUE ATP B 601
10	BC1	SOFTWARE	HIS B:154 , LYS B:156 , GLY B:192 , ILE B:193 , ARG B:194 , ARG B:197 , ILE B:479 , LEU B:480 , ARG B:542 , ARG B:556 , HOH B:2137	BINDING SITE FOR RESIDUE ATP B 602
11	BC2	SOFTWARE	TYR B:112 , ARG B:165 , LEU B:167 , LYS B:183 , GLU B:255 , ASP B:256 , ASP B:279 , ASN B:421 , ASN B:466 , ASN B:467 , MN B:604 , HOH B:2113 , HOH B:2136	BINDING SITE FOR RESIDUE TTN B 603
12	BC3	SOFTWARE	PHE A:127 , ARG A:128 , GLN B:64 , ARG B:67 , ARG B:91 , LEU B:95 , HOH B:2019 , HOH B:2139 , HOH B:2140 , HOH B:2141 , HOH B:2142	BINDING SITE FOR RESIDUE FUM B 605
13	BC4	SOFTWARE	ARG C:165 , LEU C:167 , ASN C:259 , ALA C:312 , GLY C:313 , GLU C:314 , ALA C:315 , ASP C:345 , LYS C:346 , VAL C:392 , ALA C:393 , GLY C:394 , ALA C:395 , SER C:420 , HOH C:2095 , HOH C:2125 , HOH C:2126 , HOH C:2127	BINDING SITE FOR RESIDUE ATP C 601
14	BC5	SOFTWARE	HIS C:154 , LYS C:156 , GLY C:192 , ILE C:193 , ARG C:194 , ARG C:197 , ILE C:479 , LEU C:480 , ARG C:542 , TYR C:552 , ARG C:556 , HOH C:2128	BINDING SITE FOR RESIDUE ATP C 602
15	BC6	SOFTWARE	TYR C:112 , ARG C:165 , LEU C:167 , LYS C:183 , GLU C:255 , ASP C:256 , ASP C:279 , ASN C:421 , ASN C:466 , ASN C:467 , MN C:604	BINDING SITE FOR RESIDUE TTN C 603
16	BC7	SOFTWARE	GLN C:64 , ARG C:67 , ARG C:91 , LEU C:95 , HOH C:2015 , HOH C:2027 , HOH C:2129 , HOH C:2130 , PHE D:127 , ARG D:128	BINDING SITE FOR RESIDUE FUM C 605
17	BC8	SOFTWARE	ARG D:165 , ASN D:259 , GLY D:311 , ALA D:312 , GLY D:313 , GLU D:314 , ALA D:315 , ASP D:345 , LYS D:346 , VAL D:392 , ALA D:393 , GLY D:394 , LEU D:398 , SER D:420 , HOH D:2093 , HOH D:2139 , HOH D:2140 , HOH D:2141	BINDING SITE FOR RESIDUE ATP D 601
18	BC9	SOFTWARE	ASP A:244 , HIS D:154 , LYS D:156 , GLY D:192 , ILE D:193 , ARG D:194 , ARG D:197 , ILE D:479 , LEU D:480 , ASN D:482 , ARG D:542 , ARG D:556 , HOH D:2142 , HOH D:2143 , HOH D:2144	BINDING SITE FOR RESIDUE ATP D 602
19	CC1	SOFTWARE	TYR D:112 , ARG D:165 , LEU D:167 , LYS D:183 , GLU D:255 , ASP D:256 , ASP D:279 , ASN D:421 , ASN D:466 , ASN D:467 , MN D:604 , HOH D:2145 , HOH D:2146	BINDING SITE FOR RESIDUE TTN D 603
20	CC2	SOFTWARE	PHE C:127 , ARG C:128 , GLN D:64 , ARG D:67 , ARG D:91 , LEU D:95 , HOH D:2018 , HOH D:2022 , HOH D:2148 , HOH D:2149 , HOH D:2150	BINDING SITE FOR RESIDUE FUM D 605

(no "SS Bond" information available for 1GZ4)

