2CVL - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF TTHA0137 FROM THERMUS THERMOPHILUS HB8

Authors :   H. Wang, K. Murayama, T. Terada, M. Shirouzu, S. Kuramitsu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   08 Jun 05 (Deposition) - 08 Dec 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.65

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

Keywords :   Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Wang, K. Murayama, T. Terada, M. Shirouzu, S. Kuramitsu, S. Yokoyama
Crystal Structure Of Ttha0137 From Thermus Thermophilus Hb8
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - PROTEIN TRANSLATION INITIATION INHIBITOR
	Chains	:	A, B, C, D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	THERMUS THERMOPHILUS
	Organism Taxid	:	274
	Synonym	:	TTHA0137

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 18)

No.	Name	Count	Type	Full Name
1	MSE	18	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 9)

No.	Name	Count	Type	Full Name
1	MSE	9	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 9)

No.	Name	Count	Type	Full Name
1	MSE	9	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 2CVL)

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

Asymmetric Unit

No.	Residues
1	Pro A:96	-	Pro A:97
2	Pro B:96	-	Pro B:97
3	Pro C:96	-	Pro C:97
4	Pro D:96	-	Pro D:97
5	Pro E:96	-	Pro E:97
6	Pro F:96	-	Pro F:97

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

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

(no "Exon" information available for 2CVL)

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:124
 aligned with Q5SM06_THET8 | Q5SM06 from UniProtKB/TrEMBL  Length:124

    Alignment length:124
                                    10        20        30        40        50        60        70        80        90       100       110       120    
         Q5SM06_THET8     1 MEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVMENLKAVLEAAGSGLSRVVQTTCFLADMEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
               SCOP domains d2cvla_ A: automated matches                                                                                                 SCOP domains
               CATH domains -2cvlA00 A:2-124  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cvl A   1 mEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVmENLKAVLEAAGSGLSRVVQTTCFLADmEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
                            |       10        20        30        40        50  |     60        70        80        90       100       110       120    
                            |                                                  53-MSE                     80-MSE                                        
                            1-MSE

Chain B from PDB  Type:PROTEIN  Length:124
 aligned with Q5SM06_THET8 | Q5SM06 from UniProtKB/TrEMBL  Length:124

    Alignment length:124
                                    10        20        30        40        50        60        70        80        90       100       110       120    
         Q5SM06_THET8     1 MEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVMENLKAVLEAAGSGLSRVVQTTCFLADMEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
               SCOP domains d2cvlb_ B: automated matches                                                                                                 SCOP domains
               CATH domains -2cvlB00 B:2-124  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cvl B   1 mEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVmENLKAVLEAAGSGLSRVVQTTCFLADmEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
                            |       10        20        30        40        50  |     60        70        80        90       100       110       120    
                            1-MSE                                              53-MSE                     80-MSE

Chain C from PDB  Type:PROTEIN  Length:124
 aligned with Q5SM06_THET8 | Q5SM06 from UniProtKB/TrEMBL  Length:124

    Alignment length:124
                                    10        20        30        40        50        60        70        80        90       100       110       120    
         Q5SM06_THET8     1 MEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVMENLKAVLEAAGSGLSRVVQTTCFLADMEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
               SCOP domains d2cvlc_ C: automated matches                                                                                                 SCOP domains
               CATH domains -2cvlC00 C:2-124  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cvl C   1 mEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVmENLKAVLEAAGSGLSRVVQTTCFLADmEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
                            |       10        20        30        40        50  |     60        70        80        90       100       110       120    
                            1-MSE                                              53-MSE                     80-MSE

Chain D from PDB  Type:PROTEIN  Length:124
 aligned with Q5SM06_THET8 | Q5SM06 from UniProtKB/TrEMBL  Length:124

