2RAQ - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE MTH889 PROTEIN FROM METHANOTHERMOBACTER THERMAUTOTROPHICUS. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET TT205

Authors :   F. Forouhar, M. Su, X. Xu, J. Seetharaman, L. Mao, R. Xiao, L-C. Ma, K. Con M. C. Baran, T. B. Acton, G. T. Montelione, C. H. Arrowsmith, J. F. Hunt, Northeast Structural Genomics Consortium (Nesg)

Date :   17 Sep 07 (Deposition) - 16 Oct 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.11

Chains :   Asym. Unit : A,B,C,D,E,F,G
Biol. Unit 1: A,B,C,D,E,F,G  (2x)

Keywords :   Alpha-Beta Protein, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Forouhar, M. Su, X. Xu, J. Seetharaman, L. Mao, R. Xiao, L-C. Ma, K. Conover, M. C. Baran, T. B. Acton, G. T. Montelione, C. H. Arrowsmith J. F. Hunt, L. Tong
Crystal Structure Of The Mth889 Protein From Methanothermobacter Thermautotrophicus.
To Be Published
PubMed: search

Molecule 1 - CONSERVED PROTEIN MTH889
	Chains	:	A, B, C, D, E, F, G
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21(DE3) GOLD MAGIC
	Expression System Taxid	:	562
	Expression System Vector	:	BL21
	Expression System Vector Type	:	PLASMID
	Gene	:	MTH889
	Organism Scientific	:	METHANOTHERMOBACTER THERMAUTOTROPHICUS
	Organism Taxid	:	187420
	Strain	:	DELTA H

		1	2	3	4	5	6	7
Asymmetric Unit	:	A	B	C	D	E	F	G
Biological Unit 1 (2x)	:	A	B	C	D	E	F	G

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 28)

No.	Name	Count	Type	Full Name
1	CA	14	Ligand/Ion	CALCIUM ION
2	MSE	14	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 28)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	MSE	28	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:43 , ASP A:45 , ASP D:12 , SER D:78	BINDING SITE FOR RESIDUE CA A 98
02	AC2	SOFTWARE	ASP B:12 , SER B:78 , GLU C:43 , ASP C:45	BINDING SITE FOR RESIDUE CA B 98
03	AC3	SOFTWARE	GLU B:43 , ASP B:45 , ASP C:12 , SER C:78	BINDING SITE FOR RESIDUE CA B 99
04	AC4	SOFTWARE	ASP A:12 , SER A:78 , GLU D:43 , ASP D:45	BINDING SITE FOR RESIDUE CA A 99
05	AC5	SOFTWARE	ASP E:12 , SER E:78 , GLU G:43 , ASP G:45	BINDING SITE FOR RESIDUE CA E 98
06	AC6	SOFTWARE	GLU E:43 , ASP E:45 , ASP G:12 , SER G:78	BINDING SITE FOR RESIDUE CA E 99
07	AC7	SOFTWARE	ASP F:12 , GLU F:43 , ASP F:45 , SER F:78	BINDING SITE FOR RESIDUE CA F 98
08	AC8	SOFTWARE	GLU A:91 , THR B:93	BINDING SITE FOR RESIDUE CA A 100
09	AC9	SOFTWARE	GLU B:91 , THR C:93	BINDING SITE FOR RESIDUE CA B 100
10	BC1	SOFTWARE	GLU C:91 , THR D:93	BINDING SITE FOR RESIDUE CA C 98
11	BC2	SOFTWARE	GLU D:91 , THR E:93	BINDING SITE FOR RESIDUE CA D 98
12	BC3	SOFTWARE	GLU E:91 , HOH E:111 , THR F:93	BINDING SITE FOR RESIDUE CA E 100
13	BC4	SOFTWARE	GLU F:91 , THR G:93	BINDING SITE FOR RESIDUE CA G 98
14	BC5	SOFTWARE	THR A:93 , GLU G:91	BINDING SITE FOR RESIDUE CA A 101

(no "SS Bond" information available for 2RAQ)

Asymmetric Unit

No.	Residues
1	Glu A:18	-	Pro A:19
2	Glu B:18	-	Pro B:19
3	Glu C:18	-	Pro C:19
4	Glu D:18	-	Pro D:19
5	Glu E:18	-	Pro E:19
6	Glu F:18	-	Pro F:19
7	Glu G:18	-	Pro G:19

(no "SAP(SNP)/Variant" information available for 2RAQ)

(no "PROSITE Motif" information available for 2RAQ)

(no "Exon" information available for 2RAQ)

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:93
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
          O26975_METTH    3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqa1 A:3-95 Uncharacterized protein MTH889                                                 SCOP domains
               CATH domains 2raqA01 A:3-87 MTH889-like domain                                                    -------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhhh....eeeeeeeee....eeeeeeee....hhhhhhhhhhhh..eeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  2raq A  3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    12        22        32        42        52        62        72        82     |  92   
                                                                  42-MSE                                        88-MSE

Chain B from PDB  Type:PROTEIN  Length:94
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:94
                                    11        21        31        41        51        61        71        81        91    
          O26975_METTH    2 VAKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqb_ B: Uncharacterized protein MTH889                                                      SCOP domains
               CATH domains 2raqB01 B:2-87 MTH889-like domain                                                     -------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.....hhhhhhhhhhh...eeeeeeeeee......eeeeeeee...hhhhhhhhhhhh..eeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                  2raq B  2 VAKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    11        21        31        41|       51        61        71        81      | 91    
                                                                   42-MSE                                        88-MSE