Asymmetric/Biological Unit

No.	Residues
1	Thr A:113	-	Pro A:114
2	Asn A:421	-	Pro A:422
3	Tyr A:543	-	Pro A:544
4	Thr B:113	-	Pro B:114
5	Asn B:421	-	Pro B:422
6	Tyr B:543	-	Pro B:544
7	Thr C:113	-	Pro C:114
8	Asn C:421	-	Pro C:422
9	Tyr C:543	-	Pro C:544
10	Thr D:113	-	Pro D:114
11	Asn D:421	-	Pro D:422
12	Tyr D:543	-	Pro D:544

Asymmetric/Biological Unit (2, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_034104	P	114	L	MAOM_HUMAN	Polymorphism	16952692	A/B/C/D	P	114	L
2	UniProt	VAR_050017	G	450	E	MAOM_HUMAN	Polymorphism	649224	A/B/C/D	G	450	E

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

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MALIC_ENZYMES	PS00331	Malic enzymes signature.	MAOM_HUMAN	276-292	4	A:276-292 B:276-292 C:276-292 D:276-292

Asymmetric/Biological Unit (15, 60)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000321341	1a	ENSE00001948888	chr18:48405419-48405678	260	MAOM_HUMAN	-	0	0	-	-
1.2	ENST00000321341	2	ENSE00001222938	chr18:48422179-48422298	120	MAOM_HUMAN	1-36	36	4	A:23-36 B:23-36 C:23-36 D:23-36	14 14 14 14
1.3	ENST00000321341	3	ENSE00000996845	chr18:48434433-48434566	134	MAOM_HUMAN	37-81	45	4	A:37-81 B:37-81 C:37-81 D:37-81	45 45 45 45
1.4	ENST00000321341	4	ENSE00000996846	chr18:48439171-48439320	150	MAOM_HUMAN	81-131	51	4	A:81-131 B:81-131 C:81-131 D:81-131	51 51 51 51
1.5	ENST00000321341	5	ENSE00001151659	chr18:48442538-48442613	76	MAOM_HUMAN	131-156	26	4	A:131-156 B:131-156 C:131-156 D:131-156	26 26 26 26
1.6	ENST00000321341	6	ENSE00001151654	chr18:48443717-48443878	162	MAOM_HUMAN	157-210	54	4	A:157-210 B:157-210 C:157-210 D:157-210	54 54 54 54
1.7	ENST00000321341	7	ENSE00001151650	chr18:48444480-48444583	104	MAOM_HUMAN	211-245	35	4	A:211-245 B:211-245 C:211-245 D:211-245	35 35 35 35
1.8	ENST00000321341	8	ENSE00001151645	chr18:48446826-48446935	110	MAOM_HUMAN	245-282	38	4	A:245-282 B:245-282 C:245-282 D:245-282	38 38 38 38
1.9	ENST00000321341	9	ENSE00001151639	chr18:48447031-48447128	98	MAOM_HUMAN	282-314	33	4	A:282-314 B:282-314 C:282-314 D:282-314	33 33 33 33
1.10	ENST00000321341	10	ENSE00001151634	chr18:48447444-48447557	114	MAOM_HUMAN	315-352	38	4	A:315-352 B:315-352 C:315-352 D:315-352	38 38 38 38
1.11	ENST00000321341	11	ENSE00000950181	chr18:48450468-48450582	115	MAOM_HUMAN	353-391	39	4	A:353-391 B:353-391 C:353-391 D:353-391	39 39 39 39
1.12	ENST00000321341	12	ENSE00000950182	chr18:48452126-48452268	143	MAOM_HUMAN	391-438	48	4	A:391-438 B:391-438 C:391-438 D:391-438	48 48 48 48
1.13	ENST00000321341	13	ENSE00000950183	chr18:48458628-48458730	103	MAOM_HUMAN	439-473	35	4	A:439-473 B:439-473 C:439-473 D:439-473	35 35 35 35
1.14	ENST00000321341	14	ENSE00000950184	chr18:48465940-48466010	71	MAOM_HUMAN	473-496	24	4	A:473-496 B:473-496 C:473-496 D:473-496	24 24 24 24
1.15	ENST00000321341	15	ENSE00000950185	chr18:48466658-48466756	99	MAOM_HUMAN	497-529	33	4	A:497-529 B:497-529 C:497-529 D:497-529	33 33 33 33
1.16b	ENST00000321341	16b	ENSE00001605064	chr18:48473387-48474691	1305	MAOM_HUMAN	530-584	55	4	A:530-573 B:530-573 C:530-573 D:530-573	44 44 44 44

