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Asymmetric Unit (Jmol Viewer)

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   COMPLEX II (SUCCINATE DEHYDROGENASE) FROM E. COLI WITH UBIQUINONE BOUND

Authors :   V. Yankovskaya, R. Horsefield, S. Tornroth, C. Luna-Chavez, H. Miyoshi, C. Leger, B. Byrne, G. Cecchini, S. Iwata

Date :   11 Dec 02 (Deposition) - 25 Feb 03 (Release) - 31 Mar 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Membrane Protein, Oxygen Respiratory Chain, Oxidoreductase/Electron Transport Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. Yankovskaya, R. Horsefield, S. Tornroth, C. Luna-Chavez, H. Miyoshi, C. Leger, B. Byrne, G. Cecchini, S. Iwata
Architecture Of Succinate Dehydrogenase And Reactive Oxygen Species Generation.
Science V. 299 700 2003
PubMed-ID: 12560550 | Reference-DOI: 10.1126/SCIENCE.1079605
(for further references see the PDB file header)

Molecule 1 - SUCCINATE DEHYDROGENASE FLAVOPROTEIN SUBUNIT
	Chains	:	A
	EC Number	:	1.3.99.1, 1.3.5.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PFAS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SDHA OR B0723 OR Z0877 OR ECS0748
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

Molecule 2 - SUCCINATE DEHYDROGENASE IRON-SULFUR PROTEIN
	Chains	:	B
	EC Number	:	1.3.99.1, 1.3.5.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PFAS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SDHB OR B0724
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

Molecule 3 - SUCCINATE DEHYDROGENASE CYTOCHROME B-556 SUBUNIT
	Chains	:	C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PFAS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SDHC OR CYBA OR B0721 OR Z0875 OR ECS0746
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

Molecule 4 - SUCCINATE DEHYDROGENASE HYDROPHOBIC MEMBRANE ANCHOR PROTEIN
	Chains	:	D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PFAS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SDHD OR B0722
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (10, 11)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	CDN	1	Ligand/Ion	CARDIOLIPIN
3	EPH	1	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
4	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
5	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
6	FES	1	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
7	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
8	OAA	1	Ligand/Ion	OXALOACETATE ION
9	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
10	UQ2	1	Ligand/Ion	UBIQUINONE-2

Biological Unit 1 (9, 9)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CDN	1	Ligand/Ion	CARDIOLIPIN
3	EPH	1	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
4	F3S	1	Ligand/Ion	FE3-S4 CLUSTER
5	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
6	FES	1	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
7	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
8	OAA	1	Ligand/Ion	OXALOACETATE ION
9	SF4	1	Ligand/Ion	IRON/SULFUR CLUSTER
10	UQ2	1	Ligand/Ion	UBIQUINONE-2

Biological Unit 2 (9, 27)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CDN	3	Ligand/Ion	CARDIOLIPIN
3	EPH	3	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
4	F3S	3	Ligand/Ion	FE3-S4 CLUSTER
5	FAD	3	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
6	FES	3	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
7	HEM	3	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
8	OAA	3	Ligand/Ion	OXALOACETATE ION
9	SF4	3	Ligand/Ion	IRON/SULFUR CLUSTER
10	UQ2	3	Ligand/Ion	UBIQUINONE-2

Biological Unit 3 (9, 18)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CDN	2	Ligand/Ion	CARDIOLIPIN
3	EPH	2	Ligand/Ion	L-ALPHA-PHOSPHATIDYL-BETA-OLEOYL-GAMMA-PALMITOYL-PHOSPHATIDYLETHANOLAMINE
4	F3S	2	Ligand/Ion	FE3-S4 CLUSTER
5	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE
6	FES	2	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
7	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
8	OAA	2	Ligand/Ion	OXALOACETATE ION
9	SF4	2	Ligand/Ion	IRON/SULFUR CLUSTER
10	UQ2	2	Ligand/Ion	UBIQUINONE-2

