3BB5 - JenaLib

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Title :   CRYSTAL STRUCTURE OF A DIMERIC FERREDOXIN-LIKE PROTEIN OF UNKNOWN FUNCTION (JANN_3925) FROM JANNASCHIA SP. CCS1 AT 2.30 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   09 Nov 07 (Deposition) - 20 Nov 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Dimeric Ferredoxin-Like Protein, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Dimeric Ferredoxin-Like Protein Of Unknown Function (Yp_511867. 1) From Jannaschia Sp. Ccs1 At 2. 30 A Resolution
To Be Published
PubMed: search

Molecule 1 - STRESS RESPONSIVE ALPHA-BETA PROTEIN
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	YP_511867.1, JANN_3925
	Organism Scientific	:	JANNASCHIA SP.
	Organism Taxid	:	290400
	Strain	:	CCS1

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 45)

No.	Name	Count	Type	Full Name
1	CIT	5	Ligand/Ion	CITRIC ACID
2	EDO	4	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	36	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (3, 14)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (3, 15)

No.	Name	Count	Type	Full Name
1	CIT	2	Ligand/Ion	CITRIC ACID
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (3, 16)

No.	Name	Count	Type	Full Name
1	CIT	2	Ligand/Ion	CITRIC ACID
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP C:17 , ARG C:18 , GLU E:11 , ARG E:89 , ASN E:90	BINDING SITE FOR RESIDUE EDO C 103
2	AC2	SOFTWARE	HIS A:4 , TYR A:71 , HIS A:77	BINDING SITE FOR RESIDUE EDO A 103
3	AC3	SOFTWARE	ARG A:79 , PHE E:39 , ARG E:40 , HIS E:41 , VAL F:102	BINDING SITE FOR RESIDUE EDO E 103
4	AC4	SOFTWARE	SER F:51 , GLU F:52 , ARG F:53 , HOH F:118	BINDING SITE FOR RESIDUE EDO F 103
5	AC5	SOFTWARE	GLU C:48 , LYS C:50 , HIS D:4 , TYR D:71 , HIS D:77 , ILE D:95 , HOH D:121	BINDING SITE FOR RESIDUE CIT D 103
6	AC6	SOFTWARE	ARG C:79 , HIS E:4 , VAL E:6 , TYR E:71 , HIS E:77 , GLY E:81 , VAL E:85 , ILE E:95 , HOH E:123 , GLU F:48 , LYS F:50	BINDING SITE FOR RESIDUE CIT E 104
7	AC7	SOFTWARE	GLU E:48 , LYS E:50 , HIS F:4 , TYR F:71 , HIS F:77 , GLY F:81 , ILE F:95 , VAL F:97	BINDING SITE FOR RESIDUE CIT F 104
8	AC8	SOFTWARE	GLU A:48 , LYS A:50 , HIS B:4 , VAL B:6 , PHE B:58 , TYR B:71 , HIS B:77 , ARG B:79 , ILE B:95	BINDING SITE FOR RESIDUE CIT B 103
9	AC9	SOFTWARE	HIS C:4 , TYR C:71 , HIS C:77 , GLY C:81 , VAL C:85 , VAL C:97 , GLU D:48 , LYS D:50 , ARG E:79	BINDING SITE FOR RESIDUE CIT C 104

(no "SS Bond" information available for 3BB5)

(no "Cis Peptide Bond" information available for 3BB5)

(no "SAP(SNP)/Variant" information available for 3BB5)

(no "PROSITE Motif" information available for 3BB5)

(no "Exon" information available for 3BB5)

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:103
 aligned with Q28KC0_JANSC | Q28KC0 from UniProtKB/TrEMBL  Length:102

    Alignment length:103
                             1                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99   
         Q28KC0_JANSC     - -MLYHLVMLEPEGEGAMDRIMEAMAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGMLVASCRNGADGILVVDLEV 102
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bb5A00 A:0-102  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeeeee............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh..hhhh.eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3bb5 A   0 GmLYHLVmLEPEGEGAmDRImEAmAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGmLVASCRNGADGILVVDLEV 102
                             |     | 9      | 19|  |    29        39        49        59        69        79   |    89        99   
                             |     7-MSE   16-MSE  |                                                          83-MSE               
                             1-MSE             20-MSE                                                                              
                                                  23-MSE

Chain B from PDB  Type:PROTEIN  Length:103
 aligned with Q28KC0_JANSC | Q28KC0 from UniProtKB/TrEMBL  Length:102

    Alignment length:103
                             1                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99   
         Q28KC0_JANSC     - -MLYHLVMLEPEGEGAMDRIMEAMAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGMLVASCRNGADGILVVDLEV 102
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bb5B00 B:0-102  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeeeee............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.hhhh.eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3bb5 B   0 GmLYHLVmLEPEGEGAmDRImEAmAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGmLVASCRNGADGILVVDLEV 102
                             |     | 9      | 19|  |    29        39        49        59        69        79   |    89        99   
                             1-MSE 7-MSE   16-MSE  |                                                          83-MSE               
                                               20-MSE                                                                              
                                                  23-MSE

