4FB2 - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF SUBSTRATE-FREE P450CIN

Authors :   Y. Madrona, S. M. Tripathi, H. Li, T. L. Poulos

Date :   22 May 12 (Deposition) - 18 Jul 12 (Release) - 28 May 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.37

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Heme, Monooxygenase, Cindoxin, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Madrona, S. Tripathi, H. Li, T. L. Poulos
Crystal Structures Of Substrate-Free And Nitrosyl Cytochrom P450Cin: Implications For O(2) Activation.
Biochemistry V. 51 6623 2012
PubMed-ID: 22775403 | Reference-DOI: 10.1021/BI300666U

Molecule 1 - P450CIN
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCWORI-P450CIN
	Expression System Strain	:	DH5-ALPHA
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 8-404
	Gene	:	CINA
	Organism Scientific	:	CITROBACTER BRAAKII
	Organism Taxid	:	57706

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 13)

No.	Name	Count	Type	Full Name
1	CL	4	Ligand/Ion	CHLORIDE ION
2	EDO	5	Ligand/Ion	1,2-ETHANEDIOL
3	HEM	4	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 3 (2, 4)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	3	Ligand/Ion	1,2-ETHANEDIOL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Asymmetric Unit (13, 13)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:73 , MET A:90 , ALA A:91 , HIS A:98 , ARG A:102 , PHE A:109 , GLY A:238 , GLY A:239 , ASN A:242 , THR A:243 , PRO A:284 , ARG A:289 , SER A:339 , LEU A:340 , GLY A:341 , ILE A:344 , HIS A:345 , CYS A:347 , ILE A:353 , HOH A:605 , HOH A:616 , HOH A:730	BINDING SITE FOR RESIDUE HEM A 501
02	AC2	SOFTWARE	ARG A:336 , HIS A:337 , GLY A:341 , HIS A:342 , HOH A:724 , HOH A:1066	BINDING SITE FOR RESIDUE EDO A 502
03	AC3	SOFTWARE	ARG A:122 , ARG A:358	BINDING SITE FOR RESIDUE CL A 503
04	AC4	SOFTWARE	ASN B:73 , MET B:90 , ALA B:91 , HIS B:98 , ARG B:102 , PHE B:109 , LEU B:235 , GLY B:238 , GLY B:239 , ASN B:242 , THR B:243 , ARG B:289 , SER B:339 , LEU B:340 , GLY B:341 , ILE B:344 , HIS B:345 , CYS B:347 , ILE B:353 , HOH B:601 , HOH B:658 , HOH B:750	BINDING SITE FOR RESIDUE HEM B 501
05	AC5	SOFTWARE	HIS B:337 , GLY B:341 , HIS B:342	BINDING SITE FOR RESIDUE EDO B 502
06	AC6	SOFTWARE	ARG B:122 , ARG B:358	BINDING SITE FOR RESIDUE CL B 503
07	AC7	SOFTWARE	ASN C:73 , MET C:90 , ALA C:91 , HIS C:98 , ARG C:102 , PHE C:109 , GLY C:238 , GLY C:239 , ASN C:242 , THR C:243 , PRO C:284 , VAL C:287 , ARG C:289 , SER C:339 , LEU C:340 , GLY C:341 , ILE C:344 , HIS C:345 , CYS C:347 , ILE C:353 , EDO C:505 , HOH C:603 , HOH C:658 , HOH C:670	BINDING SITE FOR RESIDUE HEM C 501
08	AC8	SOFTWARE	LEU C:264 , ILE C:265 , PRO C:268 , THR C:362 , HOH C:697 , HOH C:837	BINDING SITE FOR RESIDUE EDO C 502
09	AC9	SOFTWARE	ARG C:336 , HIS C:337 , GLY C:341 , HIS C:342	BINDING SITE FOR RESIDUE EDO C 503
10	BC1	SOFTWARE	ARG C:122 , ARG C:358	BINDING SITE FOR RESIDUE CL C 504
11	BC2	SOFTWARE	ASN C:242 , ALA C:285 , HEM C:501 , HOH C:670 , HOH C:738 , HOH C:803 , HOH C:891 , HOH C:937 , HOH C:992	BINDING SITE FOR RESIDUE EDO C 505
12	BC3	SOFTWARE	ASN D:73 , MET D:90 , ALA D:91 , HIS D:98 , ARG D:102 , PHE D:109 , LEU D:235 , GLY D:238 , GLY D:239 , ASN D:242 , THR D:243 , PRO D:284 , VAL D:287 , ARG D:289 , SER D:339 , LEU D:340 , GLY D:341 , ILE D:344 , HIS D:345 , CYS D:347 , ILE D:353 , HOH D:607 , HOH D:653 , HOH D:1054	BINDING SITE FOR RESIDUE HEM D 501
13	BC4	SOFTWARE	ARG D:122 , ARG D:358	BINDING SITE FOR RESIDUE CL D 502