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLY A:51 , PHE A:126 , HIS A:242 , THR A:254 , GLU A:255 , ARG A:286 , HIS A:354 , ARG A:399 , GLY A:401 , GLY A:402 , FAD A:601 , HOH A:614	BINDING SITE FOR RESIDUE OAA A 589
02	AC2	SOFTWARE	TYR A:355 , MET A:356 , MET A:357 , GLY A:358 , GLU A:388 , ALA A:390	BINDING SITE FOR RESIDUE CA A 590
03	AC3	SOFTWARE	ASP B:187 , THR B:190	BINDING SITE FOR RESIDUE CA B 311
04	AC4	SOFTWARE	GLY A:14 , ALA A:15 , GLY A:16 , GLY A:17 , ALA A:18 , SER A:37 , LYS A:38 , SER A:44 , HIS A:45 , THR A:46 , SER A:48 , ALA A:49 , GLN A:50 , GLY A:51 , GLY A:52 , TRP A:164 , TYR A:165 , ALA A:166 , ALA A:201 , THR A:202 , GLY A:203 , THR A:213 , ASN A:214 , ASP A:221 , LEU A:252 , TYR A:355 , GLY A:387 , GLU A:388 , ARG A:399 , GLY A:402 , ASN A:403 , SER A:404 , LEU A:405 , LEU A:408 , OAA A:589 , HOH A:617	BINDING SITE FOR RESIDUE FAD A 601
05	AC5	SOFTWARE	SER B:54 , CYS B:55 , ARG B:56 , GLY B:58 , VAL B:59 , CYS B:60 , GLY B:61 , ASP B:63 , CYS B:75	BINDING SITE FOR RESIDUE FES B 302
06	AC6	SOFTWARE	CYS B:149 , ILE B:150 , CYS B:152 , ALA B:153 , CYS B:155 , ALA B:173 , CYS B:216 , LEU B:220	BINDING SITE FOR RESIDUE SF4 B 303
07	AC7	SOFTWARE	CYS B:159 , PRO B:172 , CYS B:206 , HIS B:207 , SER B:208 , ILE B:209 , MET B:210 , ASN B:211 , CYS B:212 , THR B:223	BINDING SITE FOR RESIDUE F3S B 304
08	AC8	SOFTWARE	HIS B:207 , HIS C:30 , ARG C:31 , GLY C:34 , THR C:37 , PHE C:38 , HIS C:84 , VAL C:85 , GLY C:88 , ILE C:89 , CDN C:308 , HOH C:311 , ALA D:23 , THR D:27 , ILE D:68 , HIS D:71 , GLY D:75 , MET D:76 , GLN D:78	BINDING SITE FOR RESIDUE HEM C 305
09	AC9	SOFTWARE	TRP B:164 , ILE B:209 , LEU C:15 , PHE C:20 , SER C:27 , ILE C:28 , TYR D:83	BINDING SITE FOR RESIDUE UQ2 D 306
10	BC1	SOFTWARE	VAL C:41 , LEU C:44 , SER C:51 , ALA C:61 , SER C:62 , LEU C:78 , VAL C:115 , LEU C:123 , VAL C:126 , LEU C:127 , TRP C:129 , HEM C:305 , EPH C:309 , ILE D:30 , PHE D:37 , GLY D:41 , LEU D:43 , TRP D:48 , ILE D:68 , HOH D:315	BINDING SITE FOR RESIDUE CDN C 308
11	BC2	SOFTWARE	LYS C:107 , LYS C:111 , TRP C:129 , CDN C:308	BINDING SITE FOR RESIDUE EPH C 309

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

(no "Cis Peptide Bond" information available for 1NEK)

(no "SAP(SNP)/Variant" information available for 1NEK)

Asymmetric Unit (6, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	2FE2S_FER_2	PS51085	2Fe-2S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	8-97	1	B:8-97
2	SDH_CYT_1	PS01000	Succinate dehydrogenase cytochrome b subunit signature 1.	DHSC_ECOLI	9-33	1	C:9-33
3	FRD_SDH_FAD_BINDING	PS00504	Fumarate reductase / succinate dehydrogenase FAD-binding site.	SDHA_ECOLI	43-52	1	A:43-52
4	SDH_CYT_2	PS01001	Succinate dehydrogenase cytochrome b subunit signature 2.	DHSC_ECOLI	84-97	1	C:84-97
5	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	139-169	1	B:139-169
6	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	SDHB_ECOLI	149-160	1	B:149-160

