2J9F - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

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

Title :   HUMAN BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE-DECARBOXYLASE E1B

Authors :   L. Jun, M. Machius, J. L. Chuang, R. M. Wynn, D. T. Chuang

Date :   07 Nov 06 (Deposition) - 27 Feb 07 (Release) - 08 Jun 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.88

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

Keywords :   Oxidoreductase, Flavoprotein, Mitochondrion, Thiamine Pyrophosphate, Maple Syrup Urine Disease, Transit Peptide, Phosphorylation, Disease Mutation, Metal-Binding, Multi-Enzyme Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Li, M. Machius, J. L. Chuang, R. M. Wynn, D. T. Chuang
The Two Active Sites In Human Branched-Chain Alpha- Keto Acid Dehydrogenase Operate Independently Without An Obligatory Alternating-Site Mechanism.
J. Biol. Chem. V. 282 11904 2007
PubMed-ID: 17329260 | Reference-DOI: 10.1074/JBC.M610843200
(for further references see the PDB file header)

Molecule 1 - 2-OXOISOVALERATE DEHYDROGENASE ALPHA SUBUNIT
	Chains	:	A, C
	EC Number	:	1.2.4.4
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC-ALPHA-BETAHIS
	Expression System Strain	:	BL21
	Expression System Taxid	:	51169
	Expression System Vector	:	PTRCHISB (INVITROGEN)
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	BRANCHED-CHAIN ALPHA-KETO ACID DEHYDROGENASE E1 COMPONENT ALPHA CHAIN, BCKDH E1-ALPHA, BCKDE1A

Molecule 2 - 2-OXOISOVALERATE DEHYDROGENASE BETA SUBUNIT
	Chains	:	B, D
	EC Number	:	1.2.4.4
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC-ALPHA-BETAHIS
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector	:	PTRCHISB (INVITROGEN)
	Expression System Vector Type	:	PLASMID
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	BRANCHED-CHAIN ALPHA-KETO ACID DEHYDROGENASE E1 COMPONENT BETA CHAIN, BCKDH E1-BETA

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

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 11)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	K	4	Ligand/Ion	POTASSIUM ION
3	MN	2	Ligand/Ion	MANGANESE (II) ION
4	THV	2	Ligand/Ion	C2-1-HYDROXY-3-METHYL-PROPYL-THIAMINDIPHOSPHATE

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:193 , ASN A:222 , TYR A:224 , THV A:1403 , HOH A:2291	BINDING SITE FOR RESIDUE MN A1401
02	AC2	SOFTWARE	SER A:161 , PRO A:163 , THR A:166 , GLN A:167 , HOH A:2078	BINDING SITE FOR RESIDUE K A1402
03	AC3	SOFTWARE	GLY B:128 , LEU B:130 , THR B:131 , CYS B:178 , ASP B:181 , ASN B:183 , HOH B:2136	BINDING SITE FOR RESIDUE K B1343
04	AC4	SOFTWARE	GLU C:193 , ASN C:222 , TYR C:224 , THV C:1403 , HOH C:2297	BINDING SITE FOR RESIDUE MN C1401
05	AC5	SOFTWARE	SER C:161 , PRO C:163 , THR C:166 , GLN C:167 , HOH C:2094 , HOH C:2096	BINDING SITE FOR RESIDUE K C1402
06	AC6	SOFTWARE	GLY D:128 , LEU D:130 , THR D:131 , CYS D:178 , ASP D:181 , ASN D:183 , HOH D:2144	BINDING SITE FOR RESIDUE K D1343
07	AC7	SOFTWARE	PHE A:85 , MET A:87 , GLN A:112 , TYR A:113 , ARG A:114 , SER A:162 , LEU A:164 , GLY A:192 , GLU A:193 , GLY A:194 , ALA A:195 , GLU A:198 , ARG A:220 , ASN A:222 , TYR A:224 , ALA A:225 , ILE A:226 , HIS A:291 , MN A:1401 , HOH A:2203 , GLU D:46 , LEU D:74 , GLU D:76 , GLN D:98 , TYR D:102 , HIS D:146	BINDING SITE FOR RESIDUE THV A1403
08	AC8	SOFTWARE	GLU B:46 , LEU B:74 , GLU B:76 , GLN B:98 , TYR B:102 , HIS B:146 , GLN C:112 , TYR C:113 , ARG C:114 , SER C:162 , LEU C:164 , GLY C:192 , GLU C:193 , GLY C:194 , ALA C:195 , GLU C:198 , ARG C:220 , ASN C:222 , TYR C:224 , ALA C:225 , ILE C:226 , HIS C:291 , MN C:1401 , HOH C:2217 , HOH C:2297	BINDING SITE FOR RESIDUE THV C1403
09	AC9	SOFTWARE	GLN A:374 , TRP B:260 , GLU B:290 , THR B:294 , HOH B:2206 , HOH B:2243 , THR D:284 , ARG D:309	BINDING SITE FOR RESIDUE GOL B1344
10	BC1	SOFTWARE	THR B:284 , ARG B:309 , GLN C:374 , TRP D:260 , GLU D:290 , THR D:294 , HOH D:2236 , HOH D:2237	BINDING SITE FOR RESIDUE GOL D1344
11	BC2	SOFTWARE	GLN C:374 , SER D:211 , TRP D:260 , ASP D:261 , VAL D:262 , ASP D:263	BINDING SITE FOR RESIDUE GOL D1345

