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Title :   CHIMERIC HUMAN/MOUSE CARBONMONOXY HEMOGLOBIN (HUMAN ZETA2 / MOUSE BETA2)

Authors :   R. D. Kidd, J. E. Russell, N. J. Watmough, E. N. Baker, T. Brittain

Date :   17 Jun 01 (Deposition) - 23 Jan 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym./Biol. Unit : A,B,C,D

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

Reference :   R. D. Kidd, J. E. Russell, N. J. Watmough, E. N. Baker, T. Brittain
The Role Of Beta Chains In The Control Of The Hemoglobin Oxygen Binding Function: Chimeric Human/Mouse Proteins, Structure, And Function.
Biochemistry V. 40 15669 2001
PubMed-ID: 11747442 | Reference-DOI: 10.1021/BI011329F
(for further references see the PDB file header)

Molecule 1 - HEMOGLOBIN ZETA CHAIN
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	MUS MUSCULUS
	Expression System Common	:	HOUSE MOUSE
	Expression System Strain	:	BALB/C
	Expression System Taxid	:	10090
	Gene	:	HBZ
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	TRANSGENIC-KNOCKOUT MOUSE EXPRESSING CHIMERIC HUMAN ZETA / MOUSE BETA-SINGLE HEMOGLOBIN

Molecule 2 - HEMOGLOBIN BETA-SINGLE CHAIN
	Chains	:	B, D
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	TRANSGENIC-KNOCKOUT MOUSE EXPRESSING CHIMERIC HUMAN ZETA / MOUSE BETA-SINGLE HEMOGLOBIN
	Synonym	:	B SINGLE

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 10)

No.	Name	Count	Type	Full Name
1	ACE	2	Mod. Amino Acid	ACETYL GROUP
2	CMO	4	Ligand/Ion	CARBON MONOXIDE
3	HEM	4	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:42 , PHE A:43 , HIS A:45 , PHE A:46 , HIS A:58 , LYS A:61 , ALA A:65 , LEU A:83 , HIS A:87 , LEU A:91 , VAL A:93 , ASN A:97 , PHE A:98 , LEU A:101 , LEU A:136 , CMO A:143	BINDING SITE FOR RESIDUE HEM A 142
2	AC2	SOFTWARE	HIS A:58 , VAL A:62 , HEM A:142	BINDING SITE FOR RESIDUE CMO A 143
3	AC3	SOFTWARE	THR B:38 , TYR B:41 , PHE B:45 , HIS B:63 , ALA B:70 , LEU B:88 , LEU B:91 , HIS B:92 , LEU B:96 , VAL B:98 , ASN B:102 , PHE B:103 , LEU B:106 , LEU B:141 , CMO B:148	BINDING SITE FOR RESIDUE HEM B 147
4	AC4	SOFTWARE	HIS B:63 , VAL B:67 , HEM B:147	BINDING SITE FOR RESIDUE CMO B 148
5	AC5	SOFTWARE	HIS B:77 , TYR C:42 , PHE C:43 , HIS C:45 , PHE C:46 , HIS C:58 , LYS C:61 , LEU C:86 , HIS C:87 , LEU C:91 , VAL C:93 , ASN C:97 , PHE C:98 , LEU C:101 , CMO C:143	BINDING SITE FOR RESIDUE HEM C 142
6	AC6	SOFTWARE	HIS C:58 , VAL C:62 , HEM C:142	BINDING SITE FOR RESIDUE CMO C 143
7	AC7	SOFTWARE	TYR D:41 , PHE D:42 , PHE D:45 , HIS D:63 , LYS D:66 , LEU D:88 , LEU D:91 , HIS D:92 , LEU D:96 , VAL D:98 , ASN D:102 , LEU D:106 , LEU D:141 , CMO D:148	BINDING SITE FOR RESIDUE HEM D 147
8	AC8	SOFTWARE	HIS D:63 , VAL D:67 , HEM D:147	BINDING SITE FOR RESIDUE CMO D 148

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

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

Asymmetric/Biological Unit (5, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_HBB1_MOUSE_001 *	C	14	G	HBB1_MOUSE	---	---	B/D	G	13	G
2	UniProt	VAR_HBB1_MOUSE_002 *	S	21	A	HBB1_MOUSE	---	---	B/D	A	20	A
3	UniProt	VAR_HBB1_MOUSE_003 *	D	74	E	HBB1_MOUSE	---	---	B/D	D	73	E
4	UniProt	VAR_HBB1_MOUSE_004 *	V	135	M	HBB1_MOUSE	---	---	B/D	V	134	M
5	UniProt	VAR_HBB1_MOUSE_005 *	T	140	A	HBB1_MOUSE	---	---	B/D	A	139	A
	* ID not provided by source

