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(-) Description

Title :  SINGLE STRANDED DNA-BINDING PROTEIN(ICP8) FROM HERPES SIMPLEX VIRUS-1
 
Authors :  S. Panjikar, M. Mapelli, P. A. Tucker
Date :  30 Oct 03  (Deposition) - 11 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Dna-Binding Protein, Ssb, Icp8, Hsv-1, Dna-Binding, Dna Replication, Zinc-Finger, Nuclear Protein. (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Mapelli, S. Panjikar, P. A. Tucker
The Crystal Structure Of The Herpes Simplex Virus 1 Ssdna-Binding Protein Suggests The Structural Basis For Flexible, Cooperative Single-Stranded Dna Binding
J. Biol. Chem. V. 280 2990 2005
PubMed-ID: 15507432  |  Reference-DOI: 10.1074/JBC.M406780200

(-) Compounds

Molecule 1 - MAJOR DNA-BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: BACULOVIRUS
    Expression System Plasmid: PE29
    Expression System Strain: GIBCO/BR
    Expression System Taxid: 10469
    Expression System Vector Type: BACULOVIRUS
    Mutation: YES
    Organism Common: HERPES VIRUS
    Organism Scientific: HUMAN HERPESVIRUS 1
    Organism Taxid: 10298
    Synonym: SINGLE-STRANDED DNA BINDING PROTEIN, INFECTED CELL PROTEIN 8, ICP 8 PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric Unit (2, 10)
No.NameCountTypeFull Name
1HG8Ligand/IonMERCURY (II) ION
2ZN2Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1HG-1Ligand/IonMERCURY (II) ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1HG-1Ligand/IonMERCURY (II) ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:499 , CYS A:502 , CYS A:510 , HIS A:512BINDING SITE FOR RESIDUE ZN A2131
02AC2SOFTWAREILE A:917 , PHE A:963 , CYS A:1013 , LEU A:1026BINDING SITE FOR RESIDUE HG A2132
03AC3SOFTWAREPRO A:597 , CYS A:966BINDING SITE FOR RESIDUE HG A2133
04AC4SOFTWARECYS A:26 , ARG A:154BINDING SITE FOR RESIDUE HG A2134
05AC5SOFTWARECYS A:740 , SER A:754BINDING SITE FOR RESIDUE HG A2135
06AC6SOFTWARECYS B:499 , CYS B:502 , CYS B:510 , HIS B:512BINDING SITE FOR RESIDUE ZN B2131
07AC7SOFTWAREILE B:917 , PHE B:963 , CYS B:1013 , LEU B:1026BINDING SITE FOR RESIDUE HG B2132
08AC8SOFTWARECYS B:966 , VAL B:972BINDING SITE FOR RESIDUE HG B2133
09AC9SOFTWARECYS B:26 , PRO B:27BINDING SITE FOR RESIDUE HG B2134
10BC1SOFTWARECYS B:740 , ALA B:752 , SER B:754BINDING SITE FOR RESIDUE HG B2135

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (5, 10)

Asymmetric Unit (5, 10)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_DNBI_HHV11_001 *S44ADNBI_HHV11  ---  ---A/BS44A
2UniProtVAR_DNBI_HHV11_002 *K224NDNBI_HHV11  ---  ---A/BK224N
3UniProtVAR_DNBI_HHV11_004 *V428ADNBI_HHV11  ---  ---A/BV428A
4UniProtVAR_DNBI_HHV11_005 *A475GDNBI_HHV11  ---  ---A/BA475G
5UniProtVAR_DNBI_HHV11_006 *A964TDNBI_HHV11  ---  ---A/BA964T
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_DNBI_HHV11_001 *S44ADNBI_HHV11  ---  ---AS44A
2UniProtVAR_DNBI_HHV11_002 *K224NDNBI_HHV11  ---  ---AK224N
3UniProtVAR_DNBI_HHV11_004 *V428ADNBI_HHV11  ---  ---AV428A
4UniProtVAR_DNBI_HHV11_005 *A475GDNBI_HHV11  ---  ---AA475G
5UniProtVAR_DNBI_HHV11_006 *A964TDNBI_HHV11  ---  ---AA964T
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_DNBI_HHV11_001 *S44ADNBI_HHV11  ---  ---BS44A
2UniProtVAR_DNBI_HHV11_002 *K224NDNBI_HHV11  ---  ---BK224N
3UniProtVAR_DNBI_HHV11_004 *V428ADNBI_HHV11  ---  ---BV428A
4UniProtVAR_DNBI_HHV11_005 *A475GDNBI_HHV11  ---  ---BA475G
5UniProtVAR_DNBI_HHV11_006 *A964TDNBI_HHV11  ---  ---BA964T
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1URJ)