(no "SS Bond" information available for 2J9F)

Asymmetric/Biological Unit

No.	Residues
1	Ile B:258	-	Pro B:259
2	Ile D:258	-	Pro D:259

Asymmetric/Biological Unit (16, 32)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_034361	T	151	M	ODBA_HUMAN	Polymorphism	34442879	A/C	T	106	M
02	UniProt	VAR_004968	R	159	W	ODBA_HUMAN	Disease (MSUD1A)	769688327	A/C	R	114	W
03	UniProt	VAR_068348	R	170	H	ODBB_HUMAN	Disease (MSUD1B)	371518124	B/D	R	120	H
04	UniProt	VAR_024851	R	183	P	ODBB_HUMAN	Disease (MSUD1B)	28934895	B/D	R	133	P
05	UniProt	VAR_004969	Q	190	K	ODBA_HUMAN	Disease (MSUD1A)	---	A/C	Q	145	K
06	UniProt	VAR_004974	H	206	R	ODBB_HUMAN	Disease (MSUD1B)	---	B/D	H	156	R
07	UniProt	VAR_069748	T	211	M	ODBA_HUMAN	Disease (MSUD1A)	398123503	A/C	T	166	M
08	UniProt	VAR_069749	A	220	V	ODBA_HUMAN	Disease (MSUD1A)	375785084	A/C	A	175	V
09	UniProt	VAR_004970	A	253	T	ODBA_HUMAN	Disease (MSUD1A)	199599175	A/C	A	208	T
10	UniProt	VAR_024852	G	278	S	ODBB_HUMAN	Disease (MSUD1B)	386834233	B/D	G	228	S
11	UniProt	VAR_015101	G	290	R	ODBA_HUMAN	Disease (MSUD1A)	137852871	A/C	G	245	R
12	UniProt	VAR_004971	I	326	T	ODBA_HUMAN	Disease (MSUD1A)	---	A/C	I	281	T
13	UniProt	VAR_068349	Q	346	R	ODBB_HUMAN	Disease (MSUD1B)	---	B/D	Q	296	R
14	UniProt	VAR_015102	F	409	C	ODBA_HUMAN	Disease (MSUD1A)	137852872	A/C	F	364	C
15	UniProt	VAR_004972	Y	413	C	ODBA_HUMAN	Disease (MSUD1A)	---	A/C	Y	368	C
16	UniProt	VAR_004973	Y	438	N	ODBA_HUMAN	Disease (MSUD1A)	137852870	A/C	Y	393	N

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

(no "PROSITE Motif" information available for 2J9F)