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

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLOBIN	PS01033	Globin family profile.	HBB1_MOUSE	2-147	2	B:1-143 D:1-146
1	GLOBIN	PS01033	Globin family profile.	HBAZ_HUMAN	3-142	2	A:2-141 C:2-141

Asymmetric/Biological Unit (3, 6)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000252951	1	ENSE00001143667	chr16:202686-203003	318	HBAZ_HUMAN	1-32	32	2	A:0-31 C:0-31	32 32
1.2	ENST00000252951	2	ENSE00001700930	chr16:203891-204095	205	HBAZ_HUMAN	32-100	69	2	A:31-99 C:31-99	69 69
1.3	ENST00000252951	3	ENSE00001143658	chr16:204271-204502	232	HBAZ_HUMAN	101-142	42	2	A:100-141 C:100-141	42 42

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:142
 aligned with HBAZ_HUMAN | P02008 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140  
           HBAZ_HUMAN     1 MSLTKTERTIIVSMWAKISTQADTIGTETLERLFLSHPQTKTYFPHFDLHPGSAQLRAHGSKVVAAVGDAVKSIDDIGGALSKLSELHAYILRVDPVNFKLLSHCLLVTLAARFPADFTAEAHAAWDKFLSVVSSVLTEKYR 142
               SCOP domains d1jeba_ A: Hemoglobin, alpha-chain                                                                                                             SCOP domains
               CATH domains -1jebA00 A:1-141 Globins                                                                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..........hhhhhhhhhhhhhhhhhhh....hhhh.hhhhhhhh......hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) --GLOBIN  PDB: A:2-141 UniProt: 3-142                                                                                                          PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: A:0-31           --------------------------------------------------------------------Exon 1.3  PDB: A:100-141 UniProt: 101-142  Transcript 1 (1)
           Transcript 1 (2) -------------------------------Exon 1.2  PDB: A:31-99 UniProt: 32-100                               ------------------------------------------ Transcript 1 (2)
                 1jeb A   0 xSLTKTERTIIVSMWAKISTQADTIGTETLERLFLSHPQTKTYFPHFDLHPGSAQLRAHGSKVVAAVGDAVKSIDDIGGALSKLSELHAYILRVDPVNFKLLSHCLLVTLAARFPADFTAEAHAAWDKFLSVVSSVLTEKYR 141
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139  
                            |                                                                                                                                             
                            0-ACE

Chain B from PDB  Type:PROTEIN  Length:143
 aligned with HBB1_MOUSE | P02088 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:143
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141   
           HBB1_MOUSE     2 VHLTDAEKAAVSCLWGKVNSDEVGGEALGRLLVVYPWTQRYFDSFGDLSSASAIMGNAKVKAHGKKVITAFNDGLNHLDSLKGTFASLSELHCDKLHVDPENFRLLGNMIVIVLGHHLGKDFTPAAQAAFQKVVAGVATALAH 144
               SCOP domains d1jebb_ B: Hemoglobin, beta-chain                                                                                                               SCOP domains
               CATH domains 1jebB00 B:1-143 Globins                                                                                                                         CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhh.....hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------G------A----------------------------------------------------E------------------------------------------------------------M----A---- SAPs(SNPs)
                    PROSITE GLOBIN  PDB: B:1-143 UniProt: 2-147                                                                                                             PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jeb B   1 VHLTDAEKAAVSGLWGKVNADEVGGEALGRLLVVYPWTQRYFDSFGDLSSASAIMGNAKVKAHGKKVITAFNDGLNHLDSLKGTFASLSELHCDKLHVDPENFRLLGNMIVIVLGHHLGKDFTPAAQAAFQKVVAGVAAALAH 143
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140

Chain C from PDB  Type:PROTEIN  Length:142
 aligned with HBAZ_HUMAN | P02008 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140  
           HBAZ_HUMAN     1 MSLTKTERTIIVSMWAKISTQADTIGTETLERLFLSHPQTKTYFPHFDLHPGSAQLRAHGSKVVAAVGDAVKSIDDIGGALSKLSELHAYILRVDPVNFKLLSHCLLVTLAARFPADFTAEAHAAWDKFLSVVSSVLTEKYR 142
               SCOP domains d1jebc_ C: Hemoglobin, alpha-chain                                                                                                             SCOP domains
               CATH domains -1jebC00 C:1-141 Globins                                                                                                                       CATH domains
           Pfam domains (1) ------Globin-1jebC01 C:6-106                                                                               ----------------------------------- Pfam domains (1)
           Pfam domains (2) ------Globin-1jebC02 C:6-106                                                                               ----------------------------------- Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..........hhhhhhhhhhhhhhhhhhh....hhhh.hhhhhhhh......hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) --GLOBIN  PDB: C:2-141 UniProt: 3-142                                                                                                          PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: C:0-31           --------------------------------------------------------------------Exon 1.3  PDB: C:100-141 UniProt: 101-142  Transcript 1 (1)
           Transcript 1 (2) -------------------------------Exon 1.2  PDB: C:31-99 UniProt: 32-100                               ------------------------------------------ Transcript 1 (2)
                 1jeb C   0 xSLTKTERTIIVSMWAKISTQADTIGTETLERLFLSHPQTKTYFPHFDLHPGSAQLRAHGSKVVAAVGDAVKSIDDIGGALSKLSELHAYILRVDPVNFKLLSHCLLVTLAARFPADFTAEAHAAWDKFLSVVSSVLTEKYR 141
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139  
                            0-ACE

