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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

9F2A

Pyrococcus abyssi PolD in complex with Rpa2 winged-helix domain class 2 (composite map)

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(A)		DNA polymerase II small subunitpolymer66274009.71UniProt (Q9V2F3)
Pfam (PF22317)
Pfam (PF00149)		Pyrococcus abyssi GE5
2B
(B)		DNA polymerase II large subunitpolymer1270144419.01UniProt (P81409)
Pfam (PF03833)		Pyrococcus abyssi GE5Pol II,DP2,Exodeoxyribonuclease large subunit
3C
(C)		RPA32 subunit of the hetero-oligomeric complex involved in homologous recombinationpolymer13215264.91UniProt (Q9V1Z1)Pyrococcus abyssi GE5
4D
(A)		FE (III) IONnon-polymer55.81Chemie (FE)
5E, F, G
(B)		ZINC IONnon-polymer65.43Chemie (ZN)
Sequence modifications
A: 2 - 619 (UniProt: Q9V2F3)
PDBExternal DatabaseDetails
Met -42-initiating methionine
Gly -41-expression tag
Lys -40-expression tag
His -39-expression tag
His -38-expression tag
His -37-expression tag
His -36-expression tag
Ser -35-expression tag
Gly -34-expression tag
His -33-expression tag
His -32-expression tag
His -31-expression tag
Thr -30-expression tag
Gly -29-expression tag
His -28-expression tag
His -27-expression tag
His -26-expression tag
His -25-expression tag
Ser -24-expression tag
Gly -23-expression tag
Ser -22-expression tag
His -21-expression tag
His -20-expression tag
His -19-expression tag
Thr -18-expression tag
Ser -17-expression tag
Ser -16-expression tag
Ser -15-expression tag
Ala -14-expression tag
Ser -13-expression tag
Thr -12-expression tag
Gly -11-expression tag
Glu -10-expression tag
Asn -9-expression tag
Leu -8-expression tag
Tyr -7-expression tag
Phe -6-expression tag
Gln -5-expression tag
Gly -4-expression tag
Thr -3-expression tag
Gly -2-expression tag
Asp -1-expression tag
Gly 0-expression tag
Ser 1-expression tag
Ala 451His 451engineered mutation
B: 1 - 1268 (UniProt: P81409)
PDBExternal DatabaseDetails
Met 7Ile 7conflict
Ala 30Ser 30conflict
Leu 37Thr 37conflict
Lys 62Gln 62conflict
Val 68Leu 68conflict
Gly 72Asp 72conflict
Ala 76Val 76conflict
Leu 92Phe 92conflict
Arg 95Lys 95conflict
Ile 119Leu 119conflict
Asn 124Asp 124conflict
Glu 178Gly 178conflict
Thr 196Ser 196conflict
Glu 205Asp 205conflict
Pro 234Glu 234conflict
Glu 270Asp 270conflict
Pro 287Glu 287conflict
Lys 288Ile 288conflict
Gly 291Ser 291conflict
Lys 292Glu 292conflict
Glu 293Ser 293conflict
Glu 294Lys 294conflict
Ser 295Ala 295conflict
Leu 296Glu 296conflict
Ala 297Glu 297conflict
Glu 298Ser 298conflict
Ser 299Lys 299conflict
Thr 300Val 300conflict
Leu 301-insertion
Glu 302-insertion
Lys 305Arg 303conflict
Asp 309Glu 307conflict
Met 310Lys 308conflict
Ser 315Lys 313conflict
Gln 318Glu 316conflict
Lys 321Arg 319conflict
Glu 322Ala 320conflict
Asp 328Glu 326conflict
Val 334Ile 332conflict
Ser 342Ala 340conflict
Asp 343Gly 341conflict
Lys 346Glu 344conflict
Pro 347Asn 345conflict
Ala 359Val 357conflict
Gly 366Ser 364conflict
Ile 373Val 371conflict
Leu 385Met 383conflict
Val 399Ala 397conflict
Ile 402Ala 400conflict
Leu 415Val 413conflict
Val 426Ile 424conflict
Glu 428Asp 426conflict
Asp 429Glu 427conflict
Val 440Ile 438conflict
Cys 459Val 457conflict
Leu 465Gln 463conflict
Leu 471Val 469conflict
Lys 472Asn 470conflict
Ile 474Ala 472conflict
His 478Glu 476conflict
Glu 480Arg 478conflict
Thr 483Glu 481conflict
Glu 486Pro 484conflict
Glu 487Arg 485conflict
Ile 490Val 488conflict
Ser 494Ala 492conflict
Asp 495Glu 493conflict
Ile 499Val 497conflict
Lys 505Ala 503conflict
Glu 506Lys 504conflict
Arg 509Tyr 507conflict
Val 527Ile 525conflict
Gly 529Glu 527conflict
Ser 542Thr 540conflict
Glu 544Asn 542conflict
Lys 550Arg 548conflict