Biological Unit 1 (6, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	2FE2S_FER_2	PS51085	2Fe-2S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	8-97	1	B:8-97
2	SDH_CYT_1	PS01000	Succinate dehydrogenase cytochrome b subunit signature 1.	DHSC_ECOLI	9-33	1	C:9-33
3	FRD_SDH_FAD_BINDING	PS00504	Fumarate reductase / succinate dehydrogenase FAD-binding site.	SDHA_ECOLI	43-52	1	A:43-52
4	SDH_CYT_2	PS01001	Succinate dehydrogenase cytochrome b subunit signature 2.	DHSC_ECOLI	84-97	1	C:84-97
5	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	139-169	1	B:139-169
6	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	SDHB_ECOLI	149-160	1	B:149-160

Biological Unit 2 (6, 18)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	2FE2S_FER_2	PS51085	2Fe-2S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	8-97	3	B:8-97
2	SDH_CYT_1	PS01000	Succinate dehydrogenase cytochrome b subunit signature 1.	DHSC_ECOLI	9-33	3	C:9-33
3	FRD_SDH_FAD_BINDING	PS00504	Fumarate reductase / succinate dehydrogenase FAD-binding site.	SDHA_ECOLI	43-52	3	A:43-52
4	SDH_CYT_2	PS01001	Succinate dehydrogenase cytochrome b subunit signature 2.	DHSC_ECOLI	84-97	3	C:84-97
5	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	139-169	3	B:139-169
6	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	SDHB_ECOLI	149-160	3	B:149-160

Biological Unit 3 (6, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	2FE2S_FER_2	PS51085	2Fe-2S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	8-97	2	B:8-97
2	SDH_CYT_1	PS01000	Succinate dehydrogenase cytochrome b subunit signature 1.	DHSC_ECOLI	9-33	2	C:9-33
3	FRD_SDH_FAD_BINDING	PS00504	Fumarate reductase / succinate dehydrogenase FAD-binding site.	SDHA_ECOLI	43-52	2	A:43-52
4	SDH_CYT_2	PS01001	Succinate dehydrogenase cytochrome b subunit signature 2.	DHSC_ECOLI	84-97	2	C:84-97
5	4FE4S_FER_2	PS51379	4Fe-4S ferredoxin-type iron-sulfur binding domain profile.	SDHB_ECOLI	139-169	2	B:139-169
6	4FE4S_FER_1	PS00198	4Fe-4S ferredoxin-type iron-sulfur binding region signature.	SDHB_ECOLI	149-160	2	B:149-160

(no "Exon" information available for 1NEK)

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:588
 aligned with SDHA_ECOLI | P0AC41 from UniProtKB/Swiss-Prot  Length:588

