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Title :   CRYSTAL STRUCTURE OF A A MARINE METAGENOME PROTEIN (JCVI_PEP_1096685590403) FROM UNCULTURED MARINE ORGANISM AT 2.53 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   09 Apr 07 (Deposition) - 24 Apr 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.53

Chains :   Asym./Biol. Unit : A,B,C,D,E

Keywords :   Metagenomics Target, 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 Uncharacterized Protein (Jcvi_pep_1096685590403) From An Environmental Metagenome (Unidentified Marine Microbe), Sorcerer Ii Global Ocean Sampling Experiment At 2. 53 A Resolution
To Be Published
PubMed: search

Molecule 1 - UNCHARACTERIZED PROTEIN
	Chains	:	A, B, C, D, E
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	UNCULTURED MARINE ORGANISM
	Organism Taxid	:	360281

		1	2	3	4	5
Asymmetric/Biological Unit	:	A	B	C	D	E

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 42)

No.	Name	Count	Type	Full Name
1	CL	6	Ligand/Ion	CHLORIDE ION
2	MSE	36	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG D:19 , SER D:46	BINDING SITE FOR RESIDUE CL D 207
2	AC2	SOFTWARE	THR A:118 , TYR A:179 , TYR A:188 , ARG A:200	BINDING SITE FOR RESIDUE CL A 207
3	AC3	SOFTWARE	THR B:118 , TYR B:179 , ARG B:200	BINDING SITE FOR RESIDUE CL B 207
4	AC4	SOFTWARE	THR C:118 , TYR C:179 , ARG C:200	BINDING SITE FOR RESIDUE CL C 207
5	AC5	SOFTWARE	THR D:118 , TYR D:179 , ARG D:200	BINDING SITE FOR RESIDUE CL D 208
6	AC6	SOFTWARE	THR E:118 , TYR E:179 , ARG E:200	BINDING SITE FOR RESIDUE CL E 207

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

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

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

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

(no "Exon" information available for 2PGC)

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
	(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:207
                                                                                                                                                                                                                                               
               SCOP domains -d2pgca1 A:1-206 Uncharacterized protein GOS_2596953                                                                                                                                                            SCOP domains
               CATH domains 2pgcA01 A:0-100  [code=3.30.70.900, no name defined]                                                 2pgcA02 A:101-206  [code=3.30.70.900, no name defined]                                                     CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeee...hhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee.............eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee.........eeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pgc A   0 GmSNINYVILTVASVDFSYRETmARLmSSYSKDLIDNAGAKGTRFGSIGTGDHAGSLIFIQFYDDLTGYQKALEIQSKSSVFKEImDSGKANIYLRNISTSLPTKFEQSYEHPKYIVLTRAEAAmSDKDKFLNCINDTASCFKDNGALTLRFGNLLTGSNVGNYLLGVGYPSmEAIEKTYDELLAHSSYKELmTFAKVNmRNIIKIL 206
                             |       9        19  |   | 29        39        49        59        69        79     |  89        99       109       119    |  129       139       149       159       169  |    179       189  |    199       
                             |                   22-MSE                                                         85-MSE                                124-MSE                                         172-MSE             192-MSE  |       
                             1-MSE                   26-MSE                                                                                                                                                                      199-MSE

Chain B from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains d2pgcb_ B: Uncharacterized protein GOS_2596953                                                                                                                                                                SCOP domains
               CATH domains 2pgcB01 B:2-100  [code=3.30.70.900, no name defined]                                               2pgcB02 B:101-206  [code=3.30.70.900, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee...hhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeee.............eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee.........eeeeeee.hhhhhhhhhhhhh.hhhhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pgc B   2 SNINYVILTVASVDFSYRETmARLmSSYSKDLIDNAGAKGTRFGSIGTGDHAGSLIFIQFYDDLTGYQKALEIQSKSSVFKEImDSGKANIYLRNISTSLPTKFEQSYEHPKYIVLTRAEAAmSDKDKFLNCINDTASCFKDNGALTLRFGNLLTGSNVGNYLLGVGYPSmEAIEKTYDELLAHSSYKELmTFAKVNmRNIIKIL 206
                                    11        21|   |   31        41        51        61        71        81   |    91       101       111       121  |    131       141       151       161       171|      181       191|      201     
                                               22-MSE                                                         85-MSE                                124-MSE                                         172-MSE             192-MSE  |       
                                                   26-MSE                                                                                                                                                                      199-MSE

