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DPOL_PYRAB
ID   DPOL_PYRAB              Reviewed;         771 AA.
AC   P0CL77; G8ZK85; P77916; P77932;
DT   05-APR-2011, integrated into UniProtKB/Swiss-Prot.
DT   05-APR-2011, sequence version 1.
DT   25-MAY-2022, entry version 62.
DE   RecName: Full=DNA polymerase 1;
DE            EC=2.7.7.7;
DE   AltName: Full=Pab polymerase;
GN   Name=polI; Synonyms=pol; OrderedLocusNames=PYRAB17200; ORFNames=PAB1128;
OS   Pyrococcus abyssi (strain GE5 / Orsay).
OC   Archaea; Euryarchaeota; Thermococci; Thermococcales; Thermococcaceae;
OC   Pyrococcus.
OX   NCBI_TaxID=272844;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=GE5 / Orsay;
RX   PubMed=12622808; DOI=10.1046/j.1365-2958.2003.03381.x;
RA   Cohen G.N., Barbe V., Flament D., Galperin M., Heilig R., Lecompte O.,
RA   Poch O., Prieur D., Querellou J., Ripp R., Thierry J.-C., Van der Oost J.,
RA   Weissenbach J., Zivanovic Y., Forterre P.;
RT   "An integrated analysis of the genome of the hyperthermophilic archaeon
RT   Pyrococcus abyssi.";
RL   Mol. Microbiol. 47:1495-1512(2003).
RN   [2]
RP   GENOME REANNOTATION.
RC   STRAIN=GE5 / Orsay;
RX   PubMed=22057919; DOI=10.1007/s00284-011-0035-x;
RA   Gao J., Wang J.;
RT   "Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and
RT   Pyrococcus furiosus DSM 3638.";
RL   Curr. Microbiol. 64:118-129(2012).
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) =
CC         diphosphate + DNA(n+1); Xref=Rhea:RHEA:22508, Rhea:RHEA-COMP:17339,
CC         Rhea:RHEA-COMP:17340, ChEBI:CHEBI:33019, ChEBI:CHEBI:61560,
CC         ChEBI:CHEBI:173112; EC=2.7.7.7;
CC   -!- SIMILARITY: Belongs to the DNA polymerase type-B family. {ECO:0000305}.
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DR   EMBL; AJ248288; CAB50625.1; -; Genomic_DNA.
DR   EMBL; HE613800; CCE71192.1; -; Genomic_DNA.
DR   PIR; C75023; C75023.
DR   RefSeq; WP_010868838.1; NC_000868.1.
DR   PDB; 4FLT; X-ray; 2.90 A; A=1-771.
DR   PDB; 4FLV; X-ray; 2.70 A; A=1-771.
DR   PDB; 4FLW; X-ray; 2.15 A; A=1-771.
DR   PDB; 4FLX; X-ray; 2.90 A; A=1-771.
DR   PDB; 4FLY; X-ray; 2.30 A; A=1-771.
DR   PDB; 4FLZ; X-ray; 3.20 A; A=1-771.
DR   PDB; 4FM0; X-ray; 3.12 A; A=1-771.
DR   PDB; 4FM1; X-ray; 3.00 A; A=1-771.
DR   PDB; 4FM2; X-ray; 2.90 A; A=1-771.
DR   PDBsum; 4FLT; -.
DR   PDBsum; 4FLV; -.
DR   PDBsum; 4FLW; -.
DR   PDBsum; 4FLX; -.
DR   PDBsum; 4FLY; -.
DR   PDBsum; 4FLZ; -.
DR   PDBsum; 4FM0; -.
DR   PDBsum; 4FM1; -.
DR   PDBsum; 4FM2; -.
DR   AlphaFoldDB; P0CL77; -.
DR   SMR; P0CL77; -.
DR   STRING; 272844.PAB1128; -.
DR   EnsemblBacteria; CAB50625; CAB50625; PAB1128.
DR   GeneID; 1496021; -.
DR   KEGG; pab:PAB1128; -.
DR   PATRIC; fig|272844.11.peg.1837; -.
DR   eggNOG; arCOG00328; Archaea.
DR   HOGENOM; CLU_000203_6_0_2; -.
DR   OMA; GNQKSPY; -.
DR   OrthoDB; 35869at2157; -.
DR   PhylomeDB; P0CL77; -.
DR   Proteomes; UP000000810; Chromosome.
DR   Proteomes; UP000009139; Chromosome.
DR   GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0003887; F:DNA-directed DNA polymerase activity; IEA:UniProtKB-KW.
DR   GO; GO:0000166; F:nucleotide binding; IEA:InterPro.
DR   GO; GO:0006260; P:DNA replication; IEA:UniProtKB-KW.
DR   Gene3D; 1.10.132.60; -; 1.