(no "SS Bond" information available for 4FB2)

Asymmetric Unit

No.	Residues
1	Phe A:78	-	Pro A:79
2	Asp A:95	-	Pro A:96
3	Thr A:333	-	Pro A:334
4	Phe B:78	-	Pro B:79
5	Asp B:95	-	Pro B:96
6	Thr B:333	-	Pro B:334
7	Phe C:78	-	Pro C:79
8	Asp C:95	-	Pro C:96
9	Thr C:333	-	Pro C:334
10	Phe D:78	-	Pro D:79
11	Asp D:95	-	Pro D:96
12	Glu D:182	-	Gly D:183
13	Thr D:333	-	Pro D:334

(no "SAP(SNP)/Variant" information available for 4FB2)

(no "PROSITE Motif" information available for 4FB2)

(no "Exon" information available for 4FB2)

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:392
                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhh...eeeehhhhheeee.hhhhhhhhhh....eehhhh...............hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....eeehhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...eeeee...eee..eee....eeeehhhhhh................................hhhhhhhhhhhhhhhhhhhh...ee......eee.....eeee.eee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fb2 A   8 TSLFTTADHYHTPLGPDGTPHAFFEALRDEAETTPIGWSEAYGGHWVVAGYKEIQAVIQNTKAFSNKGVTFPRYFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLIDARIELGEGDAATWLANEIPARLTAILLGLPPEDGDTYRRWVWAITHVENPEEGAEIFAELVAHARTLIAERRTNPGNDIMSRVIMSKIDGESLSEDDLIGFFTILLLGGIDNTARFLSSVFWRLAWDIELRRRLIAHPELIPNAVDELLRFYGPAMVGRLVTQEVTVGDITMKPGQTAMLWFPIASRDRSAFDSPDNIVIERTPNRHLSLGHGIHRCLGAHLIRVEARVAITEFLKRIPEFSLDPNKECEWLMGQVAGMLHVPIIFPKGKRLS 403
                                    17        27        37        47        57        67        77   ||   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  
                                                                                                    81|                                                                                                                                                                                                                                                                                                                             
                                                                                                     86

Chain B from PDB  Type:PROTEIN  Length:392
                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhh...eeeehhhhheeee.hhhhhhhhhhh...eehhhh...............hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....eeehhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...eeeee...eee..eee....eeeehhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee......eee.....eeee.eee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fb2 B   8 TSLFTTADHYHTPLGPDGTPHAFFEALRDEAETTPIGWSEAYGGHWVVAGYKEIQAVIQNTKAFSNKGVTFPRYFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLIDARIELGEGDAATWLANEIPARLTAILLGLPPEDGDTYRRWVWAITHVENPEEGAEIFAELVAHARTLIAERRTNPGNDIMSRVIMSKIDGESLSEDDLIGFFTILLLGGIDNTARFLSSVFWRLAWDIELRRRLIAHPELIPNAVDELLRFYGPAMVGRLVTQEVTVGDITMKPGQTAMLWFPIASRDRSAFDSPDNIVIERTPNRHLSLGHGIHRCLGAHLIRVEARVAITEFLKRIPEFSLDPNKECEWLMGQVAGMLHVPIIFPKGKRLS 403
                                    17        27        37        47        57        67        77   ||   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  
                                                                                                    81|                                                                                                                                                                                                                                                                                                                             
                                                                                                     86

