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(-) Description

Title :  STRUCTURE OF HUMAN REV1-DNA-DNTP TERNARY COMPLEX
 
Authors :  M. K. Swan, A. K. Aggarwal
Date :  24 Mar 09  (Deposition) - 19 May 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,E,F  (1x)
Biol. Unit 2:  B,G,H  (1x)
Biol. Unit 3:  C,I,J  (1x)
Biol. Unit 4:  D,K,L  (1x)
Keywords :  Protein-Dna Complex, Dna Damage, Dna Repair, Dna Synthesis, Dna- Binding, Magnesium, Metal-Binding, Nucleotidyltransferase, Nucleus, Transferase, Transferase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. K. Swan, R. E. Johnson, L. Prakash, S. Prakash, A. K. Aggarwal
Structure Of The Human Rev1-Dna-Dntp Ternary Complex.
J. Mol. Biol. V. 390 699 2009
PubMed-ID: 19464298  |  Reference-DOI: 10.1016/J.JMB.2009.05.026

(-) Compounds

Molecule 1 - DNA REPAIR PROTEIN REV1
    ChainsA, B, C, D
    EC Number2.7.7.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPTYB4SE110
    Expression System StrainER2566
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 330-833
    GeneREV1, REV1L
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymREV1-LIKE TERMINAL DEOXYCYTIDYL TRANSFERASE, ALPHA INTEGRIN- BINDING PROTEIN 80, AIBP80
 
Molecule 2 - 5'-D(*AP*TP*CP*CP*TP*CP*CP*CP*CP*TP*AP*(DOC))-3'
    ChainsE, G, I, K
    EngineeredYES
    Other DetailsSYNTHETIC DNA
    SyntheticYES
 
Molecule 3 - 5'-D(*TP*AP*AP*GP*GP*TP*AP*GP*GP*GP*GP*AP*GP*GP*AP*T)-3'
    ChainsF, H, J, L
    EngineeredYES
    Other DetailsSYNTHETIC DNA
    SyntheticYES

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit ABCDEFGHIJKL
Biological Unit 1 (1x)A   EF      
Biological Unit 2 (1x) B    GH    
Biological Unit 3 (1x)  C     IJ  
Biological Unit 4 (1x)   D      KL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 21)

Asymmetric Unit (3, 21)
No.NameCountTypeFull Name
1DCP4Ligand/Ion2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE
2DOC4Mod. Nucleotide2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
3MG13Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1DCP1Ligand/Ion2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE
2DOC1Mod. Nucleotide2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1DCP1Ligand/Ion2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE
2DOC1Mod. Nucleotide2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (2, 2)
No.NameCountTypeFull Name
1DCP1Ligand/Ion2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE
2DOC1Mod. Nucleotide2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 4 (2, 2)
No.NameCountTypeFull Name
1DCP1Ligand/Ion2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE
2DOC1Mod. Nucleotide2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHOH A:89 , MG A:201 , MG A:202 , ARG A:357 , ASP A:423 , MET A:424 , ASP A:425 , CYS A:426 , PHE A:427 , PHE A:428 , ALA A:509 , SER A:510 , TYR A:513 , ARG A:516 , ASN A:522 , ASP A:570 , LYS A:625BINDING SITE FOR RESIDUE DCP A 101
02AC2SOFTWAREMG B:203 , ARG B:357 , ASP B:423 , MET B:424 , CYS B:426 , PHE B:427 , PHE B:428 , ALA B:509 , SER B:510 , TYR B:513 , ARG B:516 , ASN B:522 , ASP B:570 , LYS B:625BINDING SITE FOR RESIDUE DCP B 101
03AC3SOFTWAREHOH C:73 , HOH C:87 , MG C:205 , MG C:206 , ARG C:357 , ASP C:423 , MET C:424 , ASP C:425 , CYS C:426 , PHE C:427 , PHE C:428 , ALA C:509 , SER C:510 , TYR C:513 , ARG C:516 , ASN C:522 , ASP C:570 , LYS C:625 , DOC I:12BINDING SITE FOR RESIDUE DCP C 101
04AC4SOFTWAREMG D:207 , MG D:208 , ARG D:357 , ASP D:423 , MET D:424 , ASP D:425 , CYS D:426 , PHE D:427 , PHE D:428 , ALA D:509 , SER D:510 , TYR D:513 , ARG D:516 , ASN D:522 , ASP D:570 , LYS D:625BINDING SITE FOR RESIDUE DCP D 101
05AC5SOFTWAREDCP A:101 , ASP A:423 , MET A:424 , ASP A:570BINDING SITE FOR RESIDUE MG A 201
06AC6SOFTWAREDCP A:101 , SER A:568 , ASP A:570 , GLU A:571 , DOC E:12BINDING SITE FOR RESIDUE MG A 202
07AC7SOFTWAREDCP B:101 , ASP B:423 , MET B:424 , ASP B:570BINDING SITE FOR RESIDUE MG B 203
08AC8SOFTWAREDCP C:101 , ASP C:423 , MET C:424 , ASP C:570BINDING SITE FOR RESIDUE MG C 205
09AC9SOFTWAREDCP C:101 , SER C:568 , ASP C:570 , GLU C:571 , DOC I:12BINDING SITE FOR RESIDUE MG C 206
10BC1SOFTWAREDCP D:101 , MG D:208 , ASP D:423 , MET D:424 , ASP D:570BINDING SITE FOR RESIDUE MG D 207
11BC2SOFTWAREDCP D:101 , MG D:207 , ASP D:423 , ASP D:570 , GLU D:571 , DOC K:12BINDING SITE FOR RESIDUE MG D 208
12BC3SOFTWARETHR A:447 , SER A:448 , GLU A:507 , TYR A:541 , DA F:3BINDING SITE FOR RESIDUE MG A 209
13BC4SOFTWARETHR D:447 , SER D:448 , GLU D:507 , TYR D:541 , DA L:3BINDING SITE FOR RESIDUE MG D 210
14BC5SOFTWARETHR A:647 , LEU A:649 , VAL A:652 , DA E:11BINDING SITE FOR RESIDUE MG A 211
15BC6SOFTWARETHR B:647 , ASN B:648 , LEU B:649 , VAL B:652 , DA G:11BINDING SITE FOR RESIDUE MG B 212
16BC7SOFTWARETHR C:647 , LEU C:649 , VAL C:652 , DA I:11BINDING SITE FOR RESIDUE MG C 213
17BC8SOFTWARETHR D:647 , LEU D:649 , VAL D:652 , DA K:11 , HOH K:75BINDING SITE FOR RESIDUE MG D 214

