1MVK - 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)

Biological Unit 3 (Jmol Viewer)

Title :   X-RAY STRUCTURE OF THE TETRAMERIC MUTANT OF THE B1 DOMAIN OF STREPTOCOCCAL PROTEIN G

Authors :   M. K. Frank, F. Dyda, A. Dobrodumov, A. M. Gronenborn

Date :   25 Sep 02 (Deposition) - 30 Oct 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D  (1x)
Biol. Unit 2: E,F,G,H  (1x)
Biol. Unit 3: I,J,K,L  (1x)

Keywords :   Strand-Exchanged Tetramer, Channel, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Kirsten Frank, F. Dyda, A. Dobrodumov, A. M. Gronenborn
Core Mutations Switch Monomeric Protein Gb1 Into An Intertwined Tetramer.
Nat. Struct. Biol. V. 9 877 2002
PubMed-ID: 12379842 | Reference-DOI: 10.1038/NSB854
(for further references see the PDB file header)

Molecule 1 - IMMUNOGLOBULIN G BINDING PROTEIN G
	Chains	:	A, B, C, D, E, F, G, H, I, J, K, L
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Strain	:	HMS174(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	B1 DOMAIN, SEQUENCE DATABASE RESIDUES 228-282
	Gene	:	SPG
	Mutation	:	YES
	Organism Scientific	:	STREPTOCOCCUS SP. 'GROUP G'
	Organism Taxid	:	1320
	Synonym	:	IGG BINDING PROTEIN G

		1	2	3	4	5	6	7	8	9	10	11	12
Asymmetric Unit	:	A	B	C	D	E	F	G	H	I	J	K	L
Biological Unit 1 (1x)	:	A	B	C	D
Biological Unit 2 (1x)	:					E	F	G	H
Biological Unit 3 (1x)	:									I	J	K	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 3)

No.	Name	Count	Type	Full Name
1	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:4 , LYS B:4 , LYS C:4 , GLN D:2 , LYS D:4	BINDING SITE FOR RESIDUE SO4 D 105
2	AC2	SOFTWARE	LYS I:4 , GLN J:2 , LYS K:4 , LYS L:4	BINDING SITE FOR RESIDUE SO4 K 106
3	AC3	SOFTWARE	LYS E:4 , LYS F:4 , LYS G:4 , LYS H:4	BINDING SITE FOR RESIDUE SO4 H 107

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

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

(no "SAP(SNP)/Variant" information available for 1MVK)

(no "PROSITE Motif" information available for 1MVK)

(no "Exon" information available for 1MVK)

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:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvka_           A:                                     SCOP domains
               CATH domains 1mvkA00           A:1-56  [code=3.10.20.10, no name defi CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..----------...hhhhhhhhhhhhhhh....eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk A   1 MQYKVILN----------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8         19

Chain B from PDB  Type:PROTEIN  Length:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkb_           B:                                     SCOP domains
               CATH domains 1mvkB00           B:1-56  [code=3.10.20.10, no name defi CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..----------...hhhhhhhhhhhhhhhh..eeeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk B   1 MQYKVILN----------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8         19

Chain C from PDB  Type:PROTEIN  Length:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkc_           C:                                     SCOP domains
               CATH domains 1mvkC00           C:1-56  [code=3.10.20.10, no name defi CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..----------...hhhhhhhhhhhhhhh....eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk C   1 MQYKVILN----------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8         19

Chain D from PDB  Type:PROTEIN  Length:45
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkd_            D:                                    SCOP domains
               CATH domains 1mvkD00            D:1-56  [code=3.10.20.10, no name def CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..-----------..hhhhhhhhhhhhhhhh...eeeee...eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk D   1 MQYKVILN-----------AVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8          20

Chain E from PDB  Type:PROTEIN  Length:45
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvke_ E           :                                    SCOP domains
               CATH domains 1mvkE00 E           :1-56  [code=3.10.20.10, no name def CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...-----------.hhhhhhhhhhhhhhhh...eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk E   1 MQYKVILNG-----------VDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                    |-         -|       30        40        50      
                                    9          21

Chain F from PDB  Type:PROTEIN  Length:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkf_           F:                                     SCOP domains
               CATH domains 1mvkF00           F:1-56  [code=3.10.20.10, no name defi CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..----------...hhhhhhhhhhhhhhh....eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk F   1 MQYKVILN----------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8         19

Chain G from PDB  Type:PROTEIN  Length:47
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkg_ G         :                                      SCOP domains
               CATH domains 1mvkG00 G         :1-56  [code=3.10.20.10, no name defin CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...---------...hhhhhhhhhhhhhhh....eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk G   1 MQYKVILNG---------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                    |-        20        30        40        50      
                                    9        19

Chain H from PDB  Type:PROTEIN  Length:50
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkh_ H:                                               SCOP domains
               CATH domains 1mvkH00 H:      1-56  [code=3.10.20.10, no name defined] CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee....------.....hhhhhhhhhhhhhhhh...eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk H   1 MQYKVILNGK------TTEAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                    10      | 20        30        40        50      
                                    10     17

Chain I from PDB  Type:PROTEIN  Length:48
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvki_ I        :                                       SCOP domains
               CATH domains 1mvkI00 I        :1-56  [code=3.10.20.10, no name define CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...--------....hhhhhhhhhhhhhhhh....eeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk I   1 MQYKVILNG--------TEAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                    |-       |20        30        40        50      
                                    9       18

Chain J from PDB  Type:PROTEIN  Length:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkj_           J:                                     SCOP domains
               CATH domains 1mvkJ00           J:1-56  [code=3.10.20.10, no name defi CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..----------...hhhhhhhhhhhhhhhh...eeeee...eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk J   1 MQYKVILN----------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8         19

