3B5M - JenaLib

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Title :   CRYSTAL STRUCTURE OF CONSERVED UNCHARACTERIZED PROTEIN FROM RHODOPIRELLULA BALTICA

Authors :   Y. Patskovsky, J. B. Bonanno, V. Sridhar, M. Rutter, A. Powell, M. Malet R. Rodgers, S. Wasserman, D. Smith, J. M. Sauder, S. K. Burley, S. C. Alm York Sgx Research Center For Structural Genomics (Nysgxrc)

Date :   26 Oct 07 (Deposition) - 13 Nov 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.21

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

Keywords :   Structural Genomics, Unknown Function, Flavoprotein, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Patskovsky, J. B. Bonanno, V. Sridhar, M. Rutter, A. Powell, M. Maletic, R. Rodgers, S. Wasserman, D. Smith, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of Conserved Uncharacterized Protein From Rhodopirellula Baltica.
To Be Published
PubMed: search

Molecule 1 - UNCHARACTERIZED PROTEIN
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	MODIFIED PET26
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	RB3938
	Organism Scientific	:	RHODOPIRELLULA BALTICA
	Organism Taxid	:	243090
	Strain	:	SH 1

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:17 , ALA A:19 , SER A:45 , THR A:46 , THR A:47 , HOH A:367 , HOH A:376 , HOH A:396 , HOH A:468	BINDING SITE FOR RESIDUE SO4 A 204
2	AC2	SOFTWARE	ASN B:17 , ALA B:19 , SER B:45 , THR B:46 , THR B:47 , HOH B:274 , HOH B:308 , HOH B:355 , HOH B:466	BINDING SITE FOR RESIDUE SO4 B 204
3	AC3	SOFTWARE	ASN C:17 , ALA C:19 , THR C:46 , THR C:47 , HOH C:349 , HOH C:352 , HOH C:371 , HOH C:429 , HOH C:430	BINDING SITE FOR RESIDUE SO4 C 204
4	AC4	SOFTWARE	ASN D:17 , ALA D:19 , SER D:45 , THR D:46 , THR D:47 , HOH D:271 , HOH D:363 , HOH D:392	BINDING SITE FOR RESIDUE SO4 D 204

(no "SS Bond" information available for 3B5M)

Asymmetric Unit

No.	Residues
1	Pro A:113	-	Pro A:114
2	Pro B:113	-	Pro B:114
3	Pro C:113	-	Pro C:114

(no "SAP(SNP)/Variant" information available for 3B5M)

(no "PROSITE Motif" information available for 3B5M)

(no "Exon" information available for 3B5M)

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:194
 aligned with Q7UTD8_RHOBA | Q7UTD8 from UniProtKB/TrEMBL  Length:195

    Alignment length:194
                             1                                                                                                                                                                                                
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189    
         Q7UTD8_RHOBA     - -MILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRESS 193
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b5mA01 A:0-62,A:76-131                                        3b5mA02      3b5mA01 A:0-62,A:76-131                                 3b5mA02 A:63-75,A:132-193                                      CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee.....eeeeee..eee.........eeee.....hhhhhhhhhhheeeeee..hhhhhhhhhhh.......eee........eee....eeeeeeeeeee......eeeeeeeeeee.......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b5m A   0 SLILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRESS 193
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

Chain B from PDB  Type:PROTEIN  Length:195
 aligned with Q7UTD8_RHOBA | Q7UTD8 from UniProtKB/TrEMBL  Length:195

    Alignment length:195
                             1                                                                                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
         Q7UTD8_RHOBA     - -MILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRESSI 194
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b5mB01 B:0-62,B:76-131                                        3b5mB02      3b5mB01 B:0-62,B:76-131                                 3b5mB02 B:63-75,B:132-194                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee.....eeeeee..eee.........eeee.....hhhhhhhhhhheeeeee..hhhhhhhhhhh.......eee........eee....eeeeeeeeeee......eeeeeeeeeee.......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b5m B   0 SLILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRESSI 194
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

Chain C from PDB  Type:PROTEIN  Length:192
 aligned with Q7UTD8_RHOBA | Q7UTD8 from UniProtKB/TrEMBL  Length:195

    Alignment length:192
                             1                                                                                                                                                                                              
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189  
         Q7UTD8_RHOBA     - -MILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRE 191
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3b5mC01 C:0-62,C:76-131                                        3b5mC02      3b5mC01 C:0-62,C:76-131                                 3b5mC02 C:63-75,C:132-191                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeee.....eeeeee..eee.........eeee.....hhhhhhhhhhheeeeee..hhhhhhhhhhh.......eee........eee....eeeeeeeeeee......eeeeeeeeeee.......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3b5m C   0 SLILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRE 191
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

Chain D from PDB  Type:PROTEIN  Length:195
 aligned with Q7UTD8_RHOBA | Q7UTD8 from UniProtKB/TrEMBL  Length:195

    Alignment length:195
                             1                                                                                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189     
         Q7UTD8_RHOBA     - -MILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRESSI 194
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b5mD01 D:0-62,D:76-131                                        3b5mD02      3b5mD01 D:0-62,D:76-131                                 3b5mD02 D:63-75,D:132-194                                       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee.....eeeeee..eee.........eeee.....hhhhhhhhhhheeeeee..hhhhhhhhhhh.......eee........eee....eeeeeeeeeee......eeeeeeeeeee.......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b5m D   0 SLILESLVTTLDEQGRINLAPLGPIVLPPQSPGGLPQFLLRPYEGSTTCDNLLASGNAVIHVIDDALLIAKTAIGKVDASDLVVPIPGLEDTHVRLKRCHRWFAVRVTQRAGTPPRHELTARCLASGLVDPFFGFNRAKHAVIEAAVAATRLHLLPPEEIEEELERARIAIEKTGGEPEREALQLIRRHVRESSI 194
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189

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 3B5M)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Methane Monooxygenase Hydroxylase; Chain G, domain 1 (192)

Homologous Superfamily: Hypothetical membrane protein ta0354_69_121. (5)

Rhodopirellula baltica sh 1. Organism_taxid: 243090. Strain: sh 1. (1)

1a	3b5mC02	C:63-75,C:132-191
1b	3b5mA02	A:63-75,A:132-193
1c	3b5mB02	B:63-75,B:132-194
1d	3b5mD02	D:63-75,D:132-194

Class: Mainly Beta (13760)

Architecture: Roll (1513)

Topology: Pnp Oxidase; Chain A (68)

Homologous Superfamily: Electron Transport, Fmn-binding Protein; Chain A (67)

Rhodopirellula baltica sh 1. Organism_taxid: 243090. Strain: sh 1. (1)

2a	3b5mA01	A:0-62,A:76-131
2b	3b5mB01	B:0-62,B:76-131
2c	3b5mC01	C:0-62,C:76-131
2d	3b5mD01	D:0-62,D:76-131

(no "Pfam Domain" information available for 3B5M)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Q7UTD8_RHOBA | Q7UTD8)

molecular function
	GO:0010181	FMN binding	Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

Asymmetric Unit
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	Cis Peptide Bonds
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		Pro C:113 - Pro C:114	[ RasMol ]

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Description

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Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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