(-) 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:1029
 aligned with DNBI_HHV11 | P04296 from UniProtKB/Swiss-Prot  Length:1196

    Alignment length:1122
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      1118      1128  
          DNBI_HHV11      9 TTIKVPPGPLGYVYARACPSEGIELLALLSARSGDSDVAVAPLVVGLTVESGFEANVAVVVGSRTTGLGGTAVSLKLTPSHYSSSVYVFHGGRHLDPSTQAPNLTRLCERARRHFGFSDYTPRPGDLKHETTGEALCERLGLDPDRALLYLVVTEGFKEAVCINNTFLHLGGSDKVTIGGAEVHRIPVYPLQLFMPDFSRVIAEPFNANHRSIGEKFTYPLPFFNRPLNRLLFEAVVGPAAVALRCRNVDAVARAAAHLAFDENHEGAALPADITFTAFEASQGKTPRGGRDGGGKGAAGGFEQRLASVMAGDAALALESIVSMAVFDEPPTDISAWPLFEGQDTAAARANAVGAYLARAAGLVGAMVFSTNSALHLTEVDDAGPADPKDHSKPSFYRFFLVPGTHVAANPQVDREGHVVPGFEGRPTAPLVGGTQEFAGEHLAMLCGFSPALLAKMLFYLERCDGAVIVGRQEMDVFRYVADSNQTDVPCNLCTFDTRHACVHTTLMRLRARHPKFASAARGAIGVFGTMNSMYSDCDVLGNYAAFSALKRADGSETARTIMQETYRAATERVMAELETLQYVDQAVPTAMGRLETIITNREALHTVVNNVRQVVDREVEQLMRNLVEGRNFKFRDGLGEANHAMSLTLDPYACGPCPLLQLLGRRSNLAVYQDLALSQCHGVFAGQSVEGRNFRNQFQPVLRRRVMDMFNNGFLSAKTLTVALSEGAAICAPSLTAGQTAPAESSFEGDVARVTLGFPKELRVKSRVLFAGASANASEAAKARVASLQSAYQKPDKRVDILLGPLGFLLKQFHAAIFPNGKPPGSNQPNPQWFWTALQRNQLPARLLSREDIETIAFIKKFSLDYGAINFINLAPNNVSELAMYYMANQILRYCDHSTYFINTLTAIIAGSRRPPSVQAAAAWSAQGGAGLEAGARALMDAVDAHPGAWTSMFASCNLLRPVMAARPMVVLGLSISKYYGMAGNDRVFQAGNWASLMGGKNACPLLIFDRTRKFVLACPRAGFVCAASSLGGGAHESSLCEQLRGIISEGGAAVASSVFVATVKSLGPRTQQLQIEDWLALLEDEYLSEEMMELTARALERGNGEWSTDAALEVAHEAEA 1130
               SCOP domains d1urja_ A: Infected cell protein 8, ICP8                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......ee..eeeeeee....hhhhhhhhh........eeee.............eeeeeeeeee.-----.eeeeeeeee...eeeeeehhhhh.......hhhhhhhhhhhhhh......hhhhhhhh.hhhhhhhhhh.....eeeeeee...hhhhhhh..eee.hhhheeeee..eeeeeeeeee.hhhh.............................hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.............ee..-------------------..hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh......eeeeee....----........eeeee........ee.........................hhhhhhhhh..hhhhhhhhhhhhh........----.hhhhhhhh..................hhhhhhhhhhhhh..........eeeeee...............-------------------.hhhhhhhhhhhhhhhh............hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh---.hhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh.................---.....................ee...eeeeeeeeeeeee...-------------------..........hhhhh.hhhhhhhhhhhhh...........hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh........eeeeeeeeee....hhhhhhhh.....hhhhhhhhhhhhhhhh....eeeeeee.hhhhhhhh..eeeeeeeeee.--------..eeeeee...hhhhh.........eeeeeee..........