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GQC)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Lys A:625 -Pro A:626
2Lys B:625 -Pro B:626
3Thr C:583 -Lys C:584
4Lys C:625 -Pro C:626
5Lys D:625 -Pro D:626

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (5, 20)

Asymmetric Unit (5, 20)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021251N373SREV1_HUMANPolymorphism3087399A/B/C/DN373S
2UniProtVAR_029194M656VREV1_HUMANPolymorphism3087394A/B/C/DM656V
3UniProtVAR_029195L660WREV1_HUMANPolymorphism3087398A/B/C/DL660W
4UniProtVAR_029196D700NREV1_HUMANPolymorphism28382941A/B/C/DD700N
5UniProtVAR_029197R704QREV1_HUMANPolymorphism28382942A/B/C/DR704Q

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021251N373SREV1_HUMANPolymorphism3087399AN373S
2UniProtVAR_029194M656VREV1_HUMANPolymorphism3087394AM656V
3UniProtVAR_029195L660WREV1_HUMANPolymorphism3087398AL660W
4UniProtVAR_029196D700NREV1_HUMANPolymorphism28382941AD700N
5UniProtVAR_029197R704QREV1_HUMANPolymorphism28382942AR704Q

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021251N373SREV1_HUMANPolymorphism3087399BN373S
2UniProtVAR_029194M656VREV1_HUMANPolymorphism3087394BM656V
3UniProtVAR_029195L660WREV1_HUMANPolymorphism3087398BL660W
4UniProtVAR_029196D700NREV1_HUMANPolymorphism28382941BD700N
5UniProtVAR_029197R704QREV1_HUMANPolymorphism28382942BR704Q

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 3 (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021251N373SREV1_HUMANPolymorphism3087399CN373S
2UniProtVAR_029194M656VREV1_HUMANPolymorphism3087394CM656V
3UniProtVAR_029195L660WREV1_HUMANPolymorphism3087398CL660W
4UniProtVAR_029196D700NREV1_HUMANPolymorphism28382941CD700N
5UniProtVAR_029197R704QREV1_HUMANPolymorphism28382942CR704Q

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 4 (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_021251N373SREV1_HUMANPolymorphism3087399DN373S
2UniProtVAR_029194M656VREV1_HUMANPolymorphism3087394DM656V
3UniProtVAR_029195L660WREV1_HUMANPolymorphism3087398DL660W
4UniProtVAR_029196D700NREV1_HUMANPolymorphism28382941DD700N
5UniProtVAR_029197R704QREV1_HUMANPolymorphism28382942DR704Q

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UMUCPS50173 UmuC domain profile.REV1_HUMAN419-653
 