Asymmetric/Biological Unit (18, 36)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000269980	1a	ENSE00001136590	chr19:41903704-41903840	137	ODBA_HUMAN	1-36	36	0	-	-
1.2a	ENST00000269980	2a	ENSE00000951971	chr19:41916542-41916721	180	ODBA_HUMAN	37-96	60	2	A:6-51 C:6-51	46 46
1.3	ENST00000269980	3	ENSE00001243623	chr19:41916828-41916914	87	ODBA_HUMAN	97-125	29	2	A:52-80 C:52-80	29 29
1.4	ENST00000269980	4	ENSE00000951973	chr19:41919954-41920062	109	ODBA_HUMAN	126-162	37	2	A:81-117 C:81-117	37 37
1.5	ENST00000269980	5	ENSE00001164733	chr19:41925040-41925201	162	ODBA_HUMAN	162-216	55	2	A:117-171 C:117-171	55 55
1.6	ENST00000269980	6	ENSE00000951975	chr19:41928069-41928275	207	ODBA_HUMAN	216-285	70	2	A:171-240 C:171-240	70 70
1.7b	ENST00000269980	7b	ENSE00000951976	chr19:41928534-41928675	142	ODBA_HUMAN	285-332	48	2	A:240-287 C:240-287	48 48
1.8b	ENST00000269980	8b	ENSE00000951977	chr19:41928903-41929074	172	ODBA_HUMAN	332-389	58	2	A:287-344 (gaps) C:287-344 (gaps)	58 58
1.9b	ENST00000269980	9b	ENSE00001196086	chr19:41930343-41930909	567	ODBA_HUMAN	390-445	56	2	A:345-400 C:345-400	56 56

2.1	ENST00000356489	1	ENSE00001140741	chr6:80816364-80816606	243	ODBB_HUMAN	1-66	66	2	B:14-16 D:14-16	3 3
2.3	ENST00000356489	3	ENSE00002147378	chr6:80837264-80837341	78	ODBB_HUMAN	66-92	27	2	B:16-42 D:16-42	27 27
2.4	ENST00000356489	4	ENSE00002146276	chr6:80838878-80838946	69	ODBB_HUMAN	92-115	24	2	B:42-65 D:42-65	24 24
2.6	ENST00000356489	6	ENSE00000798033	chr6:80877395-80877528	134	ODBB_HUMAN	115-159	45	2	B:65-109 D:65-109	45 45
2.7	ENST00000356489	7	ENSE00000798034	chr6:80878592-80878747	156	ODBB_HUMAN	160-211	52	2	B:110-161 D:110-161	52 52
2.9	ENST00000356489	9	ENSE00000798035	chr6:80880999-80881107	109	ODBB_HUMAN	212-248	37	2	B:162-198 D:162-198	37 37
2.10	ENST00000356489	10	ENSE00000798036	chr6:80910651-80910748	98	ODBB_HUMAN	248-280	33	2	B:198-230 D:198-230	33 33
2.11	ENST00000356489	11	ENSE00002191509	chr6:80912819-80912929	111	ODBB_HUMAN	281-317	37	2	B:231-267 D:231-267	37 37
2.13b	ENST00000356489	13b	ENSE00000759469	chr6:80982852-80982938	87	ODBB_HUMAN	318-346	29	2	B:268-296 D:268-296	29 29
2.14b	ENST00000356489	14b	ENSE00001409003	chr6:81053381-81053529	149	ODBB_HUMAN	347-392	46	2	B:297-342 D:297-342	46 46
2.14d	ENST00000356489	14d	ENSE00001417653	chr6:81055692-81055971	280	ODBB_HUMAN	-	0	0	-	-

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:383
 aligned with ODBA_HUMAN | P12694 from UniProtKB/Swiss-Prot  Length:445