---------hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh......hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -----------------------------------A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------N-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A----------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1urj A    9 TTIKVPPGPLGYVYARACPSEGIELLALLSARSGDSDVAVAPLVVGLTVESGFEANVAVVVGSRTT-----AVSLKLTPSHYSSSVYVFHGGRHLDPSTQAPNLTRLCERARRHFGFSDYTPRPGDLKHETTGEALCERLGLDPDRALLYLVVTEGFKEAVCINNTFLHLGGSDKVTIGGAEVHRIPVYPLQLFMPDFSRVIAEPFNANHRSIGEKFTYPLPFFNRPLNRLLFEAVVGPAAVALRSRNVDAVARAAAHLAFDENHEGAALPADITFTAF-------------------AGGFEQRLASVMAGDAALALESIVSMAVFDEPPTDISAWPLFEGQDTAAARANAVGAYLARAAGLVGAMVFSTNSALHLTEVDDAGPA----HSKPSFYRFFLVPGTHVAANPQVDREGHVVPGFEGRPTAPLVGGTQEFAGEHLAMLSGFSPALLAKMLFYLERCDGAVIV----MDVFRYVADSNQTDVPCNLCTFDTRHACVHTTLMRLRARHPKFASAARGAIGVFGTMNSMYSDCDVLGNYA-------------------ETYRAATERVMAELETLQYVDQAVPTAMGRLETIITNREALHTVVNNVRQVVDREVEQLMRNLVE---FKFRDGLGEANHAMSLTLDPYACGPCPLLQLLGRRSNLAVYQDLALSQCHGVFAGQSVEGRNFRNQFQPVLRRRVMDMFNNGFLSAKTLTVALS---AICAPSLTAGQTAPAESSFEGDVARVTLGFPKELRVKSRVLF-------------------SAYQKPDKRVDILLGPLGFLLKQFHAAIFPNGKPPGSNQPNPQWFWTALQRNQLPARLLSREDIETIAFIKKFSLDYGAINFINLAPNNVSELAMYYMANQILRYCDHSTYFINTLTAIIAGSRRPPSVQAAAAWSAQGGAGLEAGARALMDAVDAHPGAWTSMFASCNLLRPVMAARPMVVLGLSISKY--------VFQAGNWASLMGGKNACPLLIFDRTRKFVLACPRAGFVCAAS---------SLCEQLRGIISEGGAAVASSVFVATVKSLGPRTQQLQIEDWLALLEDEYLSEEMMELTARALERGNGEWSTDAALEVAHEAEA 1130
                                    18        28        38        48        58        68     |   - |      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278        |-         -       308       318       328       338       348       358       368       378       388     |   -|      408       418       428       438       448       458       468       478    |  488       498       508       518       528       538       548    |    -         -    |  578       588       598       608       618       628        |-  |    648       658       668       678       688       698       708       718       728     | 738       748       758       768       778|        -         -|      808       818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      1118      1128  
                                                                                            74    80                                                                                                                                                                                                            287                 307                                                                                    394  399                                                                            478  483                                                                   553                 573                                                             637 641                                                                                          734 738                                      779                 799                                                                                                                                                                                          988      997                                     1038      1048                                                                                  