 
 
  4A:419-653
B:419-653
C:419-653
D:419-653
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UMUCPS50173 UmuC domain profile.REV1_HUMAN419-653
 
 
 
  1A:419-653
-
-
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UMUCPS50173 UmuC domain profile.REV1_HUMAN419-653
 
 
 
  1-
B:419-653
-
-
Biological Unit 3 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UMUCPS50173 UmuC domain profile.REV1_HUMAN419-653
 
 
 
  1-
-
C:419-653
-
Biological Unit 4 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UMUCPS50173 UmuC domain profile.REV1_HUMAN419-653
 
 
 
  1-
-
-
D:419-653

(-) Exons   (11, 44)

Asymmetric Unit (11, 44)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002584281aENSE00001515354chr2:100106497-100106279219REV1_HUMAN-00--
1.2ENST000002584282ENSE00000921861chr2:100081447-10008138464REV1_HUMAN1-18180--
1.3bENST000002584283bENSE00000921860chr2:100079084-100078958127REV1_HUMAN19-61430--
1.5ENST000002584285ENSE00001637671chr2:100065966-100065798169REV1_HUMAN61-117570--
1.6ENST000002584286ENSE00001757863chr2:100058931-100058779153REV1_HUMAN117-168520--
1.7aENST000002584287aENSE00001698319chr2:100055772-100055063710REV1_HUMAN168-4052384A:344-391 (gaps)
B:344-392
C:344-385 (gaps)
D:346-389
48
49
42
44
1.9bENST000002584289bENSE00001623485chr2:100052403-100052296108REV1_HUMAN405-441374A:416-441
B:416-441
C:416-441
D:416-441
26
26
26
26
1.10ENST0000025842810ENSE00001751683chr2:100050910-100050794117REV1_HUMAN441-480404A:441-477
B:441-473
C:441-472
D:441-472
37
33
32
32
1.12aENST0000025842812aENSE00000921854chr2:100046410-100046302109REV1_HUMAN480-516374A:499-516
B:496-516
C:500-516
D:496-516
18
21
17
21
1.14bENST0000025842814bENSE00001685794chr2:100040742-100040614129REV1_HUMAN516-559444A:516-559
B:516-559
C:516-559
D:516-559
44
44
44
44
1.15ENST0000025842815ENSE00001749185chr2:100038115-100037961155REV1_HUMAN559-611534A:559-611
B:559-611
C:559-611
D:559-611
53
53
53
53
1.16bENST0000025842816bENSE00001690779chr2:100035409-100035290120REV1_HUMAN611-651414A:611-651
B:611-651
C:611-651
D:611-651
41
41
41
41
1.17bENST0000025842817bENSE00001626429chr2:100029413-100029193221REV1_HUMAN651-724744A:651-724
B:651-724
C:651-724
D:651-724
74
74
74
74
1.18aENST0000025842818aENSE00001733763chr2:100027329-100027157173REV1_HUMAN725-782584A:725-782
B:725-782
C:725-782
D:725-782
58
58
58
58
1.19bENST0000025842819bENSE00001627924chr2:100024593-100024491103REV1_HUMAN782-816354A:782-816
B:782-816
C:782-816
D:782-816
35
35
35
35
1.20bENST0000025842820bENSE00001802837chr2:100022952-100022787166REV1_HUMAN817-872564A:817-828
B:817-828
C:817-827
D:817-827
12
12
11
11
1.20hENST0000025842820hENSE00001790412chr2:100022568-100022372197REV1_HUMAN872-937660--
1.21ENST0000025842821ENSE00001641934chr2:100021140-100020907234REV1_HUMAN938-1015780--
1.22ENST0000025842822ENSE00001774065chr2:100020278-100020158121REV1_HUMAN1016-1056410--
1.23dENST0000025842823dENSE00001793684chr2:100019569-100019352218REV1_HUMAN1056-1128730--
1.24aENST0000025842824aENSE00000921842chr2:100019263-100019107157REV1_HUMAN1129-1181530--
1.24eENST0000025842824eENSE00000921841chr2:100018809-100018707103REV1_HUMAN1181-1215350--
1.25bENST0000025842825bENSE00000921840chr2:100017815-100016938878REV1_HUMAN1215-1251370--

(-) 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:435
 aligned with REV1_HUMAN | Q9UBZ9 from UniProtKB/Swiss-Prot  Length:1251

