2E48 - 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)

Title :   CRYSTAL STRUCTURE OF HUMAN D-AMINO ACID OXIDASE: SUBSTRATE-FREE HOLOENZYME

Authors :   T. Kawazoe, H. Tsuge, T. Imagawa, K. Fukui

Date :   05 Dec 06 (Deposition) - 06 Mar 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.90

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

Keywords :   Structurally Ambivalent Peptide, Substrate-Free Holoenzyme, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Kawazoe, H. Tsuge, T. Imagawa, K. Aki, S. Kuramitsu, K. Fukui
Structural Basis Of D-Dopa Oxidation By D-Amino Acid Oxidase: Alternative Pathway For Dopamine Biosynthesis.
Biochem. Biophys. Res. Commun. V. 355 385 2007
PubMed-ID: 17303072 | Reference-DOI: 10.1016/J.BBRC.2007.01.181
(for further references see the PDB file header)

Molecule 1 - D-AMINO-ACID OXIDASE
	Chains	:	A, B, C, D
	EC Number	:	1.4.3.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET11B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	DAMOX, DAO, DAAO

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	FAD	4	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Biological Unit 3 (1, 4)

No.	Name	Count	Type	Full Name
1	FAD	4	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:7 , ALA A:8 , GLY A:9 , VAL A:10 , ILE A:11 , ALA A:36 , ASP A:37 , ARG A:38 , THR A:44 , THR A:45 , ALA A:48 , GLY A:50 , LEU A:51 , ARG A:162 , VAL A:164 , THR A:182 , GLY A:183 , LEU A:189 , ILE A:202 , PRO A:284 , GLY A:312 , GLY A:313 , TYR A:314 , GLY A:315 , LEU A:316 , THR A:317	BINDING SITE FOR RESIDUE FAD A 351
2	AC2	SOFTWARE	ILE B:1006 , GLY B:1007 , GLY B:1009 , VAL B:1010 , ILE B:1011 , ASP B:1037 , ARG B:1038 , THR B:1044 , THR B:1045 , ALA B:1048 , GLY B:1050 , LEU B:1051 , ARG B:1162 , VAL B:1164 , THR B:1182 , GLY B:1183 , LEU B:1189 , ILE B:1202 , ARG B:1283 , GLY B:1312 , GLY B:1313 , TYR B:1314 , GLY B:1315 , LEU B:1316 , THR B:1317	BINDING SITE FOR RESIDUE FAD B 1351
3	AC3	SOFTWARE	HOH C:88 , GLY C:2007 , ALA C:2008 , GLY C:2009 , VAL C:2010 , ILE C:2011 , ASP C:2037 , ARG C:2038 , THR C:2044 , THR C:2045 , ALA C:2048 , GLY C:2050 , LEU C:2051 , ARG C:2162 , LYS C:2163 , VAL C:2164 , THR C:2182 , GLY C:2183 , TRP C:2185 , LEU C:2189 , ILE C:2202 , ARG C:2283 , GLY C:2312 , GLY C:2313 , TYR C:2314 , GLY C:2315 , LEU C:2316 , THR C:2317	BINDING SITE FOR RESIDUE FAD C 2351
4	AC4	SOFTWARE	HOH D:70 , ILE D:3006 , GLY D:3007 , ALA D:3008 , GLY D:3009 , VAL D:3010 , ILE D:3011 , ALA D:3036 , ASP D:3037 , ARG D:3038 , THR D:3043 , THR D:3044 , THR D:3045 , ALA D:3048 , GLY D:3050 , LEU D:3051 , ARG D:3162 , LYS D:3163 , VAL D:3164 , THR D:3182 , GLY D:3183 , TYR D:3228 , GLY D:3281 , ARG D:3283 , PRO D:3284 , GLY D:3312 , GLY D:3313 , TYR D:3314 , GLY D:3315 , LEU D:3316 , THR D:3317	BINDING SITE FOR RESIDUE FAD D 3351

(no "SS Bond" information available for 2E48)

