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Asym./Biol. Unit (Jmol Viewer)

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Title :   DEUTERATED GAMMAE CRYSTALLIN IN H2O SOLVENT

Authors :   J. B. Artero, M. Hartlein, S. Mcsweeney, P. Timmins

Date :   27 Apr 05 (Deposition) - 08 Nov 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.36

Chains :   Asym./Biol. Unit : A

Keywords :   4 Greek Key Motifs, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. B. Artero, M. Hartlein, S. Mcsweeney, P. Timmins
A Comparison Of Refined X-Ray Structures Of Hydrogenated And Perdeuterated Rat Gammae-Crystallin In H2O And D2O.
Acta Crystallogr. , Sect. D V. 61 1541 2005
PubMed-ID: 16239733 | Reference-DOI: 10.1107/S0907444905028532
(for further references see the PDB file header)

Molecule 1 - GAMMA CRYSTALLIN E
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET28A
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Common	:	NORWAY RAT
	Organism Scientific	:	RATTUS NORVEGICUS
	Organism Taxid	:	10116
	Synonym	:	GAMMA CRYSTALLIN 3-1, GAMMA-2

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 3)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:1001 , GLY A:1040 , LEU A:1080 , ILE A:1081 , HOH A:3013 , HOH A:3045	BINDING SITE FOR RESIDUE ACT A 2378
2	AC2	SOFTWARE	LEU A:1144 , ARG A:1146 , TYR A:1150 , HOH A:3020 , HOH A:3064	BINDING SITE FOR RESIDUE ACT A 2380
3	AC3	SOFTWARE	GLU A:1007 , SER A:1030 , ARG A:1031 , PRO A:1147 , GLY A:1148 , HOH A:3124	BINDING SITE FOR RESIDUE ACT A 2382

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

(no "Cis Peptide Bond" information available for 1ZIR)

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

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CRYSTALLIN_BETA_GAMMA	PS50915	Crystallins beta and gamma 'Greek key' motif profile.	CRGE_RAT	2-40 41-83 88-128 129-171	4	A:1001-1039 A:1040-1082 A:1087-1127 A:1128-1170

(no "Exon" information available for 1ZIR)

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
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Chain A from PDB  Type:PROTEIN  Length:173
 aligned with CRGE_RAT | P02528 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:173
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171   
            CRGE_RAT      2 GKITFYEDRGFQGRHYECSTDHSNLQPYFSRCNSVRVDSGCWMLYEQPNFTGCQYFLRRGDYPDYQQWMGFSDSVRSCRLIPHSSSHRIRIYEREDYRGQMVEITDDCPHLQDRFHFSDFHSFHVMEGYWVLYEMPNYRGRQYLLRPGEYRRYHDWGAMNARVGSLRRIMDFY  174
               SCOP domains d1zira1 A:1001-1084 beta-Crystallin                                                 d1zira2 A:1085-1173 beta-Crystallin                                                       SCOP domains
               CATH domains 1zirA01 A:1001-1083 Crystallins                                                    1zirA02 A:1084-1173 Crystallins                                                            CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------Crystall-1zirA01 A:1088-1169                                                      ---- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------Crystall-1zirA02 A:1088-1169                                                      ---- Pfam domains (2)
         Sec.struct. author .eeeeeeehhheeeeeee...............eeeeee.eeeeeee...eeeeeee..eee.hhhhhh.......eeeee......eeeeeeehhheeeeeee.....hhhhhh......eeeeee..eeeeee...eeeeeee..eee.hhhhhh.......eeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE CRYSTALLIN_BETA_GAMMA  PDB: A:1001-1039CRYSTALLIN_BETA_GAMMA  PDB: A:1040-1082    ----CRYSTALLIN_BETA_GAMMA  PDB: A:1087-1127  CRYSTALLIN_BETA_GAMMA  PDB: A:1128-1170    --- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1zir A 1001 GKITFYEDRGFQGRHYECSTDHSNLQPYFSRCNSVRVDSGCWMLYEQPNFTGCQYFLRRGDYPDYQQWMGFSDSVRSCRLIPHSSSHRIRIYEREDYRGQMVEITDDCPHLQDRFHFSDFHSFHVMEGYWVLYEMPNYRGRQYLLRPGEYRRYHDWGAMNARVGSLRRIMDFY 1173
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170

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: All beta proteins (24004)

Fold: gamma-Crystallin-like (65)

Superfamily: gamma-Crystallin-like (65)

Family: Crystallins/Ca-binding development proteins (34)

Protein domain: beta-Crystallin (11)

Norway rat (Rattus norvegicus), isoform E [TaxId: 10116] (6)

1a	d1zira1	A:1001-1084
1b	d1zira2	A:1085-1173

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Gamma-B Crystallin; domain 1 (45)

Homologous Superfamily: Crystallins (39)

Norway rat (Rattus norvegicus) (6)

1a	1zirA02	A:1084-1173
1b	1zirA01	A:1001-1083

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: gCrystallin (22)

Family: Crystall (21)

Rattus norvegicus (Rat) (4)

1a	Crystall-1zirA01	A:1088-1169
1b	Crystall-1zirA02	A:1088-1169

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CRGE_RAT | P02528)

molecular function
	GO:0005212	structural constituent of eye lens	The action of a molecule that contributes to the structural integrity of the lens of an eye.
biological process
	GO:0002088	lens development in camera-type eye	The process whose specific outcome is the progression of the lens over time, from its formation to the mature structure. The lens is a transparent structure in the eye through which light is focused onto the retina. An example of this process is found in Mus musculus.

Asymmetric/Biological Unit
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UniProtKB/Swiss-Prot
	CRGE_RAT \| P02528	:	1a5d 1zgt 1zie 1ziq

1a5d	NATIVE GAMMAE CRYSTALLIN
1zgt	RECOMBINANT HYDROGENATED GAMMAE CRYSTALLIN IN H2O
1zie	RECOMBINANT HYDROGENATED GAMMAE CRYSTALLIN IN D2O
1ziq	RECOMBINANT DEUTERATED GAMMAE CRYSTALLIN IN D2O

Description

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Ligands, Modified Residues, Ions (1, 3)

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