Chain C from PDB  Type:PROTEIN  Length:203
                                                                                                                                                                                                                                           
               SCOP domains d2pgcc_ C: Uncharacterized protein GOS_2596953                                                                                                                                                              SCOP domains
               CATH domains 2pgcC01 C:4-100  [code=3.30.70.900, no name defined]                                             2pgcC02 C:101-206  [code=3.30.70.900, no name defined]                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeee...hhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee.............eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee.........eeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pgc C   4 INYVILTVASVDFSYRETmARLmSSYSKDLIDNAGAKGTRFGSIGTGDHAGSLIFIQFYDDLTGYQKALEIQSKSSVFKEImDSGKANIYLRNISTSLPTKFEQSYEHPKYIVLTRAEAAmSDKDKFLNCINDTASCFKDNGALTLRFGNLLTGSNVGNYLLGVGYPSmEAIEKTYDELLAHSSYKELmTFAKVNmRNIIKIL 206
                                    13        23  |     33        43        53        63        73        83 |      93       103       113       123|      133       143       153       163       173       183       193     | 203   
                                             22-MSE                                                         85-MSE                                124-MSE                                         172-MSE             192-MSE  |       
                                                 26-MSE                                                                                                                                                                      199-MSE

Chain D from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains d2pgcd_ D: Uncharacterized protein GOS_2596953                                                                                                                                                                SCOP domains
               CATH domains 2pgcD01 D:2-100  [code=3.30.70.900, no name defined]                                               2pgcD02 D:101-206  [code=3.30.70.900, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee...hhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeee.............eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee.........eeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pgc D   2 SNINYVILTVASVDFSYRETmARLmSSYSKDLIDNAGAKGTRFGSIGTGDHAGSLIFIQFYDDLTGYQKALEIQSKSSVFKEImDSGKANIYLRNISTSLPTKFEQSYEHPKYIVLTRAEAAmSDKDKFLNCINDTASCFKDNGALTLRFGNLLTGSNVGNYLLGVGYPSmEAIEKTYDELLAHSSYKELmTFAKVNmRNIIKIL 206
                                    11        21|   |   31        41        51        61        71        81   |    91       101       111       121  |    131       141       151       161       171|      181       191|      201     
                                               22-MSE                                                         85-MSE                                124-MSE                                         172-MSE             192-MSE  |       
                                                   26-MSE                                                                                                                                                                      199-MSE

Chain E from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains d2pgce_ E: Uncharacterized protein GOS_2596953                                                                                                                                                                SCOP domains
               CATH domains 2pgcE01 E:2-100  [code=3.30.70.900, no name defined]                                               2pgcE02 E:101-206  [code=3.30.70.900, no name defined]                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee...hhhhhhhhhhhhhhhhhhhh....eeeeee........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeeeee.............eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee.........eeeeeee.hhhhhhhhhhhhh.hhhhhhhh...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pgc E   2 SNINYVILTVASVDFSYRETmARLmSSYSKDLIDNAGAKGTRFGSIGTGDHAGSLIFIQFYDDLTGYQKALEIQSKSSVFKEImDSGKANIYLRNISTSLPTKFEQSYEHPKYIVLTRAEAAmSDKDKFLNCINDTASCFKDNGALTLRFGNLLTGSNVGNYLLGVGYPSmEAIEKTYDELLAHSSYKELmTFAKVNmRNIIKIL 206
                                    11        21|   |   31        41        51        61        71        81   |    91       101       111       121  |    131       141       151       161       171|      181       191|      201     
                                               22-MSE                                                         85-MSE                                124-MSE                                         172-MSE             192-MSE  |       
                                                   26-MSE                                                                                                                                                                      199-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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Ferredoxin-like (1795)

Superfamily: Dimeric alpha+beta barrel (122)

Family: Marine metagenome family DABB3 (1)

Protein domain: Uncharacterized protein GOS_2596953 (1)

Environmental samples (1)

1a	d2pgca1	A:1-206
1b	d2pgcb_	B:
1c	d2pgcc_	C:
1d	d2pgcd_	D:
1e	d2pgce_	E:

Asymmetric/Biological 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)

Uncultured marine organism. Organism_taxid: 360281. (1)

1a	2pgcA02	A:101-206
1b	2pgcB02	B:101-206
1c	2pgcC02	C:101-206
1d	2pgcD02	D:101-206
1e	2pgcE02	E:101-206
1f	2pgcA01	A:0-100
1g	2pgcB01	B:2-100
1h	2pgcD01	D:2-100
1i	2pgcE01	E:2-100
1j	2pgcC01	C:4-100

(no "Pfam Domain" information available for 2PGC)

Asymmetric/Biological Unit(hide GO term definitions)

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

Asymmetric/Biological Unit
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Description

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Ligands, Modified Residues, Ions (2, 42)

Sites (6, 6)

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