    Alignment length:588
                                    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       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580        
           SDHA_ECOLI     1 MKLPVREFDAVVIGAGGAGMRAALQISQSGQTCALLSKVFPTRSHTVSAQGGITVALGNTHEDNWEWHMYDTVKGSDYIGDQDAIEYMCKTGPEAILELEHMGLPFSRLDDGRIYQRPFGGQSKNFGGEQAARTAAAADRTGHALLHTLYQQNLKNHTTIFSEWYALDLVKNQDGAVVGCTALCIETGEVVYFKARATVLATGGAGRIYQSTTNAHINTGDGVGMAIRAGVPVQDMEMWQFHPTGIAGAGVLVTEGCRGEGGYLLNKHGERFMERYAPNAKDLAGRDVVARSIMIEIREGRGCDGPWGPHAKLKLDHLGKEVLESRLPGILELSRTFAHVDPVKEPIPVIPTCHYMMGGIPTKVTGQALTVNEKGEDVVVPGLFAVGEIACVSVHGANRLGGNSLLDLVVFGRAAGLHLQESIAEQGALRDASESDVEASLDRLNRWNNNRNGEDPVAIRKALQECMQHNFSVFREGDAMAKGLEQLKVIRERLKNARLDDTSSEFNTQRVECLELDNLMETAYATAVSANFRTESRGAHSRFDFPDRDDENWLCHSLYLPESESMTRRSVNMEPKLRPAFPPKIRTY 588
               SCOP domains d1neka2 A:1-235,A:356-450 Succinate dehydogenase                                                                                                                                                                                           d1neka3 A:236-355 Succinate dehydogenase                                                                                d1neka2 A:1-235,A:356-450 Succinate dehydogenase                                               d1neka1 A:451-588 Succinate dehydogenase                                                                                                   SCOP domains
               CATH domains 1nekA01 A:1-245,A:351-430  [code=3.50.50.60, no name defined]                                                                                                                                                                                        1nekA02 A:246-350 Flavocytochrome C3; Chain A, domain 1                                                  1nekA01 A:1-245,A:351-430  [code=3.50.50.60, no name defined]                   1nekA03 A:431-547  [code=1.20.58.100, no name defined]                                                               1nekA04 A:548-588                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeee..eee..hhhhhhhhhhhhhh....eee...hhhhhhhhhh...ee.........hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh....................eee......eeee....hhhhhhhhhhhhhhhhh..eee..eeeeeeee.....eeeeeeee.....eeeeee..eee....hhhhh..........hhhhhhhhh....ee....eeeeeeee........hhhhhhh.eee.....hhhhhhh..hhhhhhhhhhhhhhhhhhhh...........eeee....hhhhhhhhhhhhhhhhhhhhh.......eeeeeeeeee...ee.....eeeee.....eeeeeeeee....ee..........hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh..eehhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.......ee...............eee.......eee.................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (2) ------------------------------------------FRD_SDH_FA-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1nek A   1 MKLPVREFDAVVIGAGGAGMRAALQISQSGQTCALLSKVFPTRSHTVSAQGGITVALGNTHEDNWEWHMYDTVKGSDYIGDQDAIEYMCKTGPEAILELEHMGLPFSRLDDGRIYQRPFGGQSKNFGGEQAARTAAAADRTGHALLHTLYQQNLKNHTTIFSEWYALDLVKNQDGAVVGCTALCIETGEVVYFKARATVLATGGAGRIYQSTTNAHINTGDGVGMAIRAGVPVQDMEMWQFHPTGIAGAGVLVTEGCRGEGGYLLNKHGERFMERYAPNAKDLAGRDVVARSIMIEIREGRGCDGPWGPHAKLKLDHLGKEVLESRLPGILELSRTFAHVDPVKEPIPVIPTCHYMMGGIPTKVTGQALTVNEKGEDVVVPGLFAVGEIACVSVHGANRLGGNSLLDLVVFGRAAGLHLQESIAEQGALRDASESDVEASLDRLNRWNNNRNGEDPVAIRKALQECMQHNFSVFREGDAMAKGLEQLKVIRERLKNARLDDTSSEFNTQRVECLELDNLMETAYATAVSANFRTESRGAHSRFDFPDRDDENWLCHSLYLPESESMTRRSVNMEPKLRPAFPPKIRTY 588
                                    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       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580

Chain B from PDB  Type:PROTEIN  Length:238
 aligned with SDHB_ECOLI | P07014 from UniProtKB/Swiss-Prot  Length:238