(no "Cis Peptide Bond" information available for 2E48)

(no "SAP(SNP)/Variant" information available for 2E48)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DAO	PS00677	D-amino acid oxidases signature.	OXDA_HUMAN	305-323	4	A:305-323 B:1305-1323 C:2305-2323 D:3305-3323

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DAO	PS00677	D-amino acid oxidases signature.	OXDA_HUMAN	305-323	2	A:305-323 B:1305-1323 - -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DAO	PS00677	D-amino acid oxidases signature.	OXDA_HUMAN	305-323	2	- - C:2305-2323 D:3305-3323

Biological Unit 3 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DAO	PS00677	D-amino acid oxidases signature.	OXDA_HUMAN	305-323	4	A:305-323 B:1305-1323 C:2305-2323 D:3305-3323

Asymmetric Unit (10, 40)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000228476	1	ENSE00001232085	chr12:109273857-109274000	144	OXDA_HUMAN	-	0	0	-	-
1.2	ENST00000228476	2	ENSE00001232101	chr12:109278774-109278976	203	OXDA_HUMAN	1-65	65	4	A:1-65 B:1001-1065 C:2001-2065 D:3001-3065	65 65 65 65
1.3	ENST00000228476	3	ENSE00001232078	chr12:109281226-109281340	115	OXDA_HUMAN	65-103	39	4	A:65-103 B:1065-1103 C:2065-2103 D:3065-3103	39 39 39 39
1.4	ENST00000228476	4	ENSE00001232074	chr12:109283245-109283321	77	OXDA_HUMAN	104-129	26	4	A:104-129 B:1104-1129 C:2104-2129 D:3104-3129	26 26 26 26
1.5	ENST00000228476	5	ENSE00001232068	chr12:109283984-109284049	66	OXDA_HUMAN	129-151	23	4	A:129-151 B:1129-1151 C:2129-2151 D:3129-3151	23 23 23 23
1.6	ENST00000228476	6	ENSE00001232066	chr12:109286758-109286812	55	OXDA_HUMAN	151-169	19	4	A:151-169 B:1151-1169 C:2151-2169 D:3151-3169	19 19 19 19
1.7	ENST00000228476	7	ENSE00001232061	chr12:109288039-109288143	105	OXDA_HUMAN	170-204	35	4	A:170-204 B:1170-1204 C:2170-2204 D:3170-3204	35 35 35 35
1.8	ENST00000228476	8	ENSE00000754687	chr12:109290782-109290864	83	OXDA_HUMAN	205-232	28	4	A:205-232 B:1205-1232 C:2205-2232 D:3205-3232	28 28 28 28
1.9	ENST00000228476	9	ENSE00001232053	chr12:109292455-109292572	118	OXDA_HUMAN	232-271	40	4	A:232-271 B:1232-1271 C:2232-2271 D:3232-3271	40 40 40 40
1.10	ENST00000228476	10	ENSE00001232046	chr12:109293153-109293251	99	OXDA_HUMAN	272-304	33	4	A:272-304 B:1272-1304 C:2272-2304 D:3272-3304	33 33 33 33
1.11	ENST00000228476	11	ENSE00001232095	chr12:109294180-109294709	530	OXDA_HUMAN	305-347	43	4	A:305-340 B:1305-1340 C:2305-2340 D:3305-3340	36 36 36 36

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:340
 aligned with OXDA_HUMAN | P14920 from UniProtKB/Swiss-Prot  Length:347