Arg 553Gly 551conflict
Leu 554Val 552conflict
Asn 557Asp 555conflict
Tyr 558Lys 556conflict
Glu 560Thr 558conflict
Ser 564Gly 562conflict
Asn 565Thr 563conflict
Val 576Glu 574conflict
Gln 579Leu 577conflict
Glu 580Asp 578conflict
Lys 581Asp 579conflict
Asp 584Ser 582conflict
Ser 585Leu 583conflict
Asp 600Glu 598conflict
Asn 602Ile 600conflict
Ile 604Val 602conflict
Ala 610Ser 608conflict
Asn 621Glu 619conflict
Met 625Lys 623conflict
Leu 629Phe 627conflict
Ala 631Thr 629conflict
Thr 632Val 630conflict
Glu 641Gln 639conflict
Val 696Ile 694conflict
His 716Thr 714conflict
Asn 720Glu 718conflict
Thr 723Ile 721conflict
Leu 728Ile 726conflict
Val 730Thr 728conflict
Arg 733Lys 731conflict
Asn 735Gly 733conflict
Pro 739Thr 737conflict
Glu 740Asn 738conflict
Asn 747Ser 745conflict
Thr 749Ser 747conflict
Arg 758Lys 756conflict
Tyr 760Phe 758conflict
Ala 761Thr 759conflict
Arg 766Lys 764conflict
Met 798Ile 796conflict
Pro 799Ala 797conflict
Asp 812Glu 810conflict
Ile 873Val 871conflict
Arg 881Lys 879conflict
Lys 885Arg 883conflict
Lys 888Arg 886conflict
Ala 961Ser 959conflict
Ile 1009Val 1007conflict
Leu 1050Ile 1048conflict
Arg 1079Lys 1077conflict
Glu 1083Thr 1081conflict
Val 1084Leu 1082conflict
Lys 1086Glu 1084conflict
Glu 1093Gln 1091conflict
Gly 1095Tyr 1093conflict
Lys 1099Thr 1097conflict
Phe 1130Tyr 1128conflict
Asn 1136Asp 1134conflict
Thr 1167Ala 1165conflict
Glu 1168Asn 1166conflict
Asn 1173Pro 1171conflict
Arg 1184Lys 1182conflict
Asn 1192Tyr 1190conflict
Val 1193Leu 1191conflict
Thr 1197Ala 1195conflict
Asn 1204Asp 1202conflict
Gln 1210Met 1208conflict
Arg 1211Lys 1209conflict
Leu 1212Met 1210conflict
Val 1213Ile 1211conflict
Met 1214Lys 1212conflict
Ala 1215Glu 1213conflict
Val 1220Thr 1218conflict
Asn 1221Val 1219conflict
Lys 1222Gln 1220conflict
Ser 1223Gly 1221conflict
Leu 1229Phe 1227conflict
Ser 1230Asn 1228conflict
Asn 1231Ser 1229conflict
Gly 1232Ser 1230conflict
Ser 1233Gly 1231conflict
Lys 1234Asn 1232conflict
Lys 1235-insertion
Thr 1236-insertion
Glu 1237-insertion
Lys 1238Asn 1233conflict
Ala 1239Gly 1234conflict
Glu 1240Lys 1235conflict
Ala 1242Ile 1237conflict
Pro 1245Lys 1240conflict
Arg 1246Glu 1241conflict
Ser 1249Ala 1244conflict
Asp 1250Lys 1245conflict
Arg 1257Lys 1252conflict
Glu 1262Asp 1257conflict
Glu 1263Asp 1258conflict
Arg 1267Lys 1262conflict
Lys 1268Arg 1263conflict
Ser 1269-expression tag
Lys 1270-expression tag
C: 178 - 268 (UniProt: Q9V1Z1)
PDBExternal DatabaseDetails
Met 137-initiating methionine
Gly 138-expression tag
Lys 139-expression tag
His 140-expression tag
His 141-expression tag
His 142-expression tag
His 143-expression tag
Ser 144-expression tag
Gly 145-expression tag
His 146-expression tag
His 147-expression tag
His 148-expression tag
Thr 149-expression tag
Gly 150-expression tag
His 151-expression tag
His 152-expression tag
His 153-expression tag
His 154-expression tag
Ser 155-expression tag
Gly 156-expression tag
Ser 157-expression tag
His 158-expression tag
His 159-expression tag
His 160-expression tag
Thr 161-expression tag
Ser 162-expression tag
Ser 163-expression tag
Ser 164-expression tag
Ala 165-expression tag
Ser 166-expression tag
Thr 167-expression tag
Gly 168-expression tag
Glu 169-expression tag
Asn 170-expression tag
Leu 171-expression tag
Tyr 172-expression tag
Phe 173-expression tag
Gln 174-expression tag
Gly 175-expression tag
Thr 176-expression tag
Gly 177-expression tag
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains3
Total formula weight233693.6
Non-Polymers*Number of molecules4
Total formula weight252.1
All*Total formula weight233945.6
*Water molecules are not included.

237735

PDB entries from 2025-06-18

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