Chain B from PDB  Type:PROTEIN  Length:1031
 aligned with DNBI_HHV11 | P04296 from UniProtKB/Swiss-Prot  Length:1196

    Alignment length:1122
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      1118      1128  
          DNBI_HHV11      9 TTIKVPPGPLGYVYARACPSEGIELLALLSARSGDSDVAVAPLVVGLTVESGFEANVAVVVGSRTTGLGGTAVSLKLTPSHYSSSVYVFHGGRHLDPSTQAPNLTRLCERARRHFGFSDYTPRPGDLKHETTGEALCERLGLDPDRALLYLVVTEGFKEAVCINNTFLHLGGSDKVTIGGAEVHRIPVYPLQLFMPDFSRVIAEPFNANHRSIGEKFTYPLPFFNRPLNRLLFEAVVGPAAVALRCRNVDAVARAAAHLAFDENHEGAALPADITFTAFEASQGKTPRGGRDGGGKGAAGGFEQRLASVMAGDAALALESIVSMAVFDEPPTDISAWPLFEGQDTAAARANAVGAYLARAAGLVGAMVFSTNSALHLTEVDDAGPADPKDHSKPSFYRFFLVPGTHVAANPQVDREGHVVPGFEGRPTAPLVGGTQEFAGEHLAMLCGFSPALLAKMLFYLERCDGAVIVGRQEMDVFRYVADSNQTDVPCNLCTFDTRHACVHTTLMRLRARHPKFASAARGAIGVFGTMNSMYSDCDVLGNYAAFSALKRADGSETARTIMQETYRAATERVMAELETLQYVDQAVPTAMGRLETIITNREALHTVVNNVRQVVDREVEQLMRNLVEGRNFKFRDGLGEANHAMSLTLDPYACGPCPLLQLLGRRSNLAVYQDLALSQCHGVFAGQSVEGRNFRNQFQPVLRRRVMDMFNNGFLSAKTLTVALSEGAAICAPSLTAGQTAPAESSFEGDVARVTLGFPKELRVKSRVLFAGASANASEAAKARVASLQSAYQKPDKRVDILLGPLGFLLKQFHAAIFPNGKPPGSNQPNPQWFWTALQRNQLPARLLSREDIETIAFIKKFSLDYGAINFINLAPNNVSELAMYYMANQILRYCDHSTYFINTLTAIIAGSRRPPSVQAAAAWSAQGGAGLEAGARALMDAVDAHPGAWTSMFASCNLLRPVMAARPMVVLGLSISKYYGMAGNDRVFQAGNWASLMGGKNACPLLIFDRTRKFVLACPRAGFVCAASSLGGGAHESSLCEQLRGIISEGGAAVASSVFVATVKSLGPRTQQLQIEDWLALLEDEYLSEEMMELTARALERGNGEWSTDAALEVAHEAEA 1130
               SCOP domains d1urjb_ B: Infected cell protein 8, ICP8                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) Viral_DNA_bp-1urjB01 B:9-1130                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Pfam domains (1)
           Pfam domains (2) Viral_DNA_bp-1urjB02 B:9-1130                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Pfam domains (2)
         Sec.struct. author .eeee.ee..eeeeeee....hhhhhhhhh........eeee.............eeeeeeeeee.-----.eeeeeeeee...eeeeeehhhhh.......hhhhhhhhhhhhhh......hhhhhhhh.hhhhhhhhhh.....eeeeeee...hhhhhhh..eee.hhhheeeee..eeeeeeeeee.hhhh.............................hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.............ee..--------------------.hhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh......eeeeee....----........eeeee........ee.........................hhhhhhhhh..hhhhhhhhhhhhh........----.hhhhhhhh..................hhhhhhhhhhhhh...............................-------------------.hhhhhhhhhhhhhhhh............hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh---.hhhhhhh..eeeeeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh......eeeeeeeeee......ee...........ee...eee...eeeeeeeeeeeee...-------------------..........hhhhh.hhhhhhhhhhhhh...........hhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh......................hhhhhhhh.....hhhhhhhhhhhhhhhh............hhhhhhhh..eeeeeeeeee.--------..eeeeee...hhhhh..........................---------hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhh......hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -----------------------------------A-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------N-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A----------------------------------------------G--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1urj B    9 