Chain C from PDB  Type:PROTEIN  Length:391
                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhh...eeeehhhhheeee.hhhhhhhhhhh...eehhhh..............hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....eeehhhhh.hhhhhhhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...eeeee...eee..eee....eeeehhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee......eee.....eeee.eee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fb2 C   8 TSLFTTADHYHTPLGPDGTPHAFFEALRDEAETTPIGWSEAYGGHWVVAGYKEIQAVIQNTKAFSNKGVTFPRFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLIDARIELGEGDAATWLANEIPARLTAILLGLPPEDGDTYRRWVWAITHVENPEEGAEIFAELVAHARTLIAERRTNPGNDIMSRVIMSKIDGESLSEDDLIGFFTILLLGGIDNTARFLSSVFWRLAWDIELRRRLIAHPELIPNAVDELLRFYGPAMVGRLVTQEVTVGDITMKPGQTAMLWFPIASRDRSAFDSPDNIVIERTPNRHLSLGHGIHRCLGAHLIRVEARVAITEFLKRIPEFSLDPNKECEWLMGQVAGMLHVPIIFPKGKRLS 403
                                    17        27        37        47        57        67        77  ||    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 
                                                                                                   80|                                                                                                                                                                                                                                                                                                                             
                                                                                                    86

Chain D from PDB  Type:PROTEIN  Length:391
                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhh...eeeehhhhheeee.hhhhhhhhhhh...eehhhh................hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.....eeehhhhh..hhhhhhhhhhh..hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...eeeee...eee..eee....eeeehhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee......eee.....eeee.eee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fb2 D   8 TSLFTTADHYHTPLGPDGTPHAFFEALRDEAETTPIGWSEAYGGHWVVAGYKEIQAVIQNTKAFSNKGVTFPRYEFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLIDARIELGEGDAATWLANEIPARLTAILLGLPPEDGDTYRRWVWAITHVPEEGAEIFAELVAHARTLIAERRTNPGNDIMSRVIMSKIDGESLSEDDLIGFFTILLLGGIDNTARFLSSVFWRLAWDIELRRRLIAHPELIPNAVDELLRFYGPAMVGRLVTQEVTVGDITMKPGQTAMLWFPIASRDRSAFDSPDNIVIERTPNRHLSLGHGIHRCLGAHLIRVEARVAITEFLKRIPEFSLDPNKECEWLMGQVAGMLHVPIIFPKGKRLS 403
                                    17        27        37        47        57        67        77    ||  90       100       110       120       130       140       150       160       170      |182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402 
                                                                                                     82|                                                                                        177|                                                                                                                                                                                                                               
                                                                                                      86                                                                                         180

Legend:		→ Mismatch	(orange background)
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	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 4FB2)

(no "CATH Domain" information available for 4FB2)

(no "Pfam Domain" information available for 4FB2)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Asp A:95 - Pro A:96	[ RasMol ]
		Asp B:95 - Pro B:96	[ RasMol ]
		Asp C:95 - Pro C:96	[ RasMol ]
		Asp D:95 - Pro D:96	[ RasMol ]
		Glu D:182 - Gly D:183	[ RasMol ]
		Phe A:78 - Pro A:79	[ RasMol ]
		Phe B:78 - Pro B:79	[ RasMol ]
		Phe C:78 - Pro C:79	[ RasMol ]
		Phe D:78 - Pro D:79	[ RasMol ]
		Thr A:333 - Pro A:334	[ RasMol ]
		Thr B:333 - Pro B:334	[ RasMol ]
		Thr C:333 - Pro C:334	[ RasMol ]
		Thr D:333 - Pro D:334	[ RasMol ]

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(no "Related Entries Specified in the PDB File" available for 4FB2)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 13)

Sites (13, 13)

SS Bonds (0, 0)

Cis Peptide Bonds (13, 13)

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