    Alignment length:395
                                    60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440     
           ODBA_HUMAN    51 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKEKVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHVGSAAALDNTDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKERHFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHSTSDDSSAYRSVDEVNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK 445
               SCOP domains d2j9fa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 2j9fA00 A:6-400  [code=3.40.50.970, no name defined]                                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee...............ee..........hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh.....eee....hhhhhhhh..hhhhhhhhhhh..............................hhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh...eeeeeee..ee..ee.hhh.....hhhhhhhhh.eeeeee..hhhhhhhhhhhhhhhhhhhh..eeeeee...........hhhhh------------.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------M-------W------------------------------K--------------------M--------V--------------------------------T------------------------------------R-----------------------------------T----------------------------------------------------------------------------------C---C------------------------N------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2a  PDB: A:6-51 UniProt: 37-96         Exon 1.3  PDB: A:52-80       Exon 1.4  PDB: A:81-117              -----------------------------------------------------Exon 1.6  PDB: A:171-240 UniProt: 216-285                             ----------------------------------------------Exon 1.8b  PDB: A:287-344 (gaps) UniProt: 332-389         Exon 1.9b  PDB: A:345-400 UniProt: 390-445               Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------------------------------------------------Exon 1.5  PDB: A:117-171 UniProt: 162-216              --------------------------------------------------------------------Exon 1.7b  PDB: A:240-287 UniProt: 285-332      ----------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2j9f A   6 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKEKVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHVGSAAALDNTDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKERHFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHSTSDDSSAY------------DHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK 400
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295    |    -       315       325       335       345       355       365       375       385       395     
                                                                                                                                                                                                                                                                                                                                300          313

Chain B from PDB  Type:PROTEIN  Length:330
 aligned with ODBB_HUMAN | P21953 from UniProtKB/Swiss-Prot  Length:392

    Alignment length:330
                                                                                                                                                                                                                                                                                                                                                                  392 
                                    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        |-
           ODBB_HUMAN    64 EYGQTQKMNLFQSVTSALDNSLAKDPTAVIFGEDVAFGGVFRCTVGLRDKYGKDRVFNTPLCEQGIVGFGIGIAVTGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGDLFNCGSLTIRSPWGCVGHGALYHSQSPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFFEPKILYRAAAEEVPIEPYNIPLSQAEVIQEGSDVTLVAWGTQVHVIREVASMAKEKLGVSCEVIDLRTIIPWDVDTICKSVIKTGRLLISHEAPLTGGFASEISSTVQEECFLNLEAPISRVCGYDTPFPHIFEPFYIPDKWKCYDALRKMINY-   -
               SCOP domains d2j9fb1 B:14-204 automated matches                                                                                                                                                             d2j9fb2 B:205-343 automated matches                                                                                                         SCOP domains
               CATH domains ---2j9fB01 B:17-213  [code=3.40.50.970, no name defined]                                                                                                                                                2j9fB02 B:214-338  [code=3.40.50.920, no name defined]                                                                       ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeehhhhhhhhhhhhhhhhh...eeee.............hhhhhhh...eee...hhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhh...hhhhhh........eeeeeee.....hhhhh...hhhhhhh....eee...hhhhhhhhhhhhhhh...eeeeee.hhh....eeee...........eeee....eeeee..hhhhhhhhhhhhhhhhhh..eeeee..eee..hhhhhhhhhhhhh.eeeeeeee...hhhhhhhhhhhhhhh.......eeeee........hhhhhh.hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------H------------P----------------------R-----------------------------------------------------------------------S-------------------------------------------------------------------R----------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 2 (1) 2.1-------------------------Exon 2.4  PDB: B:42-65  --------------------------------------------Exon 2.7  PDB: B:110-161 UniProt: 160-211           ------------------------------------Exon 2.10  PDB: B:198-230        Exon 2.11  PDB: B:231-267            Exon 2.13b  PDB: B:268-296   Exon 2.14b  PDB: B:297-342 UniProt: 347-392   - Transcript 2 (1)
           Transcript 2 (2) --Exon 2.3  PDB: B:16-42     ----------------------Exon 2.6  PDB: B:65-109 UniProt: 115-159     ----------------------------------------------------Exon 2.9  PDB: B:162-198             ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 2 (2)
                 2j9f B  14 EYGQTQKMNLFQSVTSALDNSLAKDPTAVIFGEDVAFGGVFRCTVGLRDKYGKDRVFNTPLCEQGIVGFGIGIAVTGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGDLFNCGSLTIRSPWGCVGHGALYHSQSPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFFEPKILYRAAAEEVPIEPYNIPLSQAEVIQEGSDVTLVAWGTQVHVIREVASMAKEKLGVSCEVIDLRTIIPWDVDTICKSVIKTGRLLISHEAPLTGGFASEISSTVQEECFLNLEAPISRVCGYDTPFPHIFEPFYIPDKWKCYDALRKMINYG 343
                                    23        33        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