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:551
 aligned with MAOM_HUMAN | P23368 from UniProtKB/Swiss-Prot  Length:584

    Alignment length:551
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572 
           MAOM_HUMAN    23 EKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHRNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYMGLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVMSMVENGLSEQEAQKKIWMFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKMAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
               SCOP domains d1gz4a2 A:23-279 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                     d1gz4a1 A:280-573 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1gz4A01 A:23-277 Aminoacid dehydrogenase-like, N-terminal domain. Chain A                                                                                                                                                                                      1gz4A02 A:278-573 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh....hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.....eeee.hhh.hhhhhhh........eeeee..........hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee....hhhhhh.............hhhhhhhhhhhhhhhhhhhh...eeee...hhhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhhhh.hhhhh.eeee..hhhhhhhhhhhhhhhhh...hhhhhhh.eeeee..ee............hhhhh.........hhhhhhhhhh..eeee........hhhhhhhhhhhh...eeee...hhhhh..hhhhhhhhh....eeee......ee.....ee..ee.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhh.................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------L-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------E--------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALIC_ENZYMES    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2      Exon 1.3  PDB: A:37-81 UniProt: 37-81        -------------------------------------------------Exon 1.5  PDB: A:131-156  Exon 1.6  PDB: A:157-210 UniProt: 157-210             Exon 1.7  PDB: A:211-245           ------------------------------------Exon 1.9  PDB: A:282-314         Exon 1.10  PDB: A:315-352             Exon 1.11  PDB: A:353-391              -----------------------------------------------Exon 1.13  PDB: A:439-473          -----------------------Exon 1.15  PDB: A:497-529        Exon 1.16b  PDB: A:530-573 UniProt: 530-584  Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------Exon 1.4  PDB: A:81-131 UniProt: 81-131            -----------------------------------------------------------------------------------------------------------------Exon 1.8  PDB: A:245-282              ------------------------------------------------------------------------------------------------------------Exon 1.12  PDB: A:391-438 UniProt: 391-438      ----------------------------------Exon 1.14  PDB: A:473-49----------------------------------------------------------------------------- Transcript 1 (2)
                 1gz4 A  23 EKGKPLmLNPRTNKGmAFTLQERQmLGLQGLLPPKIETQDIQALRFHRNLKKmTSPLEKYIYImGIQERNEKLFYRILQDDIESLmPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGmGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYmGLYQKRDRTQQYDDLIDEFmKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVmSmVENGLSEQEAQKKIWmFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAmASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKmAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
                                  | 32     |  42    |   52        62        72  |     82   |    92       102     | 112       122       132       142       152       162       172    |  182       192       202       212      |222       232      |242       252       262       272       282       292       302       312       322  | |  332       342|      352       362       372       382       392       402    |  412       422       432       442       452       462       472       482       492       502       512       522       532      |542       552       562       572 
                                 29-MSE   38-MSE   47-MSE                      75-MSE     86-MSE               108-MSE                                                              177-MSE                                   219-MSE             239-MSE                                                                               325-MSE           343-MSE                                                         407-MSE                                                                                                                             539-MSE                              
                                                                                                                                                                                                                                                                                                                                          327-MSE

Chain B from PDB  Type:PROTEIN  Length:551
 aligned with MAOM_HUMAN | P23368 from UniProtKB/Swiss-Prot  Length:584

