2XEV - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE TPR DOMAIN OF XANTHOMONAS CAMPESTRIS YBGF

Authors :   A. M. Krachler, A. Sharma, C. Kleanthous

Date :   18 May 10 (Deposition) - 15 Sep 10 (Release) - 20 Apr 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.57

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

Keywords :   Tetratricopeptide, Alpha-Helical, Metal Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. M. Krachler, A. Sharma, A. Cauldwell, G. Papadakos, C. Kleanthous
Tola Modulates The Oligomeric Status Of Ybgf In The Bacterial Periplasm.
J. Mol. Biol. V. 403 270 2010
PubMed-ID: 20816983 | Reference-DOI: 10.1016/J.JMB.2010.08.050

Molecule 1 - YBGF
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	TPR DOMAIN, RESIDUES 146-272
	Organism Scientific	:	XANTHOMONAS CAMPESTRIS
	Organism Taxid	:	339

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 7)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	ZN	6	Ligand/Ion	ZINC ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS B:16 , ASP B:19 , GLU C:58 , GLN C:85 , GLU C:88 , LYS C:90 , ZN C:1126	BINDING SITE FOR RESIDUE CL C1125
2	AC2	SOFTWARE	ASP B:19 , GLU C:58 , GLU C:88 , CL C:1125	BINDING SITE FOR RESIDUE ZN C1126
3	AC3	SOFTWARE	GLN A:22 , ASN B:53 , PHE B:54 , GLN B:55 , LEU B:56 , HOH B:2036	BINDING SITE FOR RESIDUE ZN B1125
4	AC4	SOFTWARE	GLU A:58 , GLU A:88 , ZN A:1123 , ASP C:19	BINDING SITE FOR RESIDUE ZN C1127
5	AC5	SOFTWARE	GLU A:58 , GLU A:88 , GLU A:93 , ZN C:1127	BINDING SITE FOR RESIDUE ZN A1123
6	AC6	SOFTWARE	ASP A:19 , GLU B:58 , GLU B:88 , ZN B:1127	BINDING SITE FOR RESIDUE ZN B1126
7	AC7	SOFTWARE	GLU B:58 , GLN B:85 , GLU B:88 , LYS B:90 , GLU B:93 , ZN B:1126	BINDING SITE FOR RESIDUE ZN B1127

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

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

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

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

(no "Exon" information available for 2XEV)

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:121
 aligned with Q8P6F4_XANCP | Q8P6F4 from UniProtKB/TrEMBL  Length:272

    Alignment length:121
                                   155       165       175       185       195       205       215       225       235       245       255       265 
         Q8P6F4_XANCP   146 RTAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIR 266
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xev A   2 RTAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIR 122
                                    11        21        31        41        51        61        71        81        91       101       111       121

Chain B from PDB  Type:PROTEIN  Length:124
 aligned with Q8P6F4_XANCP | Q8P6F4 from UniProtKB/TrEMBL  Length:272

    Alignment length:124
                                   154       164       174       184       194       204       214       224       234       244       254       264    
         Q8P6F4_XANCP   145 ERTAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIRLG 268
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xev B   1 ARTAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIRLG 124
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain C from PDB  Type:PROTEIN  Length:122
 aligned with Q8P6F4_XANCP | Q8P6F4 from UniProtKB/TrEMBL  Length:272

    Alignment length:122
                                   156       166       176       186       196       206       216       226       236       246       256       266  
         Q8P6F4_XANCP   147 TAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIRLG 268
               SCOP domains -------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------------TPR_2-2xevC01 C:38-71             -----TPR_6-2xevC07 C:77-108          ---------------- Pfam domains (1)
           Pfam domains (2) -----------------------------------TPR_2-2xevC02 C:38-71             -----TPR_6-2xevC08 C:77-108          ---------------- Pfam domains (2)
           Pfam domains (3) -----------------------------------TPR_2-2xevC03 C:38-71             -----TPR_6-2xevC09 C:77-108          ---------------- Pfam domains (3)
           Pfam domains (4) -----------------------------------TPR_2-2xevC04 C:38-71             ----------------------------------------------------- Pfam domains (4)
           Pfam domains (5) -----------------------------------TPR_2-2xevC05 C:38-71             ----------------------------------------------------- Pfam domains (5)
           Pfam domains (6) -----------------------------------TPR_2-2xevC06 C:38-71             ----------------------------------------------------- Pfam domains (6)
         Sec.struct. author hhhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xev C   3 TAYNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQSIRLG 124
                                    12        22        32        42        52        62        72        82        92       102       112       122

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 2XEV)

(no "CATH Domain" information available for 2XEV)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TPR (230)

Family: TPR_2 (8)

Xanthomonas campestris pv. campestris (1)

1a	TPR_2-2xevC01	C:38-71
1b	TPR_2-2xevC02	C:38-71
1c	TPR_2-2xevC03	C:38-71
1d	TPR_2-2xevC04	C:38-71
1e	TPR_2-2xevC05	C:38-71
1f	TPR_2-2xevC06	C:38-71

Family: TPR_6 (3)

Xanthomonas campestris pv. campestris (1)

2a	TPR_6-2xevC07	C:77-108
2b	TPR_6-2xevC08	C:77-108
2c	TPR_6-2xevC09	C:77-108

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (Q8P6F4_XANCP | Q8P6F4)

molecular function
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0070206	protein trimerization	The formation of a protein trimer, a macromolecular structure consisting of three noncovalently associated identical or nonidentical subunits.

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Biological Units
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2wz7	CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF E.COLI YBGF
2xdj	CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF E.COLI YBGF

Description

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Ligands, Modified Residues, Ions (2, 7)

Sites (7, 7)

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