Chain C from PDB  Type:PROTEIN  Length:383
 aligned with ODBA_HUMAN | P12694 from UniProtKB/Swiss-Prot  Length:445

    Alignment length:395
                                    60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440     
           ODBA_HUMAN    51 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKEKVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHVGSAAALDNTDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKERHFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHSTSDDSSAYRSVDEVNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK 445
               SCOP domains d2j9fc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 2j9fC00 C:6-400  [code=3.40.50.970, no name defined]                                                                                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........ee...............ee..........hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh.....eee....hhhhhhhh..hhhhhhhhhhh..............................hhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhh...eeeeeee..ee..eehhhhh....hhhhhhhhh.eeeeee..hhhhhhhhhhhhhhhhhhhh..eeeeee...........hhhhh------------.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------M-------W------------------------------K--------------------M--------V--------------------------------T------------------------------------R-----------------------------------T----------------------------------------------------------------------------------C---C------------------------N------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2a  PDB: C:6-51 UniProt: 37-96         Exon 1.3  PDB: C:52-80       Exon 1.4  PDB: C:81-117              -----------------------------------------------------Exon 1.6  PDB: C:171-240 UniProt: 216-285                             ----------------------------------------------Exon 1.8b  PDB: C:287-344 (gaps) UniProt: 332-389         Exon 1.9b  PDB: C:345-400 UniProt: 390-445               Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------------------------------------------------------Exon 1.5  PDB: C:117-171 UniProt: 162-216              --------------------------------------------------------------------Exon 1.7b  PDB: C:240-287 UniProt: 285-332      ----------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2j9f C   6 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKEKVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHVGSAAALDNTDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKERHFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHSTSDDSSAY------------DHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK 400
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295    |    -       315       325       335       345       355       365       375       385       395     
                                                                                                                                                                                                                                                                                                                                300          313

Chain D from PDB  Type:PROTEIN  Length:330
 aligned with ODBB_HUMAN | P21953 from UniProtKB/Swiss-Prot  Length:392