    Alignment length:551
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572 
           MAOM_HUMAN    23 EKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHRNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYMGLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVMSMVENGLSEQEAQKKIWMFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKMAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
               SCOP domains d1gz4b2 B:23-279 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                     d1gz4b1 B:280-573 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1gz4B01 B:23-277 Aminoacid dehydrogenase-like, N-terminal domain. Chain A                                                                                                                                                                                      1gz4B02 B:278-573 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh....hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.....eeee.hhh.hhhhhhh........eeeee..........hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee....hhhhhh.............hhhhhhhhhhhhhhhhhhhh...eeee...hhhhhhhhhhhhh....eee..hhhhhhhhhhhhhhhhhhhh.hhhhh.eeee..hhhhhhhhhhhhhhhhh...hhhhhhh.eeeee..ee............hhhhh.........hhhhhhhhhh..eeee........hhhhhhhhhhhh...eeee...hhhhh..hhhhhhhhh....eeee......ee.....ee..ee.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhh.................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------L-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------E--------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALIC_ENZYMES    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2      Exon 1.3  PDB: B:37-81 UniProt: 37-81        -------------------------------------------------Exon 1.5  PDB: B:131-156  Exon 1.6  PDB: B:157-210 UniProt: 157-210             Exon 1.7  PDB: B:211-245           ------------------------------------Exon 1.9  PDB: B:282-314         Exon 1.10  PDB: B:315-352             Exon 1.11  PDB: B:353-391              -----------------------------------------------Exon 1.13  PDB: B:439-473          -----------------------Exon 1.15  PDB: B:497-529        Exon 1.16b  PDB: B:530-573 UniProt: 530-584  Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------Exon 1.4  PDB: B:81-131 UniProt: 81-131            -----------------------------------------------------------------------------------------------------------------Exon 1.8  PDB: B:245-282              ------------------------------------------------------------------------------------------------------------Exon 1.12  PDB: B:391-438 UniProt: 391-438      ----------------------------------Exon 1.14  PDB: B:473-49----------------------------------------------------------------------------- Transcript 1 (2)
                 1gz4 B  23 EKGKPLmLNPRTNKGmAFTLQERQmLGLQGLLPPKIETQDIQALRFHRNLKKmTSPLEKYIYImGIQERNEKLFYRILQDDIESLmPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGmGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYmGLYQKRDRTQQYDDLIDEFmKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVmSmVENGLSEQEAQKKIWmFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAmASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKmAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
                                  | 32     |  42    |   52        62        72  |     82   |    92       102     | 112       122       132       142       152       162       172    |  182       192       202       212      |222       232      |242       252       262       272       282       292       302       312       322  | |  332       342|      352       362       372       382       392       402    |  412       422       432       442       452       462       472       482       492       502       512       522       532      |542       552       562       572 
                                 29-MSE   38-MSE   47-MSE                      75-MSE     86-MSE               108-MSE                                                              177-MSE                                   219-MSE             239-MSE                                                                               325-MSE           343-MSE                                                         407-MSE                                                                                                                             539-MSE                              
                                                                                                                                                                                                                                                                                                                                          327-MSE

Chain C from PDB  Type:PROTEIN  Length:551
 aligned with MAOM_HUMAN | P23368 from UniProtKB/Swiss-Prot  Length:584

    Alignment length:551
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572 
           MAOM_HUMAN    23 EKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHRNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYMGLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVMSMVENGLSEQEAQKKIWMFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKMAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
               SCOP domains d1gz4c2 C:23-279 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                     d1gz4c1 C:280-573 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1gz4C01 C:23-277 Aminoacid dehydrogenase-like, N-terminal domain. Chain A                                                                                                                                                                                      1gz4C02 C:278-573 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh....hhhhhhhhhhhhh...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.....eeee.hhh.hhhhhhh........eeeee..........hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee....hhhhhh.............hhhhhhhhhhhhhhhhhhhh...eeee...hhhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhhhh.hhhhh.eeee..hhhhhhhhhhhhhhhhh...hhhhhhh.eeeee..ee............hhhhh.........hhhhhhhhhh..eeee........hhhhhhhhhhhh...eeee...hhhhh..hhhhhhhhh....eeee......ee.....ee..ee.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------L-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------E--------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALIC_ENZYMES    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2      Exon 1.3  PDB: C:37-81 UniProt: 37-81        -------------------------------------------------Exon 1.5  PDB: C:131-156  Exon 1.6  PDB: C:157-210 UniProt: 157-210             Exon 1.7  PDB: C:211-245           ------------------------------------Exon 1.9  PDB: C:282-314         Exon 1.10  PDB: C:315-352             Exon 1.11  PDB: C:353-391              -----------------------------------------------Exon 1.13  PDB: C:439-473          -----------------------Exon 1.15  PDB: C:497-529        Exon 1.16b  PDB: C:530-573 UniProt: 530-584  Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------Exon 1.4  PDB: C:81-131 UniProt: 81-131            -----------------------------------------------------------------------------------------------------------------Exon 1.8  PDB: C:245-282              ------------------------------------------------------------------------------------------------------------Exon 1.12  PDB: C:391-438 UniProt: 391-438      ----------------------------------Exon 1.14  PDB: C:473-49----------------------------------------------------------------------------- Transcript 1 (2)
                 1gz4 C  23 EKGKPLmLNPRTNKGmAFTLQERQmLGLQGLLPPKIETQDIQALRFHRNLKKmTSPLEKYIYImGIQERNEKLFYRILQDDIESLmPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGmGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYmGLYQKRDRTQQYDDLIDEFmKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVmSmVENGLSEQEAQKKIWmFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAmASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKmAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
                                  | 32     |  42    |   52        62        72  |     82   |    92       102     | 112       122       132       142       152       162       172    |  182       192       202       212      |222       232      |242       252       262       272       282       292       302       312       322  | |  332       342|      352       362       372       382       392       402    |  412       422       432       442       452       462       472       482       492       502       512       522       532      |542       552       562       572 
                                 29-MSE   38-MSE   47-MSE                      75-MSE     86-MSE               108-MSE                                                              177-MSE                                   219-MSE             239-MSE                                                                               325-MSE           343-MSE                                                         407-MSE                                                                                                                             539-MSE                              
                                                                                                                                                                                                                                                                                                                                          327-MSE