Chain C from PDB  Type:PROTEIN  Length:93
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
          O26975_METTH    3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqc_ C: Uncharacterized protein MTH889                                                     SCOP domains
               CATH domains 2raqC01 C:3-87 MTH889-like domain                                                    -------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhhh....eeeeee........eeeeeee....hhhhhhhhhhh...eeeeeeeeee........... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  2raq C  3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    12        22        32        42        52        62        72        82     |  92   
                                                                  42-MSE                                        88-MSE

Chain D from PDB  Type:PROTEIN  Length:93
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
          O26975_METTH    3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqd_ D: Uncharacterized protein MTH889                                                     SCOP domains
               CATH domains 2raqD01 D:3-87 MTH889-like domain                                                    -------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee...hhhhhhhhhhh.....eeeeeeee....eeeeeeeee....hhhhhhhhhhh...eeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  2raq D  3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    12        22        32        42        52        62        72        82     |  92   
                                                                  42-MSE                                        88-MSE

Chain E from PDB  Type:PROTEIN  Length:93
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
          O26975_METTH    3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqe_ E: Uncharacterized protein MTH889                                                     SCOP domains
               CATH domains 2raqE01 E:3-87 MTH889-like domain                                                    -------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee....hhhhhhhhhhh...eeeeeeeeeee....eeeeeeeee...hhhhhhhhhhh...eeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  2raq E  3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    12        22        32        42        52        62        72        82     |  92   
                                                                  42-MSE                                        88-MSE

Chain F from PDB  Type:PROTEIN  Length:93
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
          O26975_METTH    3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqf_ F: Uncharacterized protein MTH889                                                     SCOP domains
               CATH domains 2raqF01 F:3-87 MTH889-like domain                                                    -------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee...hhhhhhhhhhh.....eeeeeeeee...eeeeeeeee....hhhhhhhhhhhh..eeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  2raq F  3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    12        22        32        42        52        62        72        82     |  92   
                                                                  42-MSE                                        88-MSE

Chain G from PDB  Type:PROTEIN  Length:93
 aligned with O26975_METTH | O26975 from UniProtKB/TrEMBL  Length:97

    Alignment length:93
                                    12        22        32        42        52        62        72        82        92   
          O26975_METTH    3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTMVEEVTTP 95
               SCOP domains d2raqg_ G: Uncharacterized protein MTH889                                                     SCOP domains
               CATH domains 2raqG01 G:3-87 MTH889-like domain                                                    -------- CATH domains
           Pfam domains (1) DUF211-2raqG01 G:3-95                                                                         Pfam domains (1)
           Pfam domains (2) DUF211-2raqG02 G:3-95                                                                         Pfam domains (2)
           Pfam domains (3) DUF211-2raqG03 G:3-95                                                                         Pfam domains (3)
           Pfam domains (4) DUF211-2raqG04 G:3-95                                                                         Pfam domains (4)
           Pfam domains (5) DUF211-2raqG05 G:3-95                                                                         Pfam domains (5)
           Pfam domains (6) DUF211-2raqG06 G:3-95                                                                         Pfam domains (6)
           Pfam domains (7) DUF211-2raqG07 G:3-95                                                                         Pfam domains (7)
         Sec.struct. author ...eeeeeeeeeee...hhhhhhhhhhh...eeeeeeeeee....eeeeeeeeee...hhhhhhhhhhh...eeeeeeeeeee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                  2raq G  3 AKGLIRIVLDILKPHEPIIPEYAKYLSELRGVEGVNITLmEIDKETENIKVTIQGNDLDFDEITRAIESYGGSIHSVDEVVAGRTmVEEVTTP 95
                                    12        22        32        42        52        62        72        82     |  92   
                                                                  42-MSE                                        88-MSE

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: Ferredoxin-like (1795)

Superfamily: MTH889-like (3)

Family: MTH889-like (2)

Protein domain: Uncharacterized protein MTH889 (1)

Methanobacterium thermoautotrophicum [TaxId: 145262] (1)

1a	d2raqa1	A:3-95
1b	d2raqb_	B:
1c	d2raqc_	C:
1d	d2raqd_	D:
1e	d2raqe_	E:
1f	d2raqf_	F:
1g	d2raqg_	G:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: MTH889-like domain (3)

Delta h (Methanothermobacter thermautotrophicus str) (1)

1a	2raqB01	B:2-87
1b	2raqA01	A:3-87
1c	2raqC01	C:3-87
1d	2raqD01	D:3-87
1e	2raqE01	E:3-87
1f	2raqF01	F:3-87
1g	2raqG01	G:3-87

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: DUF211] (2)

Family: DUF211 (2)

Methanobacterium thermoautotrophicum (strain Delta H) (1)

1a	DUF211-2raqG01	G:3-95
1b	DUF211-2raqG02	G:3-95
1c	DUF211-2raqG03	G:3-95
1d	DUF211-2raqG04	G:3-95
1e	DUF211-2raqG05	G:3-95
1f	DUF211-2raqG06	G:3-95
1g	DUF211-2raqG07	G:3-95

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G (O26975_METTH | O26975)

molecular function
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

Asymmetric Unit
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	Cis Peptide Bonds
		Glu A:18 - Pro A:19	[ RasMol ]
		Glu B:18 - Pro B:19	[ RasMol ]
		Glu C:18 - Pro C:19	[ RasMol ]
		Glu D:18 - Pro D:19	[ RasMol ]
		Glu E:18 - Pro E:19	[ RasMol ]
		Glu F:18 - Pro F:19	[ RasMol ]
		Glu G:18 - Pro G:19	[ RasMol ]

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Cis Peptide Bonds (7, 7)

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