    Alignment length:238
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230        
           SDHB_ECOLI     1 MRLEFSIYRYNPDVDDAPRMQDYTLEADEGRDMMLLDALIQLKEKDPSLSFRRSCREGVCGSDGLNMNGKNGLACITPISALNQPGKKIVIRPLPGLPVIRDLVVDMGQFYAQYEKIKPYLLNNGQNPPAREHLQMPEQREKLDGLYECILCACCSTSCPSFWWNPDKFIGPAGLLAAYRFLIDSRDTETDSRLDGLSDAFSVFRCHSIMNCVSVCPKGLNPTRAIGHIKSMLLQRNA 238
               SCOP domains d1nekb2 B:1-106 Succinate dehydogenase iron-sulfur protein, N-terminal domain                             d1nekb1 B:107-238 Succinate dehydogenase                                                                                             SCOP domains
               CATH domains 1nekB01 B:1-106  [code=3.10.20.30, no name defined]                                                       1nekB02 B:107-238 Fumarate Reductase Iron-sulfur Protein; Chain B, domain 2                                                          CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.........eeeeee.........hhhhhhhhhhhhh.................eeee..eeee...............eeee......eee..ee.hhhhhhhhhhh..................hhhhhhh..........hhhhhhhhhhhhh.....hhhhhhhhhhhhh.....hhhhhhhh.............hhhhhhh....hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -------2FE2S_FER_2  PDB: B:8-97 UniProt: 8-97                                                    -----------------------------------------4FE4S_FER_2  PDB: B:139-169    --------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------------------------------------------------------------------------4FE4S_FER_1 ------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nek B   1 MRLEFSIYRYNPDVDDAPRMQDYTLEADEGRDMMLLDALIQLKEKDPSLSFRRSCREGVCGSDGLNMNGKNGLACITPISALNQPGKKIVIRPLPGLPVIRDLVVDMGQFYAQYEKIKPYLLNNGQNPPAREHLQMPEQREKLDGLYECILCACCSTSCPSFWWNPDKFIGPAGLLAAYRFLIDSRDTETDSRLDGLSDAFSVFRCHSIMNCVSVCPKGLNPTRAIGHIKSMLLQRNA 238
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230

Chain C from PDB  Type:PROTEIN  Length:129
 aligned with DHSC_ECOLI | P69054 from UniProtKB/Swiss-Prot  Length:129

    Alignment length:129
                                    10        20        30        40        50        60        70        80        90       100       110       120         
           DHSC_ECOLI     1 MIRNVKKQRPVNLDLQTIRFPITAIASILHRVSGVITFVAVGILLWLLGTSLSSPEGFEQASAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFGYLEETFEAGKRSAKISFVITVVLSLLAGVLVW 129
               SCOP domains d1nekc_ C: Succinate dehydrogenase subunit SdhC                                                                                   SCOP domains
               CATH domains 1nekC00 C:1-129 Fumarate reductase respiratory complex transmembrane subunits                                                     CATH domains
               Pfam domains ----Sdh_cyt-1nekC01 C:5-124                                                                                                 ----- Pfam domains
         Sec.struct. author .............hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) --------SDH_CYT_1  PDB: C:9-33   --------------------------------------------------SDH_CYT_2     -------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nek C   1 MIRNVKKQRPVNLDLQTIRFPITAIASILHRVSGVITFVAVGILLWLLGTSLSSPEGFEQASAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFGYLEETFEAGKRSAKISFVITVVLSLLAGVLVW 129
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain D from PDB  Type:PROTEIN  Length:113
 aligned with DHSD_ECOLI | P0AC44 from UniProtKB/Swiss-Prot  Length:115

    Alignment length:113
                                    12        22        32        42        52        62        72        82        92       102       112   
           DHSD_ECOLI     3 SNASALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTDYVKPLALRLMLQLVIVVALVVYVIYGFVVVWGV 115
               SCOP domains d1nekd_ D: Succinate dehydrogenase subunit SdhD                                                                   SCOP domains
               CATH domains --------1nekD01 D:11-115 Fumarate reductase respiratory complex transmembrane subunits                            CATH domains
               Pfam domains Sdh_cyt-1nekD01 D:3-113                                                                                        -- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1nek D   3 SNASALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELTYEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTDYVKPLALRLMLQLVIVVALVVYVIYGFVVVWGV 115
                                    12        22        32        42        52        62        72        82        92       102       112

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: FumRed-TM (17)

Family: Sdh_cyt (10)

Escherichia coli (strain K12) (8)