Chain D from PDB  Type:PROTEIN  Length:551
 aligned with MAOM_HUMAN | P23368 from UniProtKB/Swiss-Prot  Length:584

    Alignment length:551
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572 
           MAOM_HUMAN    23 EKGKPLMLNPRTNKGMAFTLQERQMLGLQGLLPPKIETQDIQALRFHRNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGMGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYMGLYQKRDRTQQYDDLIDEFMKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVMSMVENGLSEQEAQKKIWMFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAMASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKMAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
               SCOP domains d1gz4d2 D:23-279 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                     d1gz4d1 D:280-573 Mitochondrial NAD(P)-dependent malic enzyme                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1gz4D01 D:23-277 Aminoacid dehydrogenase-like, N-terminal domain. Chain A                                                                                                                                                                                      1gz4D02 D:278-573 NAD(P)-binding Rossmann-like Domain                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh....hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.....eeee.hhh.hhhhhhh........eeeee..........hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeee....hhhhhh.............hhhhhhhhhhhhhhhhhhhh...eeee...hhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhhh.hhhhh.eeee..hhhhhhhhhhhhhhhhh...hhhhhhh.eeeee..ee............hhhhh.........hhhhhhhhhh..eeee........hhhhhhhhhhhh...eeee...hhhhh..hhhhhhhhh....eeee......ee.....ee..ee.hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------L-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------E--------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALIC_ENZYMES    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2      Exon 1.3  PDB: D:37-81 UniProt: 37-81        -------------------------------------------------Exon 1.5  PDB: D:131-156  Exon 1.6  PDB: D:157-210 UniProt: 157-210             Exon 1.7  PDB: D:211-245           ------------------------------------Exon 1.9  PDB: D:282-314         Exon 1.10  PDB: D:315-352             Exon 1.11  PDB: D:353-391              -----------------------------------------------Exon 1.13  PDB: D:439-473          -----------------------Exon 1.15  PDB: D:497-529        Exon 1.16b  PDB: D:530-573 UniProt: 530-584  Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------Exon 1.4  PDB: D:81-131 UniProt: 81-131            -----------------------------------------------------------------------------------------------------------------Exon 1.8  PDB: D:245-282              ------------------------------------------------------------------------------------------------------------Exon 1.12  PDB: D:391-438 UniProt: 391-438      ----------------------------------Exon 1.14  PDB: D:473-49----------------------------------------------------------------------------- Transcript 1 (2)
                 1gz4 D  23 EKGKPLmLNPRTNKGmAFTLQERQmLGLQGLLPPKIETQDIQALRFHRNLKKmTSPLEKYIYImGIQERNEKLFYRILQDDIESLmPIVYTPTVGLACSQYGHIFRRPKGLFISISDRGHVRSIVDNWPENHVKAVVVTDGERILGLGDLGVYGmGIPVGKLCLYTACAGIRPDRCLPVCIDVGTDNIALLKDPFYmGLYQKRDRTQQYDDLIDEFmKAITDRYGRNTLIQFEDFGNHNAFRFLRKYREKYCTFNDDIQGTAAVALAGLLAAQKVISKPISEHKILFLGAGEAALGIANLIVmSmVENGLSEQEAQKKIWmFDKYGLLVKGRKAKIDSYQEPFTHSAPESIPDTFEDAVNILKPSTIIGVAGAGRLFTPDVIRAmASINERPVIFALSNPTAQAECTAEEAYTLTEGRCLFASGSPFGPVKLTDGRVFTPGQGNNVYIFPGVALAVILCNTRHISDSVFLEAAKALTSQLTDEELAQGRLYPPLANIQEVSINIAIKVTEYLYANKmAFRYPEPEDKAKYVKERTWRSEYDSLLPDVYEWP 573
                                  | 32     |  42    |   52        62        72  |     82   |    92       102     | 112       122       132       142       152       162       172    |  182       192       202       212      |222       232      |242       252       262       272       282       292       302       312       322  | |  332       342|      352       362       372       382       392       402    |  412       422       432       442       452       462       472       482       492       502       512       522       532      |542       552       562       572 
                                 29-MSE   38-MSE   47-MSE                      75-MSE     86-MSE               108-MSE                                                              177-MSE                                   219-MSE             239-MSE                                                                               325-MSE           343-MSE                                                         407-MSE                                                                                                                             539-MSE                              
                                                                                                                                                                                                                                                                                                                                          327-MSE