    Alignment length:340
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340
          OXDA_HUMAN      1 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS  340
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2e48A01 A:1-88,A:140-195,A:286-340 NAD(P)-binding Rossmann-like Domain                  2e48A02 A:89-139,A:196-285                         2e48A01 A:1-88,A:140-195,A:286-340                      2e48A02 A:89-139,A:196-285 D-Amino Acid Oxidase, subunit A, domain 2                      2e48A01 A:1-88,A:140-195,A:286-340                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhhh......eeeee.......hhhhhh............hhhhhhhhhhhhhhhhh.....hhhhhheeeeeeeeee.............eeeee.hhhhhh......eeeeeeeeeehhhhhhhhhhhhhhh...eee.....hhhhhhhh...eeee.hhhhhhhh......eeeeeeeeeee......eeeee..........eeee....eeee...ee.......hhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....eeeeeee......eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DAO  PDB: A:305-323----------------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: A:1-65 UniProt: 1-65                              --------------------------------------Exon 1.4  PDB: A:104-129  ---------------------Exon 1.6           Exon 1.7  PDB: A:170-204           Exon 1.8  PDB: A:205-232    ---------------------------------------Exon 1.10  PDB: A:272-304        Exon 1.11  PDB: A:305-340            Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3  PDB: A:65-103 UniProt: 65-103-------------------------Exon 1.5  PDB: A:129-15--------------------------------------------------------------------------------Exon 1.9  PDB: A:232-271                --------------------------------------------------------------------- Transcript 1 (2)
                2e48 A    1 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS  340
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340

Chain B from PDB  Type:PROTEIN  Length:340
 aligned with OXDA_HUMAN | P14920 from UniProtKB/Swiss-Prot  Length:347

    Alignment length:340
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340
          OXDA_HUMAN      1 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS  340
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2e48B01 B:1001-1088,B:1140-1195,B:1286-1340 NAD(P)-binding Rossmann-like Domain         2e48B02 B:1089-1139,B:1196-1285                    2e48B01 B:1001-1088,B:1140-1195,B:1286-1340             2e48B02 B:1089-1139,B:1196-1285 D-Amino Acid Oxidase, subunit A, domain 2                 2e48B01 B:1001-1088,B:1140-1195,B:1286-1340             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhhh......eeeeee......hhhhh.............hhhhhhhhhhhhhhhhh.....hhhhhheeeeeeeeee......hhhhhh.eeeee.hhhhhhhh....eeeeeeeeeehhhhhhhhhhhhhhhh..eeee....hhhhhhhh...eeee.hhhhhhhhh.....eeeeeeeeeee......eeee...........eeee....eeee...ee.......hhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....eee..eee....eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DAO                ----------------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: B:1001-1065 UniProt: 1-65                         --------------------------------------Exon 1.4  PDB: B:1104-1129---------------------Exon 1.6           Exon 1.7  PDB: B:1170-1204         Exon 1.8  PDB: B:1205-1232  ---------------------------------------Exon 1.10  PDB: B:1272-1304      Exon 1.11  PDB: B:1305-1340          Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3  PDB: B:1065-1103             -------------------------Exon 1.5               --------------------------------------------------------------------------------Exon 1.9  PDB: B:1232-1271              --------------------------------------------------------------------- Transcript 1 (2)
                2e48 B 1001 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS 1340
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190      1200      1210      1220      1230      1240      1250      1260      1270      1280      1290      1300      1310      1320      1330      1340

Chain C from PDB  Type:PROTEIN  Length:340
 aligned with OXDA_HUMAN | P14920 from UniProtKB/Swiss-Prot  Length:347

