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(-) Description

Title :  REPLICATION FACTOR C DOMAINS 1 AND 2
 
Authors :  A. Seybert, M. R. Singleton, N. Cook, D. R. Hall, D. B. Wigley
Date :  14 Mar 06  (Deposition) - 06 Jun 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Dna-Binding Protein, Dna Replication, Clamp Loader, Aaa+ Atpase, Atp-Binding, Nucleotide-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Seybert, M. R. Singleton, N. Cook, D. R. Hall, D. B. Wigley
Communication Between Subunits Within An Archaeal Clamp-Loader Complex.
Embo J. V. 25 2209 2006
PubMed-ID: 16628222  |  Reference-DOI: 10.1038/SJ.EMBOJ.7601093

(-) Compounds

Molecule 1 - REPLICATION FACTOR C SMALL SUBUNIT
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: DOMAINS 1 AND 2, RESIDUES 1-226
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 2234
    Synonym: REPLICATION FACTOR C, RFC SMALL SUBUNIT, CLAMP LOADER SMALL SUBUNIT, AFRFC SMALL SUBUNIT, AFRFCSM

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1ANP4Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREANP A:1227 , HOH A:2059 , HOH A:2061 , HOH A:2062 , HOH A:2063BINDING SITE FOR RESIDUE MG A1228
2AC2SOFTWAREANP B:1226 , HOH B:2055 , HOH B:2057 , HOH B:2059 , HOH B:2061BINDING SITE FOR RESIDUE MG B1227
3AC3SOFTWAREANP C:1225 , HOH C:2037 , HOH C:2038 , HOH C:2041BINDING SITE FOR RESIDUE MG C1226
4AC4SOFTWAREANP D:1225 , HOH D:2048 , HOH D:2049 , HOH D:2050BINDING SITE FOR RESIDUE MG D1226
5AC5SOFTWAREVAL A:8 , TYR A:11 , ARG A:12 , PRO A:13 , VAL A:20 , GLY A:48 , THR A:49 , GLY A:50 , LYS A:51 , THR A:52 , ALA A:53 , PHE A:197 , ARG A:198 , MG A:1228 , HOH A:2003 , HOH A:2010 , HOH A:2021 , HOH A:2041 , HOH A:2059 , HOH A:2060 , HOH A:2061 , HOH A:2062 , HOH A:2063BINDING SITE FOR RESIDUE ANP A1227
6AC6SOFTWAREVAL B:8 , TYR B:11 , ARG B:12 , PRO B:13 , VAL B:20 , GLY B:48 , THR B:49 , GLY B:50 , LYS B:51 , THR B:52 , ALA B:53 , PHE B:197 , ARG B:198 , MG B:1227 , HOH B:2010 , HOH B:2021 , HOH B:2055 , HOH B:2056 , HOH B:2057 , HOH B:2058 , HOH B:2059 , HOH B:2060 , HOH B:2061BINDING SITE FOR RESIDUE ANP B1226
7AC7SOFTWAREVAL C:8 , TYR C:11 , ARG C:12 , PRO C:13 , VAL C:19 , VAL C:20 , GLY C:48 , THR C:49 , GLY C:50 , LYS C:51 , THR C:52 , ALA C:53 , PHE C:197 , ARG C:198 , MG C:1226 , HOH C:2002 , HOH C:2031 , HOH C:2037 , HOH C:2038 , HOH C:2039 , HOH C:2040 , HOH C:2041BINDING SITE FOR RESIDUE ANP C1225
8AC8SOFTWAREVAL D:8 , TYR D:11 , ARG D:12 , PRO D:13 , VAL D:19 , VAL D:20 , GLY D:48 , THR D:49 , GLY D:50 , LYS D:51 , THR D:52 , ALA D:53 , PHE D:197 , ARG D:198 , MG D:1226 , HOH D:2044 , HOH D:2045 , HOH D:2046 , HOH D:2047 , HOH D:2048 , HOH D:2049 , HOH D:2050BINDING SITE FOR RESIDUE ANP D1225

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2CHG)

(-) Sequences/Alignments

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:223
 aligned with RFCS_ARCFU | O28219 from UniProtKB/Swiss-Prot  Length:319

    Alignment length:223
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223   
           RFCS_ARCFU     4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATA 226
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2chgA01 A:4-160 P-loop containing nucleotide triphosphate hydrolases                                                                                         2chgA02 A:161-226  [code=1.10.8.60, no name defined]               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh...hhhhh..hhhhhhhhhhhhhh.....eeee.....hhhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhh.........eeeeeehhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhh..eeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhh....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2chg A   4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATA 226
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223   


Chain B from PDB  Type:PROTEIN  Length:222
 aligned with RFCS_ARCFU | O28219 from UniProtKB/Swiss-Prot  Length:319

    Alignment length:222
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223  
           RFCS_ARCFU     4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITAT 225
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2chgB01 B:4-160 P-loop containing nucleotide triphosphate hydrolases                                                                                         2chgB02 B:161-225  [code=1.10.8.60, no name defined]              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhh...hhhhh..hhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhh.........eeeeeehhhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhheeeee....hhhhhhhhhhhhhhhhh.eehhhhhhhhhhhhh.hhhhhhhhhhhhhh...eehhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2chg B   4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITAT 225
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223  


Chain C from PDB  Type:PROTEIN  Length:221
 aligned with RFCS_ARCFU | O28219 from UniProtKB/Swiss-Prot  Length:319

    Alignment length:221
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
           RFCS_ARCFU     4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2chgC01 C:4-160 P-loop containing nucleotide triphosphate hydrolases                                                                                         2chgC02 C:161-224  [code=1.10.8.60, no name defined]             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh...hhhhh..hhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhh..........eeeeeehhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhh....hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2chg C   4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 


Chain D from PDB  Type:PROTEIN  Length:221
 aligned with RFCS_ARCFU | O28219 from UniProtKB/Swiss-Prot  Length:319

    Alignment length:221
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
           RFCS_ARCFU     4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2chgD01 D:4-160 P-loop containing nucleotide triphosphate hydrolases                                                                                         2chgD02 D:161-224  [code=1.10.8.60, no name defined]             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhh...hhhhh..hhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhh.........eeeeeehhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhh.eeeee....hhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.hhhhhhhhhhhhhh.....hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2chg D   4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223
   Legend:   → Mismatch (orange background)
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    → 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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2CHG)

(-) CATH Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (RFCS_ARCFU | O28219)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003689    DNA clamp loader activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive the opening of the ring structure of the PCNA complex, or any of the related sliding clamp complexes, and their closing around the DNA duplex.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
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.
cellular component
    GO:0005663    DNA replication factor C complex    A complex that loads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) onto DNA, thereby permitting processive DNA synthesis catalyzed by DNA polymerase. In eukaryotes the complex consists of five polypeptides.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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        RFCS_ARCFU | O28219: 2chq 2chv

(-) Related Entries Specified in the PDB File

2chq REPLICATION FACTOR C ADPNP COMPLEX