    Alignment length:124
                                    10        20        30        40        50        60        70        80        90       100       110       120    
         Q5SM06_THET8     1 MEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVMENLKAVLEAAGSGLSRVVQTTCFLADMEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
               SCOP domains d2cvld_ D: automated matches                                                                                                 SCOP domains
               CATH domains -2cvlD00 D:2-124  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cvl D   1 mEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVmENLKAVLEAAGSGLSRVVQTTCFLADmEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
                            |       10        20        30        40        50  |     60        70        80        90       100       110       120    
                            1-MSE                                              53-MSE                     80-MSE

Chain E from PDB  Type:PROTEIN  Length:124
 aligned with Q5SM06_THET8 | Q5SM06 from UniProtKB/TrEMBL  Length:124

    Alignment length:124
                                    10        20        30        40        50        60        70        80        90       100       110       120    
         Q5SM06_THET8     1 MEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVMENLKAVLEAAGSGLSRVVQTTCFLADMEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
               SCOP domains d2cvle_ E: automated matches                                                                                                 SCOP domains
               CATH domains -2cvlE00 E:2-124  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhhh.....eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cvl E   1 mEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVmENLKAVLEAAGSGLSRVVQTTCFLADmEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
                            |       10        20        30        40        50  |     60        70        80        90       100       110       120    
                            1-MSE                                              53-MSE                     80-MSE

Chain F from PDB  Type:PROTEIN  Length:124
 aligned with Q5SM06_THET8 | Q5SM06 from UniProtKB/TrEMBL  Length:124

    Alignment length:124
                                    10        20        30        40        50        60        70        80        90       100       110       120    
         Q5SM06_THET8     1 MEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVMENLKAVLEAAGSGLSRVVQTTCFLADMEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
               SCOP domains d2cvlf_ F: automated matches                                                                                                 SCOP domains
               CATH domains -2cvlF00 F:2-124  [code=3.30.1330.40, no name defined]                                                                       CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..............eeee..eeeeeee............hhhhhhhhhhhhhhhhhhhh..hhh.eeeeeeee.hhhhhhhhhhhhhhh......eeeeee...hhhhh.eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cvl F   1 mEAVKTDRAPAAIGPYAQAVKAGGFVFVSGQIPLAPDGSLVEGDIRVQTERVmENLKAVLEAAGSGLSRVVQTTCFLADmEDFPGFNEVYARYFTPPYPARATVAVKALPRGVRVEVACVALAE 124
                            |       10        20        30        40        50  |     60        70        80        90       100       110       120    
                            1-MSE                                              53-MSE                     80-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: Bacillus chorismate mutase-like (324)

Superfamily: YjgF-like (45)

Family: YjgF/L-PSP (23)

Protein domain: automated matches (8)

Thermus thermophilus [TaxId: 274] (2)

1a	d2cvla_	A:
1b	d2cvlb_	B:
1c	d2cvlc_	C:
1d	d2cvld_	D:
1e	d2cvle_	E:
1f	d2cvlf_	F:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: 60s Ribosomal Protein L30; Chain: A; (235)

Homologous Superfamily: [code=3.30.1330.40, no name defined] (35)

Thermus thermophilus. Organism_taxid: 274. (3)

1a	2cvlA00	A:2-124
1b	2cvlB00	B:2-124
1c	2cvlC00	C:2-124
1d	2cvlD00	D:2-124
1e	2cvlE00	E:2-124
1f	2cvlF00	F:2-124

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

Asymmetric Unit(hide GO term definitions)

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

Asymmetric Unit
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	Sites
(no "Sites" information available for 2cvl)

	Cis Peptide Bonds
		Pro A:96 - Pro A:97	[ RasMol ]
		Pro B:96 - Pro B:97	[ RasMol ]
		Pro C:96 - Pro C:97	[ RasMol ]
		Pro D:96 - Pro D:97	[ RasMol ]
		Pro E:96 - Pro E:97	[ RasMol ]
		Pro F:96 - Pro F:97	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 18)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (6, 6)

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