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Title :   CRYSTAL STRUCTURE OF UPF0066 PROTEIN AF0241 IN COMPLEX WITH S-ADENOSYLMETHIONINE. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET GR27

Authors :   A. P. Kuzin, M. Abashidze, J. Seetharaman, S. M. Vorobiev, Y. Fang, K. Cunningham, L. C. Ma, R. Xiao, J. Liu, M. Baran, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt, L. Tong, Northeast Structural Genomics Consortium (Nesg)

Date :   10 Nov 06 (Deposition) - 21 Nov 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Nesg Gr27 Y241_arcfu X-Ray, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Forouhar, A. Kuzin, J. Seetharaman, I. Lee, W. Zhou, M. Abashidze, Y. Chen, W. Yong, H. Janjua, Y. Fang, D. Wang, K. Cunningham, R. Xiao, T. B. Acton, E. Pichersky, D. F. Klessig, C. W. Porter, G. T. Montelione, L. Tong
Functional Insights From Structural Genomics.
J. Struct. Funct. Genom. V. 8 37 2007
PubMed-ID: 17588214 | Reference-DOI: 10.1007/S10969-007-9018-3
(for further references see the PDB file header)

Molecule 1 - UPF0066 PROTEIN AF_0241
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21
	Expression System Strain	:	BL21(DE3)+MAGIC
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	AF_0241
	Organism Scientific	:	ARCHAEOGLOBUS FULGIDUS
	Organism Taxid	:	2234

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 7)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	MSE	4	Mod. Amino Acid	SELENOMETHIONINE
3	SAM	2	Ligand/Ion	S-ADENOSYLMETHIONINE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:68 , THR A:73 , GLU A:74 , GLU A:75 , ARG B:21 , GLN B:22	BINDING SITE FOR RESIDUE ACT A 148
2	AC2	SOFTWARE	GLN A:16 , ALA A:19 , PRO A:20 , ARG A:21 , GLN A:22 , TYR A:55 , TRP A:56 , MSE A:57 , ASP A:58 , LYS A:59 , ALA A:60 , ARG A:82 , ILE A:90 , GLY A:91 , LEU A:92 , ASP A:111 , LEU A:113 , SER A:116 , HOH A:212 , HOH A:215 , LYS B:122	BINDING SITE FOR RESIDUE SAM A 201
3	AC3	SOFTWARE	LYS A:122 , GLN B:16 , ALA B:19 , PRO B:20 , ARG B:21 , GLN B:22 , TYR B:55 , TRP B:56 , MSE B:57 , ASP B:58 , LYS B:59 , ALA B:60 , ARG B:82 , PRO B:84 , LEU B:92 , ASP B:111 , ALA B:112 , LEU B:113 , SER B:116 , HOH B:207 , HOH B:208 , HOH B:220	BINDING SITE FOR RESIDUE SAM B 202

Asymmetric/Biological Unit

No.	Residues
1	A:130	-	B:130

(no "Cis Peptide Bond" information available for 2NV4)

(no "SAP(SNP)/Variant" information available for 2NV4)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TSAA_2	PS51668	TsaA-like domain profile.	Y241_ARCFU	3-133	2	A:3-133 B:3-133
2	TSAA_1	PS01318	TsaA-like domain signature.	Y241_ARCFU	77-88	2	A:77-88 B:77-88

(no "Exon" information available for 2NV4)

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
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Chain A from PDB  Type:PROTEIN  Length:133
 aligned with Y241_ARCFU | O29998 from UniProtKB/Swiss-Prot  Length:139

    Alignment length:133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   
           Y241_ARCFU     1 MILKPIGVVKSPFKTQNDAPRQGRFSDAVSEIAIFDEYADGLHKIENLRHIIVLYWMDKASRDKLRVVPPGETEERGVFTTRSPSRPNPIGLCVVEILEVERNRLKVRWLDALDGSPVIDIKKYSPEIDCVNQ 133
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -2nv4A00 A:2-133 YaeB-like domains                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee...........hhhhh..eeeeeehhhhhhhhhhhhhh.eeeeeee.........ee........ee.hhh........eeeeeeeeeeee..eeeee........eeeeeee.hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --TSAA_2  PDB: A:3-133 UniProt: 3-133                                                                                                 PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------TSAA_1      --------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2nv4 A   1 mILKPIGVVKSPFKTQNDAPRQGRFSDAVSEIAIFDEYADGLHKIENLRHIIVLYWmDKASRDKLRVVPPGETEERGVFTTRSPSRPNPIGLCVVEILEVERNRLKVRWLDALDGSPVIDIKKYSPEIDCVNQ 133
                            |       10        20        30        40        50      | 60        70        80        90       100       110       120       130   
                            |                                                      57-MSE                                                                        
                            1-MSE

Chain B from PDB  Type:PROTEIN  Length:133
 aligned with Y241_ARCFU | O29998 from UniProtKB/Swiss-Prot  Length:139

    Alignment length:133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   
           Y241_ARCFU     1 MILKPIGVVKSPFKTQNDAPRQGRFSDAVSEIAIFDEYADGLHKIENLRHIIVLYWMDKASRDKLRVVPPGETEERGVFTTRSPSRPNPIGLCVVEILEVERNRLKVRWLDALDGSPVIDIKKYSPEIDCVNQ 133
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -2nv4B00 B:2-133 YaeB-like domains                                                                                                    CATH domains
           Pfam domains (1) --------------UPF0066-2nv4B01 B:15-130                                                                                            --- Pfam domains (1)
           Pfam domains (2) --------------UPF0066-2nv4B02 B:15-130                                                                                            --- Pfam domains (2)
         Sec.struct. author ......eeee...........hhhhh..eeeeee.hhhhhhhhhhhhh.eeeeeee.........ee........ee.hhh........eeeeeeeeeee...eeeee........eeeeeee.hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --TSAA_2  PDB: B:3-133 UniProt: 3-133                                                                                                 PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------TSAA_1      --------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2nv4 B   1 mILKPIGVVKSPFKTQNDAPRQGRFSDAVSEIAIFDEYADGLHKIENLRHIIVLYWmDKASRDKLRVVPPGETEERGVFTTRSPSRPNPIGLCVVEILEVERNRLKVRWLDALDGSPVIDIKKYSPEIDCVNQ 133
                            |       10        20        30        40        50      | 60        70        80        90       100       110       120       130   
                            1-MSE                                                  57-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 '\|'

(no "SCOP Domain" information available for 2NV4)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: Elongation Factor Tu (Ef-tu); domain 3 (323)

Homologous Superfamily: YaeB-like domains (1)

Archaeoglobus fulgidus. Organism_taxid: 2234. (1)

1a	2nv4A00	A:2-133
1b	2nv4B00	B:2-133

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: UPF0066] (1)

Family: UPF0066 (1)

Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) (1)

1a	UPF0066-2nv4B01	B:15-130
1b	UPF0066-2nv4B02	B:15-130

Asymmetric/Biological Unit(hide GO term definitions)

(no "Gene Ontology" information available for 2NV4)

Asymmetric/Biological Unit
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Description

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Ligands, Modified Residues, Ions (3, 7)

Sites (3, 3)

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

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SAPs(SNPs)/Variants (0, 0)

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