    Alignment length:485
                                   353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823     
           REV1_HUMAN   344 SDCNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKLKKMKTGRSALVVTDTGDMSVLNSPRHQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGKAADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPTN 828
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.-----hhhhhh...------------------------...eeeeee.hhhhhhhh..........eee...............hhhhhhhhhhh.....---------------------hhhhh......eehhhhhh.......hhhhhhhhh...eee..hhhhhhhhhhhhhhhhhh....eeeee..eeeeehhhhhhhhh.hhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eee.hhhhhhhhhhhhhhhhh...hhhhhhhhhhh...hhhhhh..hhhhhhhhhhhhhhhhhhhhh................eeeee.......hhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeee................eeeeeeeeeeeeee.hhhhhhhhhhhhhhh...hhh.eeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -----------------------------S------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V---W---------------------------------------N---Q---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------UMUC  PDB: A:419-653 UniProt: 419-653                                                                                                                                                                                                      ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.7a  PDB: A:344-391 (gaps) UniProt: 168-405 [INCOMPLETE]-----------------------------------Exon 1.10  PDB: A:441-477 [INCOMPLETE]  -----------------------------------Exon 1.14b  PDB: A:516-559 UniProt: 516-559 ---------------------------------------------------Exon 1.16b  PDB: A:611-651               -------------------------------------------------------------------------Exon 1.18a  PDB: A:725-782 UniProt: 725-782               ----------------------------------Exon 1.20b   Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------Exon 1.9b  PDB: A:416-441            --------------------------------------Exon 1.12a  PDB: A:499-516           ------------------------------------------Exon 1.15  PDB: A:559-611 UniProt: 559-611           ---------------------------------------Exon 1.17b  PDB: A:651-724 UniProt: 651-724                               ---------------------------------------------------------Exon 1.19b  PDB: A:782-816         ------------ Transcript 1 (2)
                 3gqc A 344 SDCNFISNFYSHSRLHHISMWKCELTEFVNTLQR-----FPGREKLKK------------------------QSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKG---------------------IDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPTN 828
                                   353       363       373   |   383       | -         -         -  |    423       433       443       453       463       473   |     -         -     | 503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823     
                                                           377   383     391                      416                                                          477                   499                                                                                                                                                                                                                                                                                                                                         

Chain B from PDB  Type:PROTEIN  Length:440
 aligned with REV1_HUMAN | Q9UBZ9 from UniProtKB/Swiss-Prot  Length:1251

    Alignment length:485
                                   353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823     
           REV1_HUMAN   344 SDCNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKLKKMKTGRSALVVTDTGDMSVLNSPRHQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGKAADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPTN 828
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhh..-----------------------...eeeeee.hhhhhhhh..........eee...............hhhhhhhhhh..----------------------...hhhhh......eehhhhhh.......hhhhhhhhh...eee..hhhhhhhhhhhhhhhhhh....eeeee..eeeeehhhhhhh...hhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eee.hhhhhhhhhhhhhhhhh...hhhhhhhhhh....hhhhhh..hhhhhhhhhhhhhhhhhhhhh................eeeee.......hhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeeee................eeeeeeeeeeeeee.hhhhhhhhhhhhhhh...hhh.eeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -----------------------------S------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V---W---------------------------------------N---Q---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------UMUC  PDB: B:419-653 UniProt: 419-653                                                                                                                                                                                                      ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.7a  PDB: B:344-392 UniProt: 168-405 [INCOMPLETE]       -----------------------------------Exon 1.10  PDB: B:441-473 [INCOMPLETE]  -----------------------------------Exon 1.14b  PDB: B:516-559 UniProt: 516-559 ---------------------------------------------------Exon 1.16b  PDB: B:611-651               -------------------------------------------------------------------------Exon 1.18a  PDB: B:725-782 UniProt: 725-782               ----------------------------------Exon 1.20b   Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------Exon 1.9b  PDB: B:416-441            --------------------------------------Exon 1.12a  PDB: B:496-516           ------------------------------------------Exon 1.15  PDB: B:559-611 UniProt: 559-611           ---------------------------------------Exon 1.17b  PDB: B:651-724 UniProt: 651-724                               ---------------------------------------------------------Exon 1.19b  PDB: B:782-816         ------------ Transcript 1 (2)
                 3gqc B 344 SDCNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKLKKM-----------------------QSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNK----------------------ANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPTN 828
                                   353       363       373       383        |-         -         -  |    423       433       443       453       463       473         -         -  |    503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823     
                                                                          392                     416                                                      473                    496                                                                                                                                                                                                                                                                                                                                            

Chain C from PDB  Type:PROTEIN  Length:423
 aligned with REV1_HUMAN | Q9UBZ9 from UniProtKB/Swiss-Prot  Length:1251

