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Asym./Biol. Unit (Jmol Viewer)

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Title :   OXYGEN-BOUND HELL'S GATE GLOBIN I BY LB NANOTEMPLATE METHOD

Authors :   L. Belmonte, D. Scudieri, C. Nicolini, E. Pechkova

Date :   24 Oct 11 (Deposition) - 28 Mar 12 (Release) - 28 Mar 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.65

Chains :   Asym./Biol. Unit : A,D,G

Keywords :   Oxygen-Bound, Autoxidation, Nanotemplate, Langmuir-Blodgett, Thin Films, Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Pechkova, D. Scudieri, L. Belmonte, C. Nicolini
Oxygen-Bound Hell'S Gate Globin I By Classical Versus Lb Nanotemplate Method.
J. Cell. Biochem. V. 8 793 2012
PubMed-ID: 22415930 | Reference-DOI: 10.1002/JCB.24131

Molecule 1 - HEMOGLOBIN-LIKE FLAVOPROTEIN
	Chains	:	A, D, G
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	HMP, MINF_1095
	Organism Scientific	:	METHYLACIDIPHILUM INFERNORUM V4
	Organism Taxid	:	481448

		1	2	3
Asymmetric/Biological Unit	:	A	D	G

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 6)

No.	Name	Count	Type	Full Name
1	HEM	3	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	OXY	3	Ligand/Ion	OXYGEN MOLECULE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:42 , PHE A:43 , GLN A:44 , ASN A:45 , GLN A:50 , LYS A:53 , VAL A:57 , LEU A:78 , ARG A:81 , HIS A:82 , TYR A:85 , VAL A:87 , HIS A:91 , TYR A:92 , VAL A:95 , TYR A:123 , OXY A:202 , HOH A:353 , HOH A:410	BINDING SITE FOR RESIDUE HEM A 201
2	AC2	SOFTWARE	GLN A:50 , HEM A:201	BINDING SITE FOR RESIDUE OXY A 202
3	AC3	SOFTWARE	ARG D:16 , LEU D:42 , PHE D:43 , GLN D:44 , ASN D:45 , GLN D:50 , LYS D:53 , VAL D:57 , LEU D:78 , ARG D:81 , HIS D:82 , TYR D:85 , VAL D:87 , HIS D:91 , TYR D:92 , VAL D:95 , TYR D:123 , MET D:130 , OXY D:202 , HOH D:319 , HOH D:336	BINDING SITE FOR RESIDUE HEM D 201
4	AC4	SOFTWARE	GLN D:50 , HEM D:201	BINDING SITE FOR RESIDUE OXY D 202
5	AC5	SOFTWARE	LEU G:42 , PHE G:43 , GLN G:44 , ASN G:45 , GLN G:50 , LYS G:53 , VAL G:57 , LEU G:78 , ARG G:81 , HIS G:82 , TYR G:85 , VAL G:87 , HIS G:91 , TYR G:92 , VAL G:95 , TYR G:123 , MET G:130 , OXY G:202 , HOH G:351 , HOH G:355	BINDING SITE FOR RESIDUE HEM G 201
6	AC6	SOFTWARE	TYR G:29 , PHE G:43 , GLN G:50 , HEM G:201	BINDING SITE FOR RESIDUE OXY G 202

(no "SS Bond" information available for 3UBC)

(no "Cis Peptide Bond" information available for 3UBC)

(no "SAP(SNP)/Variant" information available for 3UBC)

(no "PROSITE Motif" information available for 3UBC)

(no "Exon" information available for 3UBC)

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:131
 aligned with B3DUZ7_METI4 | B3DUZ7 from UniProtKB/TrEMBL  Length:133

    Alignment length:131
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 
         B3DUZ7_METI4     2 IDQKEKELIKESWKRIEPNKNEIGLLFYANLFKEEPTVSVLFQNPISSQSRKLMQVLGILVQGIDNLEGLIPTLQDLGRRHKQYGVVDSHYPLVGDCLLKSIQEYLGQGFTEEAKAAWTKVYGIAAQVMTA 132
               SCOP domains d3ubca_ A: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ubc A   2 IDQKEKELIKESWKRIEPNKNEIGLLFYANLFKEEPTVSVLFQNPISSQSRKLMQVLGILVQGIDNLEGLIPTLQDLGRRHKQYGVVDSHYPLVGDCLLKSIQEYLGQGFTEEAKAAWTKVYGIAAQVMTA 132
                                    11        21        31        41        51        61        71        81        91       101       111       121       131

Chain D from PDB  Type:PROTEIN  Length:131
 aligned with B3DUZ7_METI4 | B3DUZ7 from UniProtKB/TrEMBL  Length:133

    Alignment length:131
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 
         B3DUZ7_METI4     2 IDQKEKELIKESWKRIEPNKNEIGLLFYANLFKEEPTVSVLFQNPISSQSRKLMQVLGILVQGIDNLEGLIPTLQDLGRRHKQYGVVDSHYPLVGDCLLKSIQEYLGQGFTEEAKAAWTKVYGIAAQVMTA 132
               SCOP domains d3ubcd_ D: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ubc D   2 IDQKEKELIKESWKRIEPNKNEIGLLFYANLFKEEPTVSVLFQNPISSQSRKLMQVLGILVQGIDNLEGLIPTLQDLGRRHKQYGVVDSHYPLVGDCLLKSIQEYLGQGFTEEAKAAWTKVYGIAAQVMTA 132
                                    11        21        31        41        51        61        71        81        91       101       111       121       131

Chain G from PDB  Type:PROTEIN  Length:131
 aligned with B3DUZ7_METI4 | B3DUZ7 from UniProtKB/TrEMBL  Length:133

    Alignment length:131
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 
         B3DUZ7_METI4     2 IDQKEKELIKESWKRIEPNKNEIGLLFYANLFKEEPTVSVLFQNPISSQSRKLMQVLGILVQGIDNLEGLIPTLQDLGRRHKQYGVVDSHYPLVGDCLLKSIQEYLGQGFTEEAKAAWTKVYGIAAQVMTA 132
               SCOP domains d3ubcg_ G: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ubc G   2 IDQKEKELIKESWKRIEPNKNEIGLLFYANLFKEEPTVSVLFQNPISSQSRKLMQVLGILVQGIDNLEGLIPTLQDLGRRHKQYGVVDSHYPLVGDCLLKSIQEYLGQGFTEEAKAAWTKVYGIAAQVMTA 132
                                    11        21        31        41        51        61        71        81        91       101       111       121       131

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Globin-like (1351)

Superfamily: Globin-like (1308)

Family: automated matches (42)

Protein domain: automated matches (42)

Methylacidiphilum infernorum [TaxId: 481448] (3)

1a	d3ubca_	A:
1b	d3ubcd_	D:
1c	d3ubcg_	G:

(no "CATH Domain" information available for 3UBC)

(no "Pfam Domain" information available for 3UBC)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,D,G (B3DUZ7_METI4 | B3DUZ7)

molecular function
	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:0019825	oxygen binding	Interacting selectively and non-covalently with oxygen (O2).
	GO:0005344	oxygen transporter activity	Enables the directed movement of oxygen into, out of or within a cell, or between cells.
biological process
	GO:0015671	oxygen transport	The directed movement of oxygen (O2) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.

Asymmetric/Biological Unit
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Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (2, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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