    Alignment length:340
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340
          OXDA_HUMAN      1 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS  340
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2e48C01 C:2001-2088,C:2140-2195,C:2286-2340 NAD(P)-binding Rossmann-like Domain         2e48C02 C:2089-2139,C:2196-2285                    2e48C01 C:2001-2088,C:2140-2195,C:2286-2340             2e48C02 C:2089-2139,C:2196-2285 D-Amino Acid Oxidase, subunit A, domain 2                 2e48C01 C:2001-2088,C:2140-2195,C:2286-2340             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhh............hhhhhhhhhhhhhhhhh.....hhhhhheeeeeeeeee......hhhhhh.eeeee.hhhhhhh.....eeeeeeeeeehhhhhhhhhhhhhhhh..eeee....hhhhhhhh...eeee.hhhhhhhh......eeeeeeeeeee......eeee...........eeee....eeee...ee.......hhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....eeeeeee......eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DAO                ----------------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: C:2001-2065 UniProt: 1-65                         --------------------------------------Exon 1.4  PDB: C:2104-2129---------------------Exon 1.6           Exon 1.7  PDB: C:2170-2204         Exon 1.8  PDB: C:2205-2232  ---------------------------------------Exon 1.10  PDB: C:2272-2304      Exon 1.11  PDB: C:2305-2340          Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3  PDB: C:2065-2103             -------------------------Exon 1.5               --------------------------------------------------------------------------------Exon 1.9  PDB: C:2232-2271              --------------------------------------------------------------------- Transcript 1 (2)
                2e48 C 2001 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS 2340
                                  2010      2020      2030      2040      2050      2060      2070      2080      2090      2100      2110      2120      2130      2140      2150      2160      2170      2180      2190      2200      2210      2220      2230      2240      2250      2260      2270      2280      2290      2300      2310      2320      2330      2340

Chain D from PDB  Type:PROTEIN  Length:340
 aligned with OXDA_HUMAN | P14920 from UniProtKB/Swiss-Prot  Length:347

    Alignment length:340
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340
          OXDA_HUMAN      1 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS  340
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2e48D01 D:3001-3088,D:3140-3195,D:3286-3340 NAD(P)-binding Rossmann-like Domain         2e48D02 D:3089-3139,D:3196-3285                    2e48D01 D:3001-3088,D:3140-3195,D:3286-3340             2e48D02 D:3089-3139,D:3196-3285 D-Amino Acid Oxidase, subunit A, domain 2                 2e48D01 D:3001-3088,D:3140-3195,D:3286-3340             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhhhh......eeeeee......hhhhh..............hhhhhhhhhhhhhhhh.....hhhhhheeeeeeeeee......hhhhhh.......hhhhhh......eeeeeeeeeehhhhhhhhhhhhhhh...eeee....hhhhhhhh...eeee.hhhhhhhh......eeeeeeeeeee......eeee...........eeee....eeee...ee.......hhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeee....eeeee.........eeeeee....hhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DAO                ----------------- PROSITE
           Transcript 1 (1) Exon 1.2  PDB: D:3001-3065 UniProt: 1-65                         --------------------------------------Exon 1.4  PDB: D:3104-3129---------------------Exon 1.6           Exon 1.7  PDB: D:3170-3204         Exon 1.8  PDB: D:3205-3232  ---------------------------------------Exon 1.10  PDB: D:3272-3304      Exon 1.11  PDB: D:3305-3340          Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3  PDB: D:3065-3103             -------------------------Exon 1.5               --------------------------------------------------------------------------------Exon 1.9  PDB: D:3232-3271              --------------------------------------------------------------------- Transcript 1 (2)
                2e48 D 3001 MRVVVIGAGVIGLSTALCIHERYHSVLQPLDIKVYADRFTPLTTTDVAAGLWQPYLSDPNNPQEADWSQQTFDYLLSHVHSPNAENLGLFLISGYNLFHEAIPDPSWKDTVLGFRKLTPRELDMFPDYGYGWFHTSLILEGKNYLQWLTERLTERGVKFFQRKVESFEEVAREGADVIVNCTGVWAGALQRDPLLQPGRGQIMKVDAPWMKHFILTHDPERGIYNSPYIIPGTQTVTLGGIFQLGNWSELNNIQDHNTIWEGCCRLEPTLKNARIIGERTGFRPVRPQIRLEREQLRTGPSNTEVIHNYGHGGYGLTIHWGCALEAAKLFGRILEEKKLS 3340
                                  3010      3020      3030      3040      3050      3060      3070      3080      3090      3100      3110      3120      3130      3140      3150      3160      3170      3180      3190      3200      3210      3220      3230      3240      3250      3260      3270      3280      3290      3300      3310      3320      3330      3340

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 "SCOP Domain" information available for 2E48)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: D-Amino Acid Oxidase; Chain A, domain 2 (80)