    Alignment length:484
                                   353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823    
           REV1_HUMAN   344 SDCNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKLKKMKTGRSALVVTDTGDMSVLNSPRHQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGKAADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPT 827
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.----...------------------------------...eeeeee.hhhhhhhh..hhhhh...eee...............hhhhhhhhhhh---------------------------..........eehhhhhhh......hhhhhhhhh...eee..hhhhhhhhhhhhhhhhhh....eeeee..eeeeehhhhhhh...hhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eee....hhhhhhhh.hhhhh...hhhhhhhhhh....hhhhhh..hhhhhhhhhhhhhhhhhhhhh................eeeee.......hhhhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeee................eeeeeeeeeeeeee.hhhhhhhhhhhhhhh...hhh.eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -----------------------------S------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V---W---------------------------------------N---Q--------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------UMUC  PDB: C:419-653 UniProt: 419-653                                                                                                                                                                                                      ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.7a  PDB: C:344-385 (gaps) UniProt: 168-405 [INCOMPLETE]-----------------------------------Exon 1.10  PDB: C:441-472 [INCOMPLETE]  -----------------------------------Exon 1.14b  PDB: C:516-559 UniProt: 516-559 ---------------------------------------------------Exon 1.16b  PDB: C:611-651               -------------------------------------------------------------------------Exon 1.18a  PDB: C:725-782 UniProt: 725-782               ----------------------------------Exon 1.20b  Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------Exon 1.9b  PDB: C:416-441            --------------------------------------Exon 1.12a  PDB: C:500-516           ------------------------------------------Exon 1.15  PDB: C:559-611 UniProt: 559-611           ---------------------------------------Exon 1.17b  PDB: C:651-724 UniProt: 651-724                               ---------------------------------------------------------Exon 1.19b  PDB: C:782-816         ----------- Transcript 1 (2)
                 3gqc C 344 SDCNFISNFYSHSRLHHISMWKCELTEFVNTLQRQ----FPG------------------------------QSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQN---------------------------DSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPT 827
                                   353       363       373    |  383 |       -         -         -  |    423       433       443       453       463        |-         -         -      |503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823    
                                                            378  383 |                            416                                                     472                         500                                                                                                                                                                                                                                                                                                                                       
                                                                   385                                                                                                                                                                                                                                                                                                                                                                                                                                                          

Chain D from PDB  Type:PROTEIN  Length:433
 aligned with REV1_HUMAN | Q9UBZ9 from UniProtKB/Swiss-Prot  Length:1251

    Alignment length:482
                                   355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825  
           REV1_HUMAN   346 CNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKLKKMKTGRSALVVTDTGDMSVLNSPRHQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKILKGKAADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPT 827
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh--------------------------...eeeeee.hhhhhhhh..........eee...............hhhhhhhhhh.-----------------------hhhhhh........eehhhhhh.......hhhhhhhhh...eee..hhhhhhhhhhhhhhhhh.....eeeee..eeeeehhhhhhhhh.hhhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhh...eee.hhhhhhhhhhh.hhhhh...hhhhhhhhhh....hhhhhh..hhhhhhhhhhhhhhhhhhhhh................eeeee.......hhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeeeeee................eeeeeeeeeeeeee.hhhhhhhhhhhhhhh...hhh.eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------S------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------V---W---------------------------------------N---Q--------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------UMUC  PDB: D:419-653 UniProt: 419-653                                                                                                                                                                                                      ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.7a  PDB: D:346-389 UniProt: 168-405 [INCOMPLETE]     -----------------------------------Exon 1.10  PDB: D:441-472 [INCOMPLETE]  -----------------------------------Exon 1.14b  PDB: D:516-559 UniProt: 516-559 ---------------------------------------------------Exon 1.16b  PDB: D:611-651               -------------------------------------------------------------------------Exon 1.18a  PDB: D:725-782 UniProt: 725-782               ----------------------------------Exon 1.20b  Transcript 1 (1)
           Transcript 1 (2) -----------------------------------------------------------Exon 1.9b  PDB: D:416-441            --------------------------------------Exon 1.12a  PDB: D:496-516           ------------------------------------------Exon 1.15  PDB: D:559-611 UniProt: 559-611           ---------------------------------------Exon 1.17b  PDB: D:651-724 UniProt: 651-724                               ---------------------------------------------------------Exon 1.19b  PDB: D:782-816         ----------- Transcript 1 (2)
                 3gqc D 346 CNFISNFYSHSRLHHISMWKCELTEFVNTLQRQSNGIFPGREKL--------------------------QSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQN-----------------------ANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCPNLQAVPYDFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTPDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLVTNLPGVGHSMESKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRTEKERKSVSAEINYGIRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPGAPVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNISDMRGVