5LA3 - JenaLib

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Title :   [FEFE]-HYDROGENASE CPI FROM CLOSTRIDIUM PASTEURIANUM, VARIANT E279A

Authors :   J. Duan, J. Esselborn, E. Hofmann, M. Winkler, T. Happe

Date :   13 Jun 16 (Deposition) - 21 Jun 17 (Release) - 21 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.29

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

Keywords :   Hydrogenase, H-Cluster, Oxidoreductase, Semisynthetic Enzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Winkler, M. Senger, J. Duan, F. Wittkamp, U. -P. Apfel, E. Hofmann, S. T. Stripp, T. Happe
Targeting The Missing Piece In The Catalytic Cycle Of [Fefe]-Hydrogenase
To Be Published
PubMed: search

Molecule 1 - IRON HYDROGENASE 1
	Chains	:	A, B
	EC Number	:	1.12.7.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET21B
	Expression System Taxid	:	469008
	Expression System Variant	:	DISCR
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	CLOSTRIDIUM PASTEURIANUM
	Organism Taxid	:	1501
	Synonym	:	CPI,FE-ONLY HYDROGENASE,[FE] HYDROGENASE

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 14)

No.	Name	Count	Type	Full Name
1	402	2	Ligand/Ion	DICARBONYL[BIS(CYANIDE-KAPPAC)]-MU-(IMINODIMETHANETHIOLATATO-1KAPPAS:2KAPPAS)-MU-(OXOMETHYLIDENE)DIIRON(2+)
2	FES	2	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
3	MG	2	Ligand/Ion	MAGNESIUM ION
4	SF4	8	Ligand/Ion	IRON/SULFUR CLUSTER

Biological Unit 1 (3, 6)

No.	Name	Count	Type	Full Name
1	402	1	Ligand/Ion	DICARBONYL[BIS(CYANIDE-KAPPAC)]-MU-(IMINODIMETHANETHIOLATATO-1KAPPAS:2KAPPAS)-MU-(OXOMETHYLIDENE)DIIRON(2+)
2	FES	1	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	SF4	4	Ligand/Ion	IRON/SULFUR CLUSTER

Biological Unit 2 (3, 6)

No.	Name	Count	Type	Full Name
1	402	1	Ligand/Ion	DICARBONYL[BIS(CYANIDE-KAPPAC)]-MU-(IMINODIMETHANETHIOLATATO-1KAPPAS:2KAPPAS)-MU-(OXOMETHYLIDENE)DIIRON(2+)
2	FES	1	Ligand/Ion	FE2/S2 (INORGANIC) CLUSTER
3	MG	-1	Ligand/Ion	MAGNESIUM ION
4	SF4	4	Ligand/Ion	IRON/SULFUR CLUSTER

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ALA A:230 , PRO A:231 , SER A:232 , ILE A:268 , CYS A:299 , PRO A:324 , GLN A:325 , MET A:353 , PRO A:354 , CYS A:355 , LYS A:358 , PHE A:417 , MET A:497 , CYS A:503 , SF4 A:602	binding site for residue 402 A 601
02	AC2	SOFTWARE	CYS A:300 , PRO A:301 , CYS A:355 , CYS A:499 , CYS A:503 , GLY A:506 , 402 A:601	binding site for residue SF4 A 602
03	AC3	SOFTWARE	CYS A:157 , MET A:166 , CYS A:190 , LEU A:191 , LEU A:192 , CYS A:193 , GLY A:194 , CYS A:196	binding site for residue SF4 A 603
04	AC4	SOFTWARE	CYS A:147 , LEU A:148 , LEU A:149 , CYS A:150 , GLY A:151 , CYS A:153 , ILE A:177 , CYS A:200 , VAL A:202 , ALA A:204 , LEU A:205	binding site for residue SF4 A 604
05	AC5	SOFTWARE	HIS A:94 , GLU A:95 , PHE A:96 , CYS A:98 , CYS A:101 , ARG A:104 , CYS A:107 , LYS A:146 , VAL A:202 , ALA A:203	binding site for residue SF4 A 605
06	AC6	SOFTWARE	LEU A:33 , CYS A:34 , PHE A:35 , LYS A:45 , CYS A:46 , GLU A:47 , CYS A:49 , CYS A:62	binding site for residue FES A 606
07	AC7	SOFTWARE	LEU A:218 , HOH A:748 , HOH A:755 , HOH A:756 , HOH A:792 , HOH A:795	binding site for residue MG A 607
08	AC8	SOFTWARE	ALA B:230 , PRO B:231 , SER B:232 , ILE B:268 , ALA B:272 , CYS B:299 , PRO B:324 , GLN B:325 , MET B:353 , PRO B:354 , CYS B:355 , LYS B:358 , PHE B:417 , GLY B:418 , MET B:497 , CYS B:503 , SF4 B:602	binding site for residue 402 B 601
09	AC9	SOFTWARE	CYS B:300 , PRO B:301 , CYS B:355 , CYS B:499 , CYS B:503 , GLY B:506 , 402 B:601	binding site for residue SF4 B 602
10	AD1	SOFTWARE	CYS B:157 , CYS B:190 , LEU B:191 , LEU B:192 , CYS B:193 , GLY B:194 , CYS B:196	binding site for residue SF4 B 603
11	AD2	SOFTWARE	CYS B:147 , LEU B:148 , LEU B:149 , CYS B:150 , GLY B:151 , CYS B:153 , ILE B:177 , CYS B:200 , VAL B:202 , ALA B:204 , LEU B:205	binding site for residue SF4 B 604
12	AD3	SOFTWARE	HIS B:94 , GLU B:95 , PHE B:96 , LYS B:97 , CYS B:98 , CYS B:101 , CYS B:107 , LYS B:146 , VAL B:202 , ALA B:203	binding site for residue SF4 B 605
13	AD4	SOFTWARE	LEU B:33 , CYS B:34 , PHE B:35 , LYS B:45 , CYS B:46 , GLU B:47 , CYS B:49 , CYS B:62	binding site for residue FES B 606
14	AD5	SOFTWARE	LEU B:218 , HOH B:729 , HOH B:748 , HOH B:791 , HOH B:802 , HOH B:988	binding site for residue MG B 607

