3I9H - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Biological Unit 6 (Jmol Viewer)

Biological Unit 7 (Jmol Viewer)

Biological Unit 8 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF A BETAGAMMA-CRYSTALLIN DOMAIN FROM CLOSTRIDIUM BEIJERINCKII

Authors :   P. Aravind, R. Sankaranarayanan

Date :   11 Jul 09 (Deposition) - 01 Dec 09 (Release) - 01 Dec 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: E  (1x)
Biol. Unit 6: F  (1x)
Biol. Unit 7: G  (1x)
Biol. Unit 8: H  (1x)

Keywords :   Calcium-Bound Betagamma-Crystallin, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Aravind, A. Mishra, S. K. Suman, M. K. Jobby, R. Sankaranarayanan, Y. Sharma
Betagamma-Crystallin Superfamily Contains A Universal Motif For Binding Calcium.
Biochemistry 2009
PubMed-ID: 19921810 | Reference-DOI: 10.1021/BI9017076
(for further references see the PDB file header)

Molecule 1 - BETA AND GAMMA CRYSTALLIN
	Chains	:	A, B, C, D, E, F, G, H
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 119-206
	Gene	:	5294019
	Organism Common	:	CLOSTRIDIUM ACETOBUTYLICUM
	Organism Scientific	:	CLOSTRIDIUM BEIJERINCKII
	Organism Taxid	:	290402
	Strain	:	NCIMB 8052

		1	2	3	4	5	6	7	8
Asymmetric Unit	:	A	B	C	D	E	F	G	H
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D
Biological Unit 5 (1x)	:					E
Biological Unit 6 (1x)	:						F
Biological Unit 7 (1x)	:							G
Biological Unit 8 (1x)	:								H

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 16)

No.	Name	Count	Type	Full Name
1	CA	16	Ligand/Ion	CALCIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 5 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 6 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 7 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 8 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Asymmetric Unit (16, 16)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:8 , TRP A:38 , THR A:40 , ASP A:78 , HOH A:92 , HOH A:93 , HOH A:96	BINDING SITE FOR RESIDUE CA A 101
02	AC2	SOFTWARE	ASP A:37 , GLU A:54 , LYS A:79 , THR A:81 , HOH A:98 , HOH A:100 , HOH A:104	BINDING SITE FOR RESIDUE CA A 102
03	AC3	SOFTWARE	GLU B:8 , TRP B:38 , THR B:40 , ASP B:78 , HOH B:93 , HOH B:100 , HOH B:384	BINDING SITE FOR RESIDUE CA B 103
04	AC4	SOFTWARE	ASP B:37 , GLU B:54 , LYS B:79 , THR B:81 , HOH B:91 , HOH B:105 , HOH B:115	BINDING SITE FOR RESIDUE CA B 104
05	AC5	SOFTWARE	GLU C:8 , TRP C:38 , THR C:40 , ASP C:78 , HOH C:93 , HOH C:223 , HOH C:792	BINDING SITE FOR RESIDUE CA C 105
06	AC6	SOFTWARE	ASP C:37 , GLU C:54 , LYS C:79 , THR C:81 , HOH C:122 , HOH C:130 , HOH C:825	BINDING SITE FOR RESIDUE CA C 106
07	AC7	SOFTWARE	GLU D:8 , TRP D:38 , THR D:40 , ASP D:78 , HOH D:94 , HOH D:416 , HOH D:824	BINDING SITE FOR RESIDUE CA D 107
08	AC8	SOFTWARE	ASP D:37 , GLU D:54 , LYS D:79 , THR D:81 , HOH D:90 , HOH D:184 , HOH D:197	BINDING SITE FOR RESIDUE CA D 108
09	AC9	SOFTWARE	GLU E:8 , TRP E:38 , THR E:40 , ASP E:78 , HOH E:97 , HOH E:102 , HOH E:104	BINDING SITE FOR RESIDUE CA E 109
10	BC1	SOFTWARE	ASP E:37 , GLU E:54 , LYS E:79 , THR E:81 , HOH E:89 , HOH E:99 , HOH E:123	BINDING SITE FOR RESIDUE CA E 110
11	BC2	SOFTWARE	GLU F:8 , TRP F:38 , THR F:40 , ASP F:78 , HOH F:101 , HOH F:103 , HOH F:207	BINDING SITE FOR RESIDUE CA F 111
12	BC3	SOFTWARE	ASP F:37 , GLU F:54 , LYS F:79 , THR F:81 , HOH F:97 , HOH F:176 , HOH F:826	BINDING SITE FOR RESIDUE CA F 112
13	BC4	SOFTWARE	GLU G:8 , TRP G:38 , THR G:40 , ASP G:78 , HOH G:94 , HOH G:117 , HOH G:150	BINDING SITE FOR RESIDUE CA G 113
14	BC5	SOFTWARE	ASP G:37 , GLU G:54 , LYS G:79 , THR G:81 , HOH G:98 , HOH G:127 , HOH G:584	BINDING SITE FOR RESIDUE CA G 114
15	BC6	SOFTWARE	GLU H:8 , TRP H:38 , THR H:40 , ASP H:78 , HOH H:92 , HOH H:142 , HOH H:282	BINDING SITE FOR RESIDUE CA H 115
16	BC7	SOFTWARE	ASP H:37 , GLU H:54 , LYS H:79 , THR H:81 , HOH H:90 , HOH H:91 , HOH H:582	BINDING SITE FOR RESIDUE CA H 116

(no "SS Bond" information available for 3I9H)

(no "Cis Peptide Bond" information available for 3I9H)

(no "SAP(SNP)/Variant" information available for 3I9H)

(no "PROSITE Motif" information available for 3I9H)

(no "Exon" information available for 3I9H)

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:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9ha_ A: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhheeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee......hhhhhh....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h A   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Chain B from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9hb_ B: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h B   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Chain C from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9hc_ C: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhheeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee......hhhhhh....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h C   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Chain D from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9hd_ D: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h D   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Chain E from PDB  Type:PROTEIN  Length:88
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:88
                                   128       138       148       158       168       178       188       198        
         A6LX94_CLOB8   119 TKAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9he_ E: automated matches                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhheeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------- Transcript
                 3i9h E   1 TKAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    10        20        30        40        50        60        70        80

Chain F from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9hf_ F: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhheeeeeee..eeehhhhhhhh........eee.....eeeee......eeeeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h F   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Chain G from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9hg_ G: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h G   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Chain H from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3i9hh_ H: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhheeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee......hhhhhh....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3i9h H   2 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  88
                                    11        21        31        41        51        61        71        81

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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: All beta proteins (24004)

Fold: gamma-Crystallin-like (65)

Superfamily: gamma-Crystallin-like (65)

Family: automated matches (25)

Protein domain: automated matches (25)

Clostridium beijerinckii [TaxId: 290402] (6)

1a	d3i9ha_	A:
1b	d3i9hb_	B:
1c	d3i9hc_	C:
1d	d3i9hd_	D:
1e	d3i9he_	E:
1f	d3i9hf_	F:
1g	d3i9hg_	G:
1h	d3i9hh_	H:

(no "CATH Domain" information available for 3I9H)

(no "Pfam Domain" information available for 3I9H)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G,H (A6LX94_CLOB8 | A6LX94)

molecular function
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3i9h)

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	3i9h
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	A6LX94_CLOB8 \| A6LX94
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	A6LX94_CLOB8 \| A6LX94
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	A6LX94_CLOB8 \| A6LX94	:	3iaj 3sny 3snz 3so0 3so1 5ht8

Description

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Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 16)

Sites (16, 16)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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