1VLA - JenaLib

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Title :   CRYSTAL STRUCTURE OF HYDROPEROXIDE RESISTANCE PROTEIN OSMC (TM0919) FROM THERMOTOGA MARITIMA AT 1.80 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   15 Jul 04 (Deposition) - 17 Aug 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Tm0919, Hydroperoxide Resistance Protein Osmc, Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Joint Center For Structural Genomics, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hydroperoxide Resistance Protein Osmc (Tm0919) From Thermotoga Maritima At 1. 80 A Resolution
To Be Published
PubMed: search

Molecule 1 - HYDROPEROXIDE RESISTANCE PROTEIN OSMC
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	TM0919
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	243274
	Strain	:	MSB8

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 32)

No.	Name	Count	Type	Full Name
1	MSE	32	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 16)

No.	Name	Count	Type	Full Name
1	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 16)

No.	Name	Count	Type	Full Name
1	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (1, 32)

No.	Name	Count	Type	Full Name
1	MSE	32	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 1VLA)

(no "SS Bond" information available for 1VLA)

Asymmetric Unit

No.	Residues
1	His A:82	-	Pro A:83
2	His B:82	-	Pro B:83
3	His C:82	-	Pro C:83
4	His D:82	-	Pro D:83

(no "SAP(SNP)/Variant" information available for 1VLA)

(no "PROSITE Motif" information available for 1VLA)

(no "Exon" information available for 1VLA)

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:144
 aligned with Q9X021_THEMA | Q9X021 from UniProtKB/TrEMBL  Length:138

    Alignment length:144
                                  1                                                                                                                                         
                                  |  4        14        24        34        44        54        64        74        84        94       104       114       124       134    
         Q9X021_THEMA     - ------MQARWIGNMMFHVRTDSNHDVLMDTKEEVGGKDAAPRPLELVLTGLMGCTGMDVVSILRKMKVIDQMKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYEN 138
               SCOP domains d1vlaa_ A: Hypothetical protein TM0919                                                                                                           SCOP domains
               CATH domains 1vlaA01 A:-5-36                           1vlaA02 A:37-138  [code=3.30.300.20, no name defined]                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeeee..eeeee.....eeee..hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeeeee.......eeeeeeeeeeee....hhhhhhhhhhhhhhh..............eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1vla A  -5 HHHHHHmQARWIGNmmFHVRTDSNHDVLmDTKEEVGGKDAAPRPLELVLTGLmGCTGmDVVSILRKmKVIDQmKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYEN 138
                                  |  4    ||  14        24        34        44  |    |54      | 64  |     74        84        94       104       114       124       134    
                                  1-MSE   9-MSE        23-MSE                  47-MSE|       61-MSE |                                                                       
                                          10-MSE                                    52-MSE         67-MSE

Chain B from PDB  Type:PROTEIN  Length:142
 aligned with Q9X021_THEMA | Q9X021 from UniProtKB/TrEMBL  Length:138

    Alignment length:142
                                1                                                                                                                                         
                                |    6        16        26        36        46        56        66        76        86        96       106       116       126       136  
         Q9X021_THEMA     - ----MQARWIGNMMFHVRTDSNHDVLMDTKEEVGGKDAAPRPLELVLTGLMGCTGMDVVSILRKMKVIDQMKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYEN 138
               SCOP domains d1vlab_ B: Hypothetical protein TM0919                                                                                                         SCOP domains
               CATH domains 1vlaB01 B:-3-36                         1vlaB02 B:37-138  [code=3.30.300.20, no name defined]                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee..eeeee.....eeee..hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeeeee.......eeeeeeeeeeee....hhhhhhhhhhhhhhh..............eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vla B  -3 HHHHmQARWIGNmmFHVRTDSNHDVLmDTKEEVGGKDAAPRPLELVLTGLmGCTGmDVVSILRKmKVIDQmKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYEN 138
                                |    6  ||    16      | 26        36        46|    |  56    |   66|       76        86        96       106       116       126       136  
                                1-MSE   9-MSE        23-MSE                  47-MSE|       61-MSE |                                                                       
                                        10-MSE                                    52-MSE         67-MSE

Chain C from PDB  Type:PROTEIN  Length:140
 aligned with Q9X021_THEMA | Q9X021 from UniProtKB/TrEMBL  Length:138