DR   Gene3D; 3.30.420.10; -; 1.
DR   Gene3D; 3.90.1600.10; -; 1.
DR   InterPro; IPR006172; DNA-dir_DNA_pol_B.
DR   InterPro; IPR017964; DNA-dir_DNA_pol_B_CS.
DR   InterPro; IPR006133; DNA-dir_DNA_pol_B_exonuc.
DR   InterPro; IPR006134; DNA-dir_DNA_pol_B_multi_dom.
DR   InterPro; IPR043502; DNA/RNA_pol_sf.
DR   InterPro; IPR042087; DNA_pol_B_thumb.
DR   InterPro; IPR023211; DNA_pol_palm_dom_sf.
DR   InterPro; IPR012337; RNaseH-like_sf.
DR   InterPro; IPR036397; RNaseH_sf.
DR   Pfam; PF00136; DNA_pol_B; 1.
DR   Pfam; PF03104; DNA_pol_B_exo1; 2.
DR   PRINTS; PR00106; DNAPOLB.
DR   SMART; SM00486; POLBc; 1.
DR   SUPFAM; SSF53098; SSF53098; 1.
DR   SUPFAM; SSF56672; SSF56672; 1.
DR   PROSITE; PS00116; DNA_POLYMERASE_B; 1.
PE   1: Evidence at protein level;
KW   3D-structure; DNA replication; DNA-binding; DNA-directed DNA polymerase;
KW   Nucleotidyltransferase; Transferase.
FT   CHAIN           1..771
FT                   /note="DNA polymerase 1"
FT                   /id="PRO_0000407283"
FT   STRAND          1..10
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          13..22
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          25..32
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          37..44
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           45..47
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           48..51
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          55..58
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          61..64
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          67..75
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          78..86
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           92..101
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          106..111
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           116..123
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          137..144
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          157..164
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          167..174
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          181..183
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           187..201
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          204..210
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   TURN            211..214
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           215..225
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          240..244
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          247..251
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          255..259
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           260..267
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           275..283
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           292..301
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           305..337
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           341..345
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           349..364
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           374..381
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          398..405
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           407..409
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           410..416
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   TURN            421..423
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          430..434
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   TURN            436..438
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          441..443
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           449..469
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           474..491
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           494..498
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           508..531
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          535..539
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          541..547
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           553..570
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          578..590
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          593..597
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          603..607
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           617..631
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           636..651
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           657..660
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          662..665
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           670..672
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           678..688
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          698..705
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           710..712
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   STRAND          714..716
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           717..719
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   TURN            722..724
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           729..734
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           737..746
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   TURN            747..749
FT                   /evidence="ECO:0007829|PDB:4FLW"
FT   HELIX           752..754
FT                   /evidence="ECO:0007829|PDB:4FLW"
SQ   SEQUENCE   771 AA;  89496 MW;  110A87045A8A5522 CRC64;
     MIIDADYITE DGKPIIRIFK KEKGEFKVEY DRTFRPYIYA LLKDDSAIDE VKKITAERHG
     KIVRITEVEK VQKKFLGRPI EVWKLYLEHP QDVPAIREKI REHPAVVDIF EYDIPFAKRY
     LIDKGLTPME GNEELTFLAV DIETLYHEGE EFGKGPIIMI SYADEEGAKV ITWKSIDLPY
     VEVVSSEREM IKRLVKVIRE KDPDVIITYN GDNFDFPYLL KRAEKLGIKL PLGRDNSEPK
     MQRMGDSLAV EIKGRIHFDL FPVIRRTINL PTYTLEAVYE AIFGKSKEKV YAHEIAEAWE
     TGKGLERVAK YSMEDAKVTF ELGKEFFPME AQLARLVGQP VWDVSRSSTG NLVEWFLLRK
     AYERNELAPN KPDEREYERR LRESYEGGYV KEPEKGLWEG IVSLDFRSLY PSIIITHNVS
     PDTLNRENCK EYDVAPQVGH RFCKDFPGFI PSLLGNLLEE RQKIKKRMKE SKDPVEKKLL
     DYRQRAIKIL ANSYYGYYGY AKARWYCKEC AESVTAWGRQ YIDLVRRELE SRGFKVLYID
     TDGLYATIPG AKHEEIKEKA LKFVEYINSK LPGLLELEYE GFYARGFFVT KKKYALIDEE
     GKIVTRGLEI VRRDWSEIAK ETQAKVLEAI LKHGNVDEAV KIVKEVTEKL SKYEIPPEKL
     VIYEQITRPL SEYKAIGPHV AVAKRLAAKG VKVKPGMVIG YIVLRGDGPI SKRAIAIEEF
     DPKKHKYDAE YYIENQVLPA VERILRAFGY RKEDLKYQKT KQVGLGAWLK F
 
 
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