1HRB - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   ATOMIC MODELS FOR THE POLYPEPTIDE BACKBONES OF MYOHEMERYTHRIN AND HEMERYTHRIN

Authors :   W. A. Hendrickson, K. B. Ward

Date :   23 Jun 76 (Deposition) - 28 Sep 78 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   5.50

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

Keywords :   Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. A. Hendrickson, K. B. Ward
Atomic Models For The Polypeptide Backbones Of Myohemerythrin And Hemerythrin.
Biochem. Biophys. Res. Commun. V. 66 1349 1975
PubMed-ID: 5 | Reference-DOI: 10.1016/0006-291X(75)90508-2
(for further references see the PDB file header)

Molecule 1 - HEMERYTHRIN B
	Chains	:	A, B
	Engineered	:	YES
	Organism Scientific	:	PHASCOLOPSIS GOULDII
	Organism Taxid	:	6442
	Tissue	:	COELOMIC FLUID

		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 (1, 4)

No.	Name	Count	Type	Full Name
1	FE	4	Ligand/Ion	FE (III) ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	FE A:115	BINDING SITE FOR RESIDUE FE A 114
2	AC2	SOFTWARE	FE A:114	BINDING SITE FOR RESIDUE FE A 115
3	AC3	SOFTWARE	FE B:115	BINDING SITE FOR RESIDUE FE B 114
4	AC4	SOFTWARE	FE B:114	BINDING SITE FOR RESIDUE FE B 115

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

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

Asymmetric Unit (5, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_HEMT_PHAGO_001 *	Q	64	E	HEMT_PHAGO	---	---	A/B	E	63	E
2	UniProt	VAR_HEMT_PHAGO_002 *	E	79	D	HEMT_PHAGO	---	---	A/B	D	78	D
3	UniProt	VAR_HEMT_PHAGO_003 *	T	80	G	HEMT_PHAGO	---	---	A/B	G	79	G
4	UniProt	VAR_HEMT_PHAGO_004 *	H	83	N	HEMT_PHAGO	---	---	A/B	N	82	N
5	UniProt	VAR_HEMT_PHAGO_005 *	S	97	A	HEMT_PHAGO	---	---	A/B	A	96	A
	* ID not provided by source

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

Biological Unit 1 (5, 5)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_HEMT_PHAGO_001 *	Q	64	E	HEMT_PHAGO	---	---	A	E	63	E
2	UniProt	VAR_HEMT_PHAGO_002 *	E	79	D	HEMT_PHAGO	---	---	A	D	78	D
3	UniProt	VAR_HEMT_PHAGO_003 *	T	80	G	HEMT_PHAGO	---	---	A	G	79	G
4	UniProt	VAR_HEMT_PHAGO_004 *	H	83	N	HEMT_PHAGO	---	---	A	N	82	N
5	UniProt	VAR_HEMT_PHAGO_005 *	S	97	A	HEMT_PHAGO	---	---	A	A	96	A
	* ID not provided by source

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

Biological Unit 2 (5, 5)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_HEMT_PHAGO_001 *	Q	64	E	HEMT_PHAGO	---	---	B	E	63	E
2	UniProt	VAR_HEMT_PHAGO_002 *	E	79	D	HEMT_PHAGO	---	---	B	D	78	D
3	UniProt	VAR_HEMT_PHAGO_003 *	T	80	G	HEMT_PHAGO	---	---	B	G	79	G
4	UniProt	VAR_HEMT_PHAGO_004 *	H	83	N	HEMT_PHAGO	---	---	B	N	82	N
5	UniProt	VAR_HEMT_PHAGO_005 *	S	97	A	HEMT_PHAGO	---	---	B	A	96	A
	* ID not provided by source

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HEMERYTHRINS	PS00550	Hemerythrin family signature.	HEMT_PHAGO	55-78	2	A:54-77 B:54-77

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HEMERYTHRINS	PS00550	Hemerythrin family signature.	HEMT_PHAGO	55-78	1	A:54-77 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HEMERYTHRINS	PS00550	Hemerythrin family signature.	HEMT_PHAGO	55-78	1	- B:54-77

(no "Exon" information available for 1HRB)

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:113
 aligned with HEMT_PHAGO | P02244 from UniProtKB/Swiss-Prot  Length:114

    Alignment length:113
                                    11        21        31        41        51        61        71        81        91       101       111   
           HEMT_PHAGO     2 GFPIPDPYVWDPSFRTFYSIIDDEHKTLFNGIFHLAIDDNADNLGELRRCTGKHFLNEQVLMQASQYQFYDEHKKEHETFIHALDNWKGDVKWAKSWLVNHIKTIDFKYKGKI 114
               SCOP domains d1hrba_ A: Hemerythrin                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------E--------------DG--N-------------A----------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------HEMERYTHRINS            ------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1hrb A   1 GFPIPDPYVWDPSFRTFYSIIDDEHKTLFNGIFHLAIDDNADNLGELRRCTGKHFLNQEVLMEASQYQFYDEHKKEHDGFINALDNWKGDVKWAKAWLVNHIKTIDFKYKGKI 113
                                    10        20        30        40        50        60        70        80        90       100       110

Chain B from PDB  Type:PROTEIN  Length:113
 aligned with HEMT_PHAGO | P02244 from UniProtKB/Swiss-Prot  Length:114

    Alignment length:113
                                    11        21        31        41        51        61        71        81        91       101       111   
           HEMT_PHAGO     2 GFPIPDPYVWDPSFRTFYSIIDDEHKTLFNGIFHLAIDDNADNLGELRRCTGKHFLNEQVLMQASQYQFYDEHKKEHETFIHALDNWKGDVKWAKSWLVNHIKTIDFKYKGKI 114
               SCOP domains d1hrbb_ B: Hemerythrin                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------E--------------DG--N-------------A----------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------HEMERYTHRINS            ------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1hrb B   1 GFPIPDPYVWDPSFRTFYSIIDDEHKTLFNGIFHLAIDDNADNLGELRRCTGKHFLNQEVLMEASQYQFYDEHKKEHDGFINALDNWKGDVKWAKAWLVNHIKTIDFKYKGKI 113
                                    10        20        30        40        50        60        70        80        90       100       110

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

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Four-helical up-and-down bundle (308)

Superfamily: Hemerythrin-like (10)

Family: Hemerythrin-like (10)

Protein domain: Hemerythrin (7)

Phascolopsis gouldii [TaxId: 6442] (3)

1a	d1hrba_	A:
1b	d1hrbb_	B:

(no "CATH Domain" information available for 1HRB)

(no "Pfam Domain" information available for 1HRB)

Asymmetric Unit(hide GO term definitions)

Chain A,B (HEMT_PHAGO | P02244)

molecular function
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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 Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		FE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1hrb)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	1hrb
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	HEMT_PHAGO \| P02244
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

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

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

Access by UniProt ID/Accession number
	HEMT_PHAGO \| P02244
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	HEMT_PHAGO \| P02244	:	1i4y 1i4z

(no "Related Entries Specified in the PDB File" available for 1HRB)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (5, 10)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File