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(-) Description

Title :  PRIA HELICASE BOUND TO SSB C-TERMINAL TAIL PEPTIDE
 
Authors :  B. Bhattacharyya, N. P. George, T. M. Thurmes, J. L. Keck
Date :  13 Nov 13  (Deposition) - 08 Jan 14  (Release) - 12 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.08
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Pria, Ssb C-Terminal Peptide, Reca Fold, Winged Helix Domain, Helicase, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Bhattacharyya, N. P. George, T. M. Thurmes, R. Zhou, N. Jani, S. R. Wessel, S. J. Sandler, T. Ha, J. L. Keck
Structural Mechanisms Of Pria-Mediated Dna Replication Restart.
Proc. Natl. Acad. Sci. Usa V. 111 1373 2014
PubMed-ID: 24379377  |  Reference-DOI: 10.1073/PNAS.1318001111

(-) Compounds

Molecule 1 - SINGLE-STRANDED DNA-BINDING PROTEIN
    Chains: C, D, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: KPHS_02830, SSB C-TERMINAL PEPTIDE
    Organism Scientific: KLEBSIELLA PNEUMONIAE SUBSP. PNEUMONIAE
    Organism Taxid: 1125630
    Strain: HS11286
 
Molecule 2 - PRIMOSOME ASSEMBLY PROTEIN PRIA
    Chains: A, B, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: KPN78578_41850, KPN_04230, PRIA
    Organism Scientific: KLEBSIELLA PNEUMONIAE SUBSP. PNEUMONIAE
    Organism Taxid: 272620
    Strain: MGH 78578

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A C   
Biological Unit 2 (1x):  B D  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1ZN6Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:435 , CYS A:438 , CYS A:475 , CYS A:478BINDING SITE FOR RESIDUE ZN A 801
2AC2SOFTWARECYS A:444 , CYS A:447 , CYS A:462 , CYS A:465BINDING SITE FOR RESIDUE ZN A 802
3AC3SOFTWARECYS B:435 , CYS B:438 , CYS B:475 , CYS B:478BINDING SITE FOR RESIDUE ZN B 801
4AC4SOFTWARECYS B:444 , CYS B:447 , CYS B:462 , CYS B:465BINDING SITE FOR RESIDUE ZN B 802
5AC5SOFTWARECYS E:444 , CYS E:447 , CYS E:462 , CYS E:465BINDING SITE FOR RESIDUE ZN E 801
6AC6SOFTWARECYS E:435 , CYS E:438 , CYS E:475 , CYS E:478BINDING SITE FOR RESIDUE ZN E 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NL8)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Pro A:630 -Pro A:631
2Thr A:713 -Leu A:714
3Pro B:630 -Pro B:631
4Pro E:630 -Pro E:631

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NL8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NL8)

(-) Exons   (0, 0)

(no "Exon" information available for 4NL8)