TTIKVPPGPLGYVYARACPSEGIELLALLSARSGDSDVAVAPLVVGLTVESGFEANVAVVVGSRTT-----AVSLKLTPSHYSSSVYVFHGGRHLDPSTQAPNLTRLCERARRHFGFSDYTPRPGDLKHETTGEALCERLGLDPDRALLYLVVTEGFKEAVCINNTFLHLGGSDKVTIGGAEVHRIPVYPLQLFMPDFSRVIAEPFNANHRSIGEKFTYPLPFFNRPLNRLLFEAVVGPAAVALRSRNVDAVARAAAHLAFDENHEGAALPADITFTAF--------------------GGFEQRLASVMAGDAALALESIVSMAVFDEPPTDISAWPLFEGQDTAAARANAVGAYLARAAGLVGAMVFSTNSALHLTEVDDAGPA----HSKPSFYRFFLVPGTHVAANPQVDREGHVVPGFEGRPTAPLVGGTQEFAGEHLAMLSGFSPALLAKMLFYLERCDGAVIV----MDVFRYVADSNQTDVPCNLCTFDTRHACVHTTLMRLRARHPKFASAARGAIGVFGTMNSMYSDCDVLGNYA-------------------ETYRAATERVMAELETLQYVDQAVPTAMGRLETIITNREALHTVVNNVRQVVDREVEQLMRNLVE---FKFRDGLGEANHAMSLTLDPYACGPCPLLQLLGRRSNLAVYQDLALSQCHGVFAGQSVEGRNFRNQFQPVLRRRVMDMFNNGFLSAKTLTVALSEGAAICAPSLTAGQTAPAESSFEGDVARVTLGFPKELRVKSRVLF-------------------SAYQKPDKRVDILLGPLGFLLKQFHAAIFPNGKPPGSNQPNPQWFWTALQRNQLPARLLSREDIETIAFIKKFSLDYGAINFINLAPNNVSELAMYYMANQILRYCDHSTYFINTLTAIIAGSRRPPSVQAAAAWSAQGGAGLEAGARALMDAVDAHPGAWTSMFASCNLLRPVMAARPMVVLGLSISKY--------VFQAGNWASLMGGKNACPLLIFDRTRKFVLACPRAGFVCAAS---------SLCEQLRGIISEGGAAVASSVFVATVKSLGPRTQQLQIEDWLALLEDEYLSEEMMELTARALERGNGEWSTDAALEVAHEAEA 1130
                                    18        28        38        48        58        68     |   - |      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278        |-         -       308       318       328       338       348       358       368       378       388     |   -|      408       418       428       438       448       458       468       478    |  488       498       508       518       528       538       548    |    -         -    |  578       588       598       608       618       628        |-  |    648       658       668       678       688       698       708       718       728       738       748       758       768       778|        -         -|      808       818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      1118      1128  
                                                                                            74    80                                                                                                                                                                                                            287                  308                                                                                   394  399                                                                            478  483                                                                   553                 573                                                             637 641                                                                                                                                       779                 799                                                                                                                                                                                          988      997                                     1038      1048
   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  (1, 2)

Asymmetric Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1URJ)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: Viral_DNA_bp] (1)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (DNBI_HHV11 | P04296)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003697    single-stranded DNA binding    Interacting selectively and non-covalently with single-stranded DNA.
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.
cellular component
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.

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Asymmetric Unit
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