    Alignment length:140
                              1                                                                                                                                         
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138
         Q9X021_THEMA     - --MQARWIGNMMFHVRTDSNHDVLMDTKEEVGGKDAAPRPLELVLTGLMGCTGMDVVSILRKMKVIDQMKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYEN 138
               SCOP domains d1vlac_ C: Hypothetical protein TM0919                                                                                                       SCOP domains
               CATH domains 1vlaC01 C:-1-36                       1vlaC02 C:37-138  [code=3.30.300.20, no name defined]                                                  CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeee.....eeee..hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeeeee.......eeeeeeeeeeee....hhhhhhhhhhhhhhh..............eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vla C  -1 HHmQARWIGNmmFHVRTDSNHDVLmDTKEEVGGKDAAPRPLELVLTGLmGCTGmDVVSILRKmKVIDQmKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYEN 138
                              |      8||      18    |   28        38        48   |    58  |     68        78        88        98       108       118       128       138
                              1-MSE   9-MSE        23-MSE                  47-MSE|       61-MSE |                                                                       
                                      10-MSE                                    52-MSE         67-MSE

Chain D from PDB  Type:PROTEIN  Length:137
 aligned with Q9X021_THEMA | Q9X021 from UniProtKB/TrEMBL  Length:138

    Alignment length:137
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       
         Q9X021_THEMA     1 MQARWIGNMMFHVRTDSNHDVLMDTKEEVGGKDAAPRPLELVLTGLMGCTGMDVVSILRKMKVIDQMKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYE 137
               SCOP domains d1vlad_ D: Hypothetical protein TM0919                                                                                                    SCOP domains
               CATH domains -1vlaD01 D:2-36                     1vlaD02 D:37-137  [code=3.30.300.20, no name defined]                                                 CATH domains
           Pfam domains (1) -----------------------------OsmC-1vlaD01 D:30-133                                                                                   ---- Pfam domains (1)
           Pfam domains (2) -----------------------------OsmC-1vlaD02 D:30-133                                                                                   ---- Pfam domains (2)
           Pfam domains (3) -----------------------------OsmC-1vlaD03 D:30-133                                                                                   ---- Pfam domains (3)
           Pfam domains (4) -----------------------------OsmC-1vlaD04 D:30-133                                                                                   ---- Pfam domains (4)
         Sec.struct. author .eeeeee..eeeee.....eeee..hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeeeee.......eeeeeeeeeeee....hhhhhhhhhhhhhhh..............eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vla D   1 mQARWIGNmmFHVRTDSNHDVLmDTKEEVGGKDAAPRPLELVLTGLmGCTGmDVVSILRKmKVIDQmKDFRIEIEYERTEEHPRIFTKVHLKYIFKFDGEPPKDKVEKAVQLSQEKYCSVSAILKCSSKVTYEIVYE 137
                            |       10        20  |     30        40      | 50 |      60|     | 70        80        90       100       110       120       130       
                            1-MSE   9-MSE        23-MSE                  47-MSE|       61-MSE |                                                                      
                                    10-MSE                                    52-MSE         67-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: OsmC-like (20)

Superfamily: OsmC-like (20)

Family: YhfA-like (2)

Protein domain: Hypothetical protein TM0919 (1)

Thermotoga maritima [TaxId: 2336] (1)

1a	d1vlaa_	A:
1b	d1vlab_	B:
1c	d1vlac_	C:
1d	d1vlad_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: GMP Synthetase; Chain A, domain 3 (192)

Homologous Superfamily: [code=3.30.300.20, no name defined] (129)

Thermotoga maritima msb8. Organism_taxid: 243274. Strain: msb8. (1)

1a	1vlaA02	A:37-138
1b	1vlaB02	B:37-138
1c	1vlaC02	C:37-138
1d	1vlaD02	D:37-137

Class: Mainly Beta (13760)

Architecture: Single Sheet (341)

Topology: N-terminal domain of TfIIb (166)

Homologous Superfamily: [code=2.20.25.10, no name defined] (79)

Thermotoga maritima msb8. Organism_taxid: 243274. Strain: msb8. (1)

2a	1vlaA01	A:-5-36
2b	1vlaB01	B:-3-36
2c	1vlaC01	C:-1-36
2d	1vlaD01	D:2-36

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: OsmC] (11)

Family: OsmC (11)

Thermotoga maritima (1)

1a	OsmC-1vlaD01	D:30-133
1b	OsmC-1vlaD02	D:30-133
1c	OsmC-1vlaD03	D:30-133
1d	OsmC-1vlaD04	D:30-133

Asymmetric Unit(hide GO term definitions)

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		His B:82 - Pro B:83	[ RasMol ]
		His C:82 - Pro C:83	[ RasMol ]
		His D:82 - Pro D:83	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (1, 32)

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Cis Peptide Bonds (4, 4)

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