1CZD - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE PROCESSIVITY CLAMP GP45 FROM BACTERIOPHAGE T4

Authors :   I. Moarefi, D. Jeruzalmi, J. Turner, M. O'Donnell, J. Kuriyan

Date :   02 Sep 99 (Deposition) - 03 Mar 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.45

Chains :   Asym./Biol. Unit : A,B,C

Keywords :   Bacteriophage T4, Processivity Clamp, Dna Replication, Ring- Shaped Protein, Gene Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   I. Moarefi, D. Jeruzalmi, J. Turner, M. O'Donnell, J. Kuriyan
Crystal Structure Of The Dna Polymerase Processivity Factor Of T4 Bacteriophage.
J. Mol. Biol. V. 296 1215 2000
PubMed-ID: 10698628 | Reference-DOI: 10.1006/JMBI.1999.3511
(for further references see the PDB file header)

Molecule 1 - DNA POLYMERASE ACCESSORY PROTEIN G45
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ENTEROBACTERIA PHAGE T4
	Organism Taxid	:	10665

		1	2	3
Asymmetric/Biological Unit	:	A	B	C

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1CZD)

(no "Site" information available for 1CZD)

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

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

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

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

(no "Exon" information available for 1CZD)

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:228
 aligned with DPA5_BPT4 | P04525 from UniProtKB/Swiss-Prot  Length:228

    Alignment length:228
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220        
           DPA5_BPT4      1 MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF  228
               SCOP domains d1czda1 A:1001-1110 gp45 sliding clamp                                                                        d1czda2 A:1111-1228 gp45 sliding clamp                                                                                 SCOP domains
               CATH domains 1czdA00 A:1001-1228  [code=3.70.10.10, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh..eee..eeeeeee.....eeeeeeeeeee...eee.hhhhhhhhhh......eeee.....eeee...eeeee...hhhhh.............eeeeehhhhhhhhhhhhhhh...eeeeeee..eeeeeeehhhhh.......eeeeeee......eeeeee.hhh......eeeeeeee..eeeeeee...eeeeee.....ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1czd A 1001 MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF 1228
                                  1010      1020      1030      1040      1050      1060      1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190      1200      1210      1220

Chain B from PDB  Type:PROTEIN  Length:228
 aligned with DPA5_BPT4 | P04525 from UniProtKB/Swiss-Prot  Length:228

    Alignment length:228
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220        
           DPA5_BPT4      1 MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF  228
               SCOP domains d1czdb1 B:2001-2110 gp45 sliding clamp                                                                        d1czdb2 B:2111-2228 gp45 sliding clamp                                                                                 SCOP domains
               CATH domains 1czdB00 B:2001-2228  [code=3.70.10.10, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh....eee..eeeeeee.....eeeeeeeeeee...eee.hhhhhhhhhh......eeee.....eeeee..eeeee...hhhhh.............eeeeehhhhhhhhhhhhhhhh..eeeeeee..eeeeeee............eeeeeee......eeeeee.hhh......eeeeeeee..eeeeeee...eeeeee.....ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1czd B 2001 MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF 2228
                                  2010      2020      2030      2040      2050      2060      2070      2080      2090      2100      2110      2120      2130      2140      2150      2160      2170      2180      2190      2200      2210      2220

Chain C from PDB  Type:PROTEIN  Length:228
 aligned with DPA5_BPT4 | P04525 from UniProtKB/Swiss-Prot  Length:228

    Alignment length:228
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220        
           DPA5_BPT4      1 MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF  228
               SCOP domains d1czdc1 C:3001-3110 gp45 sliding clamp                                                                        d1czdc2 C:3111-3228 gp45 sliding clamp                                                                                 SCOP domains
               CATH domains 1czdC00 C:3001-3228  [code=3.70.10.10, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhh..eee..eeeeeee.....eeeeeeeeeee...eee.hhhhhhhhhh......eeee.....eeee...eeeee...hhhhh.............eeeeehhhhhhhhhhhhhhh...eeeeeee..eeeeeee............eeeeeee......eeeeee.hhh......eeeeeeee..eeeeeee...eeeeee.....ee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1czd C 3001 MKLSKDTTALLKNFATINSGIMLKSGQFIMTRAVNGTTYAEANISDVIDFDVAIYDLNGFLGILSLVNDDAEISQSEDGNIKIADARSTIFWPAADPSTVVAPNKPIPFPVASAVTEIKAEDLQQLLRVSRGLQIDTIAITVKEGKIVINGFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMANMKMQPGNYKLLLWAKGKQGAAKFEGEHANYVVALEADSTHDF 3228
                                  3010      3020      3030      3040      3050      3060      3070      3080      3090      3100      3110      3120      3130      3140      3150      3160      3170      3180      3190      3200      3210      3220

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(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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Class: Alpha and beta proteins (a+b) (23004)

Fold: DNA clamp (88)

Superfamily: DNA clamp (88)

Family: DNA polymerase processivity factor (40)

Protein domain: gp45 sliding clamp (3)

Bacteriophage T4 [TaxId: 10665] (1)

1a	d1czda1	A:1001-1110
1b	d1czda2	A:1111-1228
1c	d1czdb1	B:2001-2110
1d	d1czdb2	B:2111-2228
1e	d1czdc1	C:3001-3110
1f	d1czdc2	C:3111-3228

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Box (41)

Topology: Proliferating Cell Nuclear Antigen (41)

Homologous Superfamily: [code=3.70.10.10, no name defined] (41)

Enterobacteria phage t4. Organism_taxid: 10665. (1)

1a	1czdA00	A:1001-1228
1b	1czdB00	B:2001-2228
1c	1czdC00	C:3001-3228

(no "Pfam Domain" information available for 1CZD)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C (DPA5_BPT4 | P04525)

biological process
	GO:0006260		DNA replication		The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
	GO:0039686		bidirectional double-stranded viral DNA replication		A viral DNA replication process where replication occurs in both directions from the starting point. This creates two replication forks, moving in opposite directions.

Asymmetric/Biological Unit
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Description

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