Chain K from PDB  Type:PROTEIN  Length:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:56
                                   236       246       256       266       276      
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTE 282
               SCOP domains d1mvkk_           K:                                     SCOP domains
               CATH domains 1mvkK00           K:1-56  [code=3.10.20.10, no name defi CATH domains
               Pfam domains -------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..----------...hhhhhhhhhhhhhhhh...eeeee...eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------- Transcript
                 1mvk K   1 MQYKVILN----------EAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVTE  56
                                   | -        20        30        40        50      
                                   8         19

Chain L from PDB  Type:PROTEIN  Length:46
 aligned with SPG1_STRSG | P06654 from UniProtKB/Swiss-Prot  Length:448

    Alignment length:55
                                   236       246       256       266       276     
           SPG1_STRSG   227 DTYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVT 281
               SCOP domains d1mvkl_          L:                                     SCOP domains
               CATH domains 1mvkL00          L:1-55  [code=3.10.20.10, no name defi CATH domains
           Pfam domains (1) --IgG_bi         nding_B-1mvkL01 L:3-55                 Pfam domains (1)
           Pfam domains (2) --IgG_bi         nding_B-1mvkL02 L:3-55                 Pfam domains (2)
           Pfam domains (3) --IgG_bi         nding_B-1mvkL03 L:3-55                 Pfam domains (3)
           Pfam domains (4) --IgG_bi         nding_B-1mvkL04 L:3-55                 Pfam domains (4)
           Pfam domains (5) --IgG_bi         nding_B-1mvkL05 L:3-55                 Pfam domains (5)
           Pfam domains (6) --IgG_bi         nding_B-1mvkL06 L:3-55                 Pfam domains (6)
           Pfam domains (7) --IgG_bi         nding_B-1mvkL07 L:3-55                 Pfam domains (7)
           Pfam domains (8) --IgG_bi         nding_B-1mvkL08 L:3-55                 Pfam domains (8)
           Pfam domains (9) --IgG_bi         nding_B-1mvkL09 L:3-55                 Pfam domains (9)
          Pfam domains (10) --IgG_bi         nding_B-1mvkL10 L:3-55                 Pfam domains (10)
          Pfam domains (11) --IgG_bi         nding_B-1mvkL11 L:3-55                 Pfam domains (11)
          Pfam domains (12) --IgG_bi         nding_B-1mvkL12 L:3-55                 Pfam domains (12)
         Sec.struct. author .eeeee..---------....hhhhhhhhhhhhhhhh...eeeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------- Transcript
                 1mvk L   1 MQYKVILN---------TEAVDAATFEKVVKQFFNDNGVDGEWTYDDATKTFTVT  55
                                   | -       |20        30        40        50     
                                   8        18

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: Alpha and beta proteins (a+b) (23004)

Fold: beta-Grasp (ubiquitin-like) (1032)

Superfamily: Immunoglobulin-binding domains (65)

Family: Immunoglobulin-binding domains (65)

Protein domain: Immunoglobulin-binding protein G, different constituent domains (36)

Streptococcus sp., group G [TaxId: 1306] (32)

1a	d1mvka_	A:
1b	d1mvkb_	B:
1c	d1mvkc_	C:
1d	d1mvkd_	D:
1e	d1mvke_	E:
1f	d1mvkf_	F:
1g	d1mvkg_	G:
1h	d1mvkh_	H:
1i	d1mvki_	I:
1j	d1mvkj_	J:
1k	d1mvkk_	K:
1l	d1mvkl_	L:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Ubiquitin-like (UB roll) (674)

Homologous Superfamily: [code=3.10.20.10, no name defined] (72)

'group g' (Streptococcus sp) (16)

1a	1mvkH00	H:1-56
1b	1mvkI00	I:1-56
1c	1mvkG00	G:1-56
1d	1mvkA00	A:1-56
1e	1mvkB00	B:1-56
1f	1mvkC00	C:1-56
1g	1mvkF00	F:1-56
1h	1mvkJ00	J:1-56
1i	1mvkK00	K:1-56
1j	1mvkL00	L:1-55
1k	1mvkD00	D:1-56
1l	1mvkE00	E:1-56

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: IgG_binding_B] (24)

Family: IgG_binding_B (24)

Streptococcus sp. group G (24)

1a	IgG_binding_B-1mvkL01	L:3-55
1b	IgG_binding_B-1mvkL02	L:3-55
1c	IgG_binding_B-1mvkL03	L:3-55
1d	IgG_binding_B-1mvkL04	L:3-55
1e	IgG_binding_B-1mvkL05	L:3-55
1f	IgG_binding_B-1mvkL06	L:3-55
1g	IgG_binding_B-1mvkL07	L:3-55
1h	IgG_binding_B-1mvkL08	L:3-55
1i	IgG_binding_B-1mvkL09	L:3-55
1j	IgG_binding_B-1mvkL10	L:3-55
1k	IgG_binding_B-1mvkL11	L:3-55
1l	IgG_binding_B-1mvkL12	L:3-55

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G,H,I,J,K,L (SPG1_STRSG | P06654)

molecular function
	GO:0019864	IgG binding	Interacting selectively and non-covalently with an immunoglobulin of an IgG isotype.
biological process
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
	GO:0005618	cell wall	The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1mvk)

Biological Units
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Access by PDB/NDB ID
	1mvk
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	SPG1_STRSG \| P06654
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1gb1	THE MONOMERIC WILDTYPE PROTEIN
1mpe	ENSEMBLE OF 20 NMR STRUCTURES OF SAME PROTEIN

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 12)

CATH Domains (1, 12)

Pfam Domains (1, 12)

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