Homologous Superfamily: D-Amino Acid Oxidase, subunit A, domain 2 (80)

Human (Homo sapiens) (6)

1a	2e48A02	A:89-139,A:196-285
1b	2e48B02	B:1089-1139,B:1196-1285
1c	2e48C02	C:2089-2139,C:2196-2285
1d	2e48D02	D:3089-3139,D:3196-3285

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

Topology: Rossmann fold (7312)

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

Human (Homo sapiens) (188)

2a	2e48A01	A:1-88,A:140-195,A:286-340
2b	2e48B01	B:1001-1088,B:1140-1195,B:1286-1340
2c	2e48C01	C:2001-2088,C:2140-2195,C:2286-2340
2d	2e48D01	D:3001-3088,D:3140-3195,D:3286-3340

(no "Pfam Domain" information available for 2E48)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (OXDA_HUMAN | P14920)

molecular function
	GO:0003884	D-amino-acid oxidase activity	Catalysis of the reaction: a D-amino acid + H2O + O2 = a 2-oxo acid + NH3 + hydrogen peroxide.
	GO:0071949	FAD binding	Interacting selectively and non-covalently with the oxidized form, FAD, of flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0048037	cofactor binding	Interacting selectively and non-covalently with a cofactor, a substance that is required for the activity of an enzyme or other protein. Cofactors may be inorganic, such as the metal atoms zinc, iron, and copper in certain forms, or organic, in which case they are referred to as coenzymes. Cofactors may either be bound tightly to active sites or bind loosely with the substrate.
	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.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0046983	protein dimerization activity	The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
	GO:0005102	receptor binding	Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
biological process
	GO:0055130	D-alanine catabolic process	The chemical reactions and pathways resulting in the breakdown of D-alanine, the D-enantiomer of the amino acid alanine.
	GO:0046416	D-amino acid metabolic process	The chemical reactions and pathways involving D-amino acids, the D-enantiomers of amino acids.
	GO:0036088	D-serine catabolic process	The chemical reactions and pathways resulting in the breakdown of D-serine, the D-enantiomer of serine, i.e. (2S)-2-amino-3-hydroxypropanoic acid.
	GO:0070178	D-serine metabolic process	The chemical reactions and pathways involving D-serine, the D-enantiomer of serine, i.e. (2R)-2-amino-3-hydroxypropanoic acid.
	GO:0042416	dopamine biosynthetic process	The chemical reactions and pathways resulting in the formation of dopamine, a catecholamine neurotransmitter and a metabolic precursor of noradrenaline and adrenaline.
	GO:0046487	glyoxylate metabolic process	The chemical reactions and pathways involving glyoxylate, the anion of glyoxylic acid, HOC-COOH.
	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:0006562	proline catabolic process	The chemical reactions and pathways resulting in the breakdown of proline (pyrrolidine-2-carboxylic acid), a chiral, cyclic, nonessential alpha-amino acid found in peptide linkage in proteins.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0005741	mitochondrial outer membrane	The outer, i.e. cytoplasm-facing, lipid bilayer of the mitochondrial envelope.
	GO:0005782	peroxisomal matrix	The volume contained within the membranes of a peroxisome; in many cells the matrix contains a crystalloid core largely composed of urate oxidase.
	GO:0005778	peroxisomal membrane	The lipid bilayer surrounding a peroxisome.
	GO:0005777	peroxisome	A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.

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	Cis Peptide Bonds
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	2e48
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	OXDA_HUMAN \| P14920
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	1.4.3.3
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2du8	THE SAME PROTEIN COMPLEXED WITH BENZOATE
2e49	THE SAME PROTEIN COMPLEXED WITH IMINO-SERINE
2e4a	THE SAME PROTEIN COMPLEXED WITH O-AMINOBENZOATE
2e82	THE SAME PROTEIN COMPLEXED WITH IMINO-DOPA

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (10, 40)

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SCOP Domains (0, 0)

CATH Domains (2, 8)

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Gene Ontology (20, 20)

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