(no "SS Bond" information available for 5LA3)

Asymmetric Unit

No.	Residues
1	Gly A:291	-	Pro A:292
2	Phe A:293	-	Pro A:294
3	Gly B:291	-	Pro B:292
4	Phe B:293	-	Pro B:294

(no "SAP(SNP)/Variant" information available for 5LA3)

(no "PROSITE Motif" information available for 5LA3)

(no "Exon" information available for 5LA3)

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:574
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee.....hhhhhhhh........................eeee...eeee.hhh......eee..hhhhhhhhhhhhhhhhh..............hhhhhhhhhhh..........hhhh.ee.....eeee.......hhhhhhhhhhh.....eeeee..eeeeehhhhhhhhhh.....hhhhhhh....eee..hhhhhhhhhhh...eeeeee..hhhhhhhhhhh......hhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhhh.....ee...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...hhh.eeeeeee..hhhhhhhh....ee..ee...eeeehhhhhhhhhhh..hhhhh.....hhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhh.......hhhhh....eeeeeeee..eeeeeeeeehhhhhhhhhhhhhhhh....eeeee....hhhhh........hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.....hhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5la3 A   2 KTIIINGVQFNTDEDTTILKFARDNNIDISALCFLNNCNNDINKCEICTVEVEGTGLVTACDTLIEDGMIINTNSDAVNEKIKSRISQLLDIHEFKCGPCNRRENCEFLKLVIKYKARASKPFLPKDKTEYVDERSKSLTVDRTKCLLCGRCVNACGKNTETYAMKFLNKNGKTIIGAEDEKCFDDTNCLLCGQCIIACPVAALSEKSHMDRVKNALNAPEKHVIVAMAPSVRASIGELFNMGFGVDVTGKIYTALRQLGFDKIFDINFGADMTIMEAATELVQRIENNGPFPMFTSCCPGWVRQAENYYPELLNNLSSAKSPQQIFGTASKTYYPSISGLDPKNVFTVTVMPCTSKKFEADRPQMEKDGLRDIDAVITTRELAKMIKDAKIPFAKLEDSEADPAMGEYSGAGAIFGATGGVMEAALRSAKDFAENAELEDIEYKQVRGLNGIKEAEVEINNNKYNVAVINGASNLFKFMKSGMINEKQYHFIEVMACHGGCVNGGGQPHVNPKDLEKVDIKKVRASVLYNQDEHLSKRKSHENTALVKMYQNYFGKPGEGRAHEILHFKYKKS 575
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571

Chain B from PDB  Type:PROTEIN  Length:575
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...ee......hhhhhhhhh.......................eeee...eeee.hhh.....eeee..hhhhhhhhhhhhhhhhh..............hhhhhhhhhhh...............ee.....eeee.......hhhhhhhhhhh.....eeeee..eeeeehhhhhhhhhh.....hhhhhhh....eee..hhhhhhhhhhh...eeeeee.hhhhhhhhhhhh......hhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhhhhhhhhh.....ee...hhhhhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhh...hhh.eeeeeee..hhhhhhhh....ee..ee...eeeehhhhhhhhhhh..hhhhh.....hhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhh.......hhhhh....eeeeeee....eeeeeeeehhhhhhhhhhhhhhhh....eeeee....hhhhh......hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh......hhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5la3 B   3 TIIINGVQFNTDEDTTILKFARDNNIDISALCFLNNCNNDINKCEICTVEVEGTGLVTACDTLIEDGMIINTNSDAVNEKIKSRISQLLDIHEFKCGPCNRRENCEFLKLVIKYKARASKPFLPKDKTEYVDERSKSLTVDRTKCLLCGRCVNACGKNTETYAMKFLNKNGKTIIGAEDEKCFDDTNCLLCGQCIIACPVAALSEKSHMDRVKNALNAPEKHVIVAMAPSVRASIGELFNMGFGVDVTGKIYTALRQLGFDKIFDINFGADMTIMEAATELVQRIENNGPFPMFTSCCPGWVRQAENYYPELLNNLSSAKSPQQIFGTASKTYYPSISGLDPKNVFTVTVMPCTSKKFEADRPQMEKDGLRDIDAVITTRELAKMIKDAKIPFAKLEDSEADPAMGEYSGAGAIFGATGGVMEAALRSAKDFAENAELEDIEYKQVRGLNGIKEAEVEINNNKYNVAVINGASNLFKFMKSGMINEKQYHFIEVMACHGGCVNGGGQPHVNPKDLEKVDIKKVRASVLYNQDEHLSKRKSHENTALVKMYQNYFGKPGEGRAHEILHFKYKKSAW 577
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572

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 5LA3)

(no "CATH Domain" information available for 5LA3)

(no "Pfam Domain" information available for 5LA3)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Ligands, Modified Residues, Ions
		402	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
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	Cis Peptide Bonds
		Gly A:291 - Pro A:292	[ RasMol ]
		Gly B:291 - Pro B:292	[ RasMol ]
		Phe A:293 - Pro A:294	[ RasMol ]
		Phe B:293 - Pro B:294	[ RasMol ]

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(no "Related Entries Specified in the PDB File" available for 5LA3)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 14)

Sites (14, 14)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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Gene Ontology (8, 8)

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