Chain D from PDB  Type:PROTEIN  Length:146
 aligned with HBB1_MOUSE | P02088 from UniProtKB/Swiss-Prot  Length:147

    Alignment length:146
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141      
           HBB1_MOUSE     2 VHLTDAEKAAVSCLWGKVNSDEVGGEALGRLLVVYPWTQRYFDSFGDLSSASAIMGNAKVKAHGKKVITAFNDGLNHLDSLKGTFASLSELHCDKLHVDPENFRLLGNMIVIVLGHHLGKDFTPAAQAAFQKVVAGVATALAHKYH 147
               SCOP domains d1jebd_ D: Hemoglobin, beta-chain                                                                                                                  SCOP domains
               CATH domains 1jebD00 D:1-146 Globins                                                                                                                            CATH domains
           Pfam domains (1) ------Globin-1jebD01 D:7-111                                                                                   ----------------------------------- Pfam domains (1)
           Pfam domains (2) ------Globin-1jebD02 D:7-111                                                                                   ----------------------------------- Pfam domains (2)
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhh.....hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------G------A----------------------------------------------------E------------------------------------------------------------M----A------- SAPs(SNPs)
                    PROSITE GLOBIN  PDB: D:1-146 UniProt: 2-147                                                                                                                PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jeb D   1 VHLTDAEKAAVSGLWGKVNADEVGGEALGRLLVVYPWTQRYFDSFGDLSSASAIMGNAKVKAHGKKVITAFNDGLNHLDSLKGTFASLSELHCDKLHVDPENFRLLGNMIVIVLGHHLGKDFTPAAQAAFQKVVAGVAAALAHKYH 146
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Globin-like (1351)

Superfamily: Globin-like (1308)

Family: Globins (1157)

Protein domain: Hemoglobin, alpha-chain (292)

Human (Homo sapiens), zeta isoform [TaxId: 9606] (2)

1a	d1jeba_	A:
1b	d1jebc_	C:

Protein domain: Hemoglobin, beta-chain (292)

Mouse (Mus musculus) [TaxId: 10090] (1)

2a	d1jebb_	B:
2b	d1jebd_	D:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Globin-like (786)

Homologous Superfamily: Globins (743)

Human (Homo sapiens) (198)

1a	1jebD00	D:1-146
1b	1jebB00	B:1-143
1c	1jebA00	A:1-141
1d	1jebC00	C:1-141

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Globin (291)

Family: Globin (264)

Homo sapiens (Human) (107)

1a	Globin-1jebC01	C:6-106
1b	Globin-1jebC02	C:6-106

Mus musculus (Mouse) (4)

2a	Globin-1jebD01	D:7-111
2b	Globin-1jebD02	D:7-111

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,C (HBAZ_HUMAN | P02008)

molecular function
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	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: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.
	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).
biological process
	GO:0043249	erythrocyte maturation	A developmental process, independent of morphogenetic (shape) change, that is required for an erythrocyte to attain its fully functional state.
	GO:0000122	negative regulation of transcription from RNA polymerase II promoter	Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	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.
cellular component
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0005833	hemoglobin complex	An iron-containing, oxygen carrying complex. In vertebrates it is made up of two pairs of associated globin polypeptide chains, each chain carrying a noncovalently bound heme prosthetic group.

Chain B,D (HBB1_MOUSE | P02088)

molecular function
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	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: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:0048821	erythrocyte development	The process whose specific outcome is the progression of an erythrocyte over time, from its formation to the mature structure.
	GO:0030097	hemopoiesis	The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates.
	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:0010999	regulation of eIF2 alpha phosphorylation by heme	Any process that modulates the rate, frequency, or extent of eIF2 alpha phosphorylation as a result of heme levels.
	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.
cellular component
	GO:0005833	hemoglobin complex	An iron-containing, oxygen carrying complex. In vertebrates it is made up of two pairs of associated globin polypeptide chains, each chain carrying a noncovalently bound heme prosthetic group.
	GO:0043209	myelin sheath	An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1jeb)

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	1jeb
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	HBB1_MOUSE \| P02088
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(no "Related Entries Specified in the PDB File" available for 1JEB)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (5, 10)

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Exons (3, 6)

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SCOP Domains (2, 4)

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