1a	Sdh_cyt-1nekC01	C:5-124
1b	Sdh_cyt-1nekD01	D:3-113

Asymmetric Unit(hide GO term definitions)

Chain A (SDHA_ECOLI | P0AC41)

molecular function
	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:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	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:0016627	oxidoreductase activity, acting on the CH-CH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
	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:0008177	succinate dehydrogenase (ubiquinone) activity	Catalysis of the reaction: succinate + ubiquinone = fumarate + ubiquinol.
	GO:0000104	succinate dehydrogenase activity	Catalysis of the reaction: succinate + acceptor = fumarate + reduced acceptor.
biological process
	GO:0009060	aerobic respiration	The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
	GO:0022900	electron transport chain	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: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:0006099	tricarboxylic acid cycle	A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.
cellular component
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
	GO:0045282	plasma membrane succinate dehydrogenase complex	A multimeric complex which consists of flavoprotein (subunit A ; InterPro:IPR003952), iron-sulfur protein (subunit B) and membrane-bound cytochrome b560 (subunit C; InterPro:IPR000701). In some Archaea, the membrane-bound subunits (C or C and D) do not necessarily contain heme. Membrane-bound subunits can bind/react with quinones. Examples of this component are found in Bacterial species.

Chain B (SDHB_ECOLI | P07014)

molecular function
	GO:0051537	2 iron, 2 sulfur cluster binding	Interacting selectively and non-covalently with a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
	GO:0051538	3 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 3 iron, 4 sulfur (3Fe-4S) cluster; this cluster consists of three iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands. It is essentially a 4Fe-4S cluster with one iron missing.
	GO:0051539	4 iron, 4 sulfur cluster binding	Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
	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:0051536	iron-sulfur cluster binding	Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
	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: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:0008177	succinate dehydrogenase (ubiquinone) activity	Catalysis of the reaction: succinate + ubiquinone = fumarate + ubiquinol.
biological process
	GO:0009060	aerobic respiration	The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
	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:0006099	tricarboxylic acid cycle	A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.
cellular component
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain C (DHSC_ECOLI | P69054)

molecular function
	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:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
	GO:0008177	succinate dehydrogenase (ubiquinone) activity	Catalysis of the reaction: succinate + ubiquinone = fumarate + ubiquinol.
	GO:0000104	succinate dehydrogenase activity	Catalysis of the reaction: succinate + acceptor = fumarate + reduced acceptor.
	GO:0048039	ubiquinone binding	Interacting selectively and non-covalently with ubiquinone, a quinone derivative with a tail of isoprene units.
biological process
	GO:0009060	aerobic respiration	The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
	GO:0017004	cytochrome complex assembly	The aggregation, arrangement and bonding together of a cytochrome complex. A cytochrome complex is a protein complex in which at least one of the proteins is a cytochrome, i.e. a heme-containing protein involved in catalysis of redox reactions.
	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:0006099	tricarboxylic acid cycle	A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
	GO:0045281	succinate dehydrogenase complex	A multimeric complex which consists of flavoprotein (subunit A ; InterPro:IPR003952), iron-sulfur protein (subunit B) and membrane-bound cytochrome b560 (subunit C; InterPro:IPR000701). In some Archaea, the membrane-bound subunits (C or C and D) do not necessarily contain heme. Membrane-bound subunits can bind or react with quinones.

Chain D (DHSD_ECOLI | P0AC44)

molecular function
	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:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
	GO:0000104	succinate dehydrogenase activity	Catalysis of the reaction: succinate + acceptor = fumarate + reduced acceptor.
biological process
	GO:0009060	aerobic respiration	The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
	GO:0017004	cytochrome complex assembly	The aggregation, arrangement and bonding together of a cytochrome complex. A cytochrome complex is a protein complex in which at least one of the proteins is a cytochrome, i.e. a heme-containing protein involved in catalysis of redox reactions.
	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:0006099	tricarboxylic acid cycle	A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Asymmetric Unit
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	Cis Peptide Bonds
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (10, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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SCOP Domains (7, 7)

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