(-) 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:549
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee........eeee.......eeeeee..eeeeeeeee............hhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhh.........hhhhhhhhhhhhh.....eeeeeee....hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhhhh....eeeehhhhhhh....eeeeeee...hhhhh.......hhhhhhhhhhhhhh.eeeeee...hhhhhhhhhh...eeeee..eeeee..........hhhhhhhhhhhhh................eeee.......ee....ee.eee....eee......ee.............eeee.....hhhhhhh...hhhhhhh....hhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeee......hhhhhhhhhhhhhhhh.......eeeeeee....eeeeeee.hhhhhhhhhhhhhhh.......eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nl8 A   1 MSVAHVALPVPLPRTFDYLLPEKAGCRVRVPFGKQERIGIVAAVLKPVLDDEPVFSTTVWRLLMWAAEYYHHPIGDVLFHALPVMLRQGKPASATRLNTEQATAVGAIHSAADRFSAWLLAGITGSGKTEVYLSVLENVLAQGRQALVMVPEIGLTPQTIARFRQRFNAPVEVLHSGLNDSERLSAWLKAKNGEAAIVIGTRSSLFTPFKDLGVIVIDEEHDSSYKQQEGWRYHARDLAVWRAHSEQIPIILGSATPALETLHNVRQGKYRQLTLSQQHVLDLKGQPLQAGLSPALISRMRQHLQADNQVILFLNRRGFAPALLCHDCGWIAECPRCDSYYTLHQAQHHLRCHHCDSQRPIPRQCPSCGSTHLVPVGIGTEQLEQALAPLLDVDGALFSADFRSAERFAQLYTQVSGRKQGEVILQTHHPEHPLLQTLLYKGYDAFAEQALAERQTMQLPPWTSHVLIRAEDHNNQQAPLFLQQLRNLLQASPLADEKLWVLGPVPALARWQILLQHPSRVRLQHIVSGTLALINTLVKWVLDVDPIEG 731
                                    10        20 ||     34        44   ||  |67        77        87        97       107    || 201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371     ||390       400       410       420       430       440       450       460       470       480       490       500|      565       575       590       600       610       620       630       640       650       660       670       687       697       707      |722         
                                                22|                   48| 62|                                           112|                                                                                                                                                                                 377|                                                                                                              500|                        583|                                                                                       679|                        714|           
                                                 27                    59  66                                            197                                                                                                                                                                                  387                                                                                                               556                         589                                                                                        687                         720           


Chain B from PDB  Type:PROTEIN  Length:566
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee........eee........eeeeee..eeeeeeeee..............hhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhh.........hhhhhhhhhhhhh.....eeeeeee....hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhhhh....eeeehhhhhhh....eeeeeee...hhhhh.......hhhhhhhhhhhhhh.eeeeee...hhhhhhhhhh...eeeee.eeeee..........hhhhhhhhhhhhh...eeeee........eeee.......ee....ee.eee....eee......ee.............eeee.....hhhhhhh.......eeeee............eeeeee.hhhhhhh....hhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee....hhhhhhhhhhhhhhhh.......eeeeee.....eeeeee.hhhhhhhhhhhhhhh..eeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nl8 B   3 VAHVALPVPLPRTFDYLLPEKAGCRVRVPFGKQERIGIVAAVLKPVAELDDEPVFSTTVWRLLMWAAEYYHHPIGDVLFHALPVMLRQGKPASALRLNTEQATAVGAIHSAADRFSAWLLAGITGSGKTEVYLSVLENVLAQGRQALVMVPEIGLTPQTIARFRQRFNAPVEVLHSGLNDSERLSAWLKAKNGEAAIVIGTRSSLFTPFKDLGVIVIDEEHDSSYKQQEGWRYHARDLAVWRAHSEQIPIILGSATPALETLHNVRQGKYRQLTLQQHVLDLKGQPLQAGLSPALISRMRQHLQADNQVILFLNRRGFAPALLCHDCGWIAECPRCDSYYTLHQAQHHLRCHHCDSQRPIPRQCPSCGSTHLVPVGIGTEQLEQALAPLFPGGARILIGTQMLAKGHHFPDVTLVSLLDVDGALFSADFRSAERFAQLYTQVSGRAGEVILQTHHPEHPLLQTLLYKGYDAFAEQALAERQTMQLPPWTSHVLIRANNQQAPLFLQQLRNLLQASPLADEKLWVLGPVPALAWQILLQHPSRVRLQHIVSGTLALIWVLDVDPIEG 731
                                    12        22|       36        46 ||    |67        77        87        97       107   ||  201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371    || 391       401       411       421       431       441       451       461       471       481       491       501||     538       548       558       568       578      |594       604       614       624       634     ||647       657       667       677 ||    695       705     ||725      
                                              22|                   48|   64|                                          111|                                                                                                                                                                                 376|                                                                                                                502|                                                    585|                                             640|                                679|                    711|         
                                               27                    59    66                                           196                                                                                                                                                                                  387                                                                                                                 530                                                     592                                              644                                 688                     722         