    Alignment length:330
                                                                                                                                                                                                                                                                                                                                                                  392 
                                    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        |-
           ODBB_HUMAN    64 EYGQTQKMNLFQSVTSALDNSLAKDPTAVIFGEDVAFGGVFRCTVGLRDKYGKDRVFNTPLCEQGIVGFGIGIAVTGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGDLFNCGSLTIRSPWGCVGHGALYHSQSPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFFEPKILYRAAAEEVPIEPYNIPLSQAEVIQEGSDVTLVAWGTQVHVIREVASMAKEKLGVSCEVIDLRTIIPWDVDTICKSVIKTGRLLISHEAPLTGGFASEISSTVQEECFLNLEAPISRVCGYDTPFPHIFEPFYIPDKWKCYDALRKMINY-   -
               SCOP domains d2j9fd1 D:14-204 automated matches                                                                                                                                                             d2j9fd2 D:205-343 automated matches                                                                                                         SCOP domains
               CATH domains ---2j9fD01 D:17-213  [code=3.40.50.970, no name defined]                                                                                                                                                2j9fD02 D:214-338  [code=3.40.50.920, no name defined]                                                                       ----- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeehhhhhhhhhhhhhhhhh...eeee.............hhhhhhh...eee...hhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhhhhhh........eeeeeee.....hhhhh...hhhhhhh....eee...hhhhhhhhhhhhhhh...eeeeee.hhh....eeee...........eeee....eeeee..hhhhhhhhhhhhhhhhhh..eeeee..eee..hhhhhhhhhhhhh.eeeeeeee...hhhhhhhhhhhhhh........eeeee........hhhhhh.hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------H------------P----------------------R-----------------------------------------------------------------------S-------------------------------------------------------------------R----------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 2 (1) 2.1-------------------------Exon 2.4  PDB: D:42-65  --------------------------------------------Exon 2.7  PDB: D:110-161 UniProt: 160-211           ------------------------------------Exon 2.10  PDB: D:198-230        Exon 2.11  PDB: D:231-267            Exon 2.13b  PDB: D:268-296   Exon 2.14b  PDB: D:297-342 UniProt: 347-392   - Transcript 2 (1)
           Transcript 2 (2) --Exon 2.3  PDB: D:16-42     ----------------------Exon 2.6  PDB: D:65-109 UniProt: 115-159     ----------------------------------------------------Exon 2.9  PDB: D:162-198             ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 2 (2)
                 2j9f D  14 EYGQTQKMNLFQSVTSALDNSLAKDPTAVIFGEDVAFGGVFRCTVGLRDKYGKDRVFNTPLCEQGIVGFGIGIAVTGATAIAEIQFADYIFPAFDQIVNEAAKYRYRSGDLFNCGSLTIRSPWGCVGHGALYHSQSPEAFFAHCPGIKVVIPRSPFQAKGLLLSCIEDKNPCIFFEPKILYRAAAEEVPIEPYNIPLSQAEVIQEGSDVTLVAWGTQVHVIREVASMAKEKLGVSCEVIDLRTIIPWDVDTICKSVIKTGRLLISHEAPLTGGFASEISSTVQEECFLNLEAPISRVCGYDTPFPHIFEPFYIPDKWKCYDALRKMINYG 343
                                    23        33        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

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: [code=3.40.50.920, no name defined] (73)

Human (Homo sapiens) (31)

1a	2j9fB02	B:214-338
1b	2j9fD02	D:214-338

Homologous Superfamily: [code=3.40.50.970, no name defined] (144)

Human (Homo sapiens) (31)

2a	2j9fB01	B:17-213
2b	2j9fD01	D:17-213
2c	2j9fA00	A:6-400
2d	2j9fC00	C:6-400

(no "Pfam Domain" information available for 2J9F)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,C (ODBA_HUMAN | P12694)

molecular function
	GO:0003863	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity	Catalysis of the reaction: 3-methyl-2-oxobutanoate + lipoamide = S-(2-methylpropanoyl)dihydrolipoamide + CO2.
	GO:0003826	alpha-ketoacid dehydrogenase activity	Catalysis of an oxidation-reduction (redox) reaction involving an alpha-ketoacid.
	GO:0016831	carboxy-lyase activity	Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0016624	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor	Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces a disulfide.
	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).
biological process
	GO:0009083	branched-chain amino acid catabolic process	The chemical reactions and pathways resulting in the breakdown of amino acids containing a branched carbon skeleton, comprising isoleucine, leucine and valine.
	GO:0046487	glyoxylate metabolic process	The chemical reactions and pathways involving glyoxylate, the anion of glyoxylic acid, HOC-COOH.
	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.
cellular component
	GO:0005947	mitochondrial alpha-ketoglutarate dehydrogenase complex	Mitochondrial complex that possesses alpha-ketoglutarate dehydrogenase activity.
	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.