Chain C from PDB  Type:PROTEIN  Length:103
 aligned with Q28KC0_JANSC | Q28KC0 from UniProtKB/TrEMBL  Length:102

    Alignment length:103
                             1                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99   
         Q28KC0_JANSC     - -MLYHLVMLEPEGEGAMDRIMEAMAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGMLVASCRNGADGILVVDLEV 102
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bb5C00 C:0-102  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeeeee............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.hhhh.eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3bb5 C   0 GmLYHLVmLEPEGEGAmDRImEAmAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGmLVASCRNGADGILVVDLEV 102
                             |     | 9      | 19|  |    29        39        49        59        69        79   |    89        99   
                             1-MSE 7-MSE   16-MSE  |                                                          83-MSE               
                                               20-MSE                                                                              
                                                  23-MSE

Chain D from PDB  Type:PROTEIN  Length:108
 aligned with Q28KC0_JANSC | Q28KC0 from UniProtKB/TrEMBL  Length:102

    Alignment length:108
                                  1                                                                                                     
                                  |  4        14        24        34        44        54        64        74        84        94        
         Q28KC0_JANSC     - ------MLYHLVMLEPEGEGAMDRIMEAMAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGMLVASCRNGADGILVVDLEV 102
               SCOP domains ------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3bb5D00 D:-5-102  [code=3.30.70.900, no name defined]                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeeeee............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh..hhhh.eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------ Transcript
                 3bb5 D  -5 NLYFQGmLYHLVmLEPEGEGAmDRImEAmAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGmLVASCRNGADGILVVDLEV 102
                                  |  4  |     14 |   |  24        34        44        54        64        74        84        94        
                                  1-MSE 7-MSE   16-MSE  |                                                          83-MSE               
                                                    20-MSE                                                                              
                                                       23-MSE

Chain E from PDB  Type:PROTEIN  Length:104
 aligned with Q28KC0_JANSC | Q28KC0 from UniProtKB/TrEMBL  Length:102

    Alignment length:104
                              1                                                                                                     
                              |      8        18        28        38        48        58        68        78        88        98    
         Q28KC0_JANSC     - --MLYHLVMLEPEGEGAMDRIMEAMAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGMLVASCRNGADGILVVDLEV 102
               SCOP domains -------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bb5E00 E:-1-102  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeeeee............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh..hhhh.eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 3bb5 E  -1 QGmLYHLVmLEPEGEGAmDRImEAmAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGmLVASCRNGADGILVVDLEV 102
                              |     |8       |18 |  |   28        38        48        58        68        78    |   88        98    
                              1-MSE 7-MSE   16-MSE  |                                                          83-MSE               
                                                20-MSE                                                                              
                                                   23-MSE

Chain F from PDB  Type:PROTEIN  Length:103
 aligned with Q28KC0_JANSC | Q28KC0 from UniProtKB/TrEMBL  Length:102

    Alignment length:103
                             1                                                                                                     
                             |       9        19        29        39        49        59        69        79        89        99   
         Q28KC0_JANSC     - -MLYHLVMLEPEGEGAMDRIMEAMAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGMLVASCRNGADGILVVDLEV 102
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bb5F00 F:0-102  [code=3.30.70.900, no name defined]                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhhhhhhhhhh..eeeeeeee............eeeeeee.hhhhhhhhhhhhhhhhhhhhhhh...hhhh.eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3bb5 F   0 GmLYHLVmLEPEGEGAmDRImEAmAILDGLAPELPGLTEFRHGPNRDFEQKSERYPYGFLCTFTDKAALDAYAVHPTHQRAGGmLVASCRNGADGILVVDLEV 102
                             |     | 9      | 19|  |    29        39        49        59        69        79   |    89        99   
                             1-MSE 7-MSE   16-MSE  |                                                          83-MSE               
                                               20-MSE                                                                              
                                                  23-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 3BB5)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: [code=3.30.70.900, no name defined] (47)

Ccs1 (Jannaschia sp) (1)

1a	3bb5D00	D:-5-102
1b	3bb5E00	E:-1-102
1c	3bb5A00	A:0-102
1d	3bb5B00	B:0-102
1e	3bb5C00	C:0-102
1f	3bb5F00	F:0-102

(no "Pfam Domain" information available for 3BB5)

Asymmetric Unit(hide GO term definitions)

(no "Gene Ontology" information available for 3BB5)

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Description

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Ligands, Modified Residues, Ions (3, 45)

Sites (9, 9)

SS Bonds (0, 0)

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