Chain C from PDB  Type:PROTEIN  Length:3
                                   
               SCOP domains --- SCOP domains
               CATH domains --- CATH domains
               Pfam domains --- Pfam domains
         Sec.struct. author ... Sec.struct. author
                 SAPs(SNPs) --- SAPs(SNPs)
                    PROSITE --- PROSITE
                 Transcript --- Transcript
                 4nl8 C 175 IPF 177


Chain D from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 4nl8 D 173 DDIPF 177


Chain E from PDB  Type:PROTEIN  Length:571
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.........eee.......eeeeee..eeeeee...........hhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhh.........hhhhhhhhhhhhh.....eeeeeee....hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhh...eee.....hhhhhhhhhhhhhh....eeeehhhhhhh....eeeeeee...hhhhh.......hhhhhhhhhhhhhh.eeeeee...hhhhhhhhhh...eeeee.....eeee..........hhhhhhhhhhhhh...eeeee........eeee................eee....eee......ee.............eeee.....hhhhhhh..........hhhhhh..eeeee............eeeeee.hhhhhhh....hhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeee....hhhhhhhhhhhhhh.......eeeeee.....eeeeee.hhhhhhhhhhhhhhh..eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nl8 E   3 VAHVALPVPLPRTFDYLLPEAGCRVRVPFGKQERIGIVKPVLDDEPVFSTTVWRLLMWAAEYYHHPIGDVLFHALPVMLRQGKPASALRLNTEQATAVGAIHSAADRFSAWLLAGITGSGKTEVYLSVLENVLAQGRQALVMVPEIGLTPQTIARFRQRFNAPVEVLHSGLNDSERLSAWLKAKNGEAAIVIGTRSSLFTPFKDLGVIVIDEEHDSSYKQQEGWRYHARDLAVWRAHSEQIPIILGSATPALETLHNVRQGKYRQLTLSPAQQHVLDLKGQPLQAGLSPALISRMRQHLQADNQVILFLNRRGFAPALLCHDCGWIAECPRCDSYYTLHQAQHHLRCHHCDSQRPIPRQCPSCGSTHLVPVGIGTEQLEQALAPLFPEVPISLAAVHRGGARILIGTQMLAKGHHFPDVTLVSLLDVDGALFSADFRSAERFAQLYTQVSGRQGEVILQTHHPEHPLLQTLLYKGYDAFAEQALAERQTMQLPPWTSHVLIRNQQAPLFLQQLRNLLQASPLADEKLWVLGPVPALAWQILLQHPSRVRLQHIVSGTLALIWVLDVDPIEG 731
                                    12        22|       37       |61||      74        84        94       104      |198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       385       395       405       415       425       435       445       455       465       475       485       495       505 ||    531       541       551       561       571       581 ||    597       607       617       627       637 ||    652       662       672      |690       700       710||     730 
                                              22|               45| ||                                          111|                                                                                                                                                                                  377|                                                                                                                       507|                                                        583|                                              639|                               679|                    711|         
                                               28                60 ||                                           196                                                                                                                                                                                   385                                                                                                                        524                                                         590                                               645                                688                     722         
                                                                   62|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
                                                                    66                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 


Chain F from PDB  Type:PROTEIN  Length:3
                                   
               SCOP domains --- SCOP domains
               CATH domains --- CATH domains
               Pfam domains --- Pfam domains
         Sec.struct. author ... Sec.struct. author
                 SAPs(SNPs) --- SAPs(SNPs)
                    PROSITE --- PROSITE
                 Transcript --- Transcript
                 4nl8 F 175 IPF 177
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4NL8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NL8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NL8)

(-) Gene Ontology  (14, 14)

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  A0A0H3GL04_K | A0A0H3GL04
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  A6TGC5_KLEP7 | A6TGC5
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

2d7e 2d7g 2d7h 2dwl 2dwm 2dwn 4nl4