Chain B,D (ODBB_HUMAN | P21953)

molecular function
	GO:0003863	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity	Catalysis of the reaction: 3-methyl-2-oxobutanoate + lipoamide = S-(2-methylpropanoyl)dihydrolipoamide + CO2.
	GO:0003826	alpha-ketoacid dehydrogenase activity	Catalysis of an oxidation-reduction (redox) reaction involving an alpha-ketoacid.
	GO:0016831	carboxy-lyase activity	Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
	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: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).
biological process
	GO:0009083	branched-chain amino acid catabolic process	The chemical reactions and pathways resulting in the breakdown of amino acids containing a branched carbon skeleton, comprising isoleucine, leucine and valine.
	GO:0046487	glyoxylate metabolic process	The chemical reactions and pathways involving glyoxylate, the anion of glyoxylic acid, HOC-COOH.
	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.
cellular component
	GO:0005947	mitochondrial alpha-ketoglutarate dehydrogenase complex	Mitochondrial complex that possesses alpha-ketoglutarate dehydrogenase activity.
	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
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		GOL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		K	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		THV	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ile B:258 - Pro B:259	[ RasMol ]
		Ile D:258 - Pro D:259	[ RasMol ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2j9f
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	ODBA_HUMAN \| P12694
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	ODBB_HUMAN \| P21953
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	1.2.4.4
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	248600
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	ODBA_HUMAN \| P12694
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	ODBB_HUMAN \| P21953
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

1dtw	HUMAN BRANCHED-CHAIN ALPHA-KETO ACID DEHYDROGENASE
1ols	ROLES OF HIS291-ALPHA AND HIS146-BETA' IN THE REDUCTIVE ACYLATION REACTION CATALYZED BY HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE
1olu	ROLES OF HIS291-ALPHA AND HIS146-BETA' IN THE REDUCTIVE ACYLATION REACTION CATALYZED BY HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE
1olx	ROLES OF HIS291-ALPHA AND HIS146-BETA' IN THE REDUCTIVE ACYLATION REACTION CATALYZED BY HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE
1u5b	CRYSTAL STRUCTURE OF THE HUMAN MITOCHONDRIAL BRANCHED- CHAINALPHA-KETOACID DEHYDROGENASE
1v11	CROSSTALK BETWEEN COFACTOR BINDING AND THE PHOSPHORYLATION LOOP CONFORMATION IN THE BCKD MACHINE
1v16	CROSSTALK BETWEEN COFACTOR BINDING AND THE PHOSPHORYLATION LOOP CONFORMATION IN THE BCKD MACHINE
1v1m	CROSSTALK BETWEEN COFACTOR BINDING AND THE PHOSPHORYLATION LOOP CONFORMATION IN THE BCKD MACHINE
1v1r	CROSSTALK BETWEEN COFACTOR BINDING AND THE PHOSPHORYLATION LOOP CONFORMATION IN THE BCKD MACHINE
1wci	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
1x7w	CRYSTAL STRUCTURE OF THE HUMAN MITOCHONDRIAL BRANCHED- CHAINALPHA-KETOACID DEHYDROGENASE
1x7x	CRYSTAL STRUCTURE OF THE HUMAN MITOCHONDRIAL BRANCHED- CHAINALPHA-KETOACID DEHYDROGENASE
1x7y	CRYSTAL STRUCTURE OF THE HUMAN MITOCHONDRIAL BRANCHED- CHAINALPHA-KETOACID DEHYDROGENASE
1x7z	CRYSTAL STRUCTURE OF THE HUMAN MITOCHONDRIAL BRANCHED- CHAINALPHA-KETOACID DEHYDROGENASE
1x80	CRYSTAL STRUCTURE OF THE HUMAN MITOCHONDRIAL BRANCHED- CHAINALPHA-KETOACID DEHYDROGENASE
2beu	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bev	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bew	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bfb	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bfc	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bfd	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bfe	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH
2bff	REACTIVITY MODULATION OF HUMAN BRANCHED-CHAIN ALPHA- KETOACID DEHYDROGENASE BY AN INTERNAL MOLECULAR SWITCH

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (16, 32)

PROSITE Motifs (0, 0)

Exons (18, 36)

Sequences/Alignments

Classification and Annotation

SCOP Domains (3, 6)

CATH Domains (2, 6)

Pfam Domains (0, 0)

Gene Ontology (15, 27)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File