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/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: Aminoacid dehydrogenase-like, N-terminal domain. Chain A (17)

Human (Homo sapiens) (11)

1a	1gz4A01	A:23-277
1b	1gz4B01	B:23-277
1c	1gz4C01	C:23-277
1d	1gz4D01	D:23-277

Homologous Superfamily: NAD(P)-binding Rossmann-like Domain (1244)

Human (Homo sapiens) (188)

2a	1gz4A02	A:278-573
2b	1gz4B02	B:278-573
2c	1gz4C02	C:278-573
2d	1gz4D02	D:278-573

(no "Pfam Domain" information available for 1GZ4)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (MAOM_HUMAN | P23368)

molecular function
	GO:0051287	NAD binding	Interacting selectively and non-covalently with nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
	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: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:0004471	malate dehydrogenase (decarboxylating) (NAD+) activity	Catalysis of the reaction: (S)-malate + NAD+ = pyruvate + CO2 + NADH + H+.
	GO:0004470	malic enzyme activity	Catalysis of the oxidative decarboxylation of malate with the concomitant production of pyruvate.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008948	oxaloacetate decarboxylase activity	Catalysis of the reaction: oxaloacetate = pyruvate + CO2.
	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:0006108	malate metabolic process	The chemical reactions and pathways involving malate, the anion of hydroxybutanedioic acid, a chiral hydroxydicarboxylic acid. The (+) enantiomer is an important intermediate in metabolism as a component of both the TCA cycle and the glyoxylate cycle.
	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: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.
	GO:1902031	regulation of NADP metabolic process	Any process that modulates the frequency, rate or extent of NADP metabolic process.
cellular component
	GO:0043231	intracellular membrane-bounded organelle	Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
	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/Biological Unit
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Access by PDB/NDB ID
	1gz4
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	MAOM_HUMAN \| P23368
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	1.1.1.40
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UniProtKB/Swiss-Prot
	MAOM_HUMAN \| P23368	:	1do8 1efk 1efl 1gz3 1pj2 1pj3 1pj4 1pjl 1qr6

1do8	CRYSTAL STRUCTURE OF A CLOSED FORM OF HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME
1efk	STRUCTURE OF HUMAN MALIC ENZYME IN COMPLEX WITH KETOMALONATE
1efl	HUMAN MALIC ENZYME IN A QUATERNARY COMPLEX WITH NAD, MG, AND TARTRONATE
1gz3	MOLECULAR MECHANISM FOR THE REGULATION OF HUMAN MITOCHONDRIAL NAD(P)+-DEPENDENT MALIC ENZYME BY ATP AND FUMARATE
1qr6	HUMAN MITOCHONDRIAL NAD(P)-DEPENDENT MALIC ENZYME

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 76)

Sites (20, 20)

SS Bonds (0, 0)

Cis Peptide Bonds (12, 12)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (2, 8)

PROSITE Motifs (1, 4)

Exons (15, 60)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 8)

CATH Domains (2, 8)

Pfam Domains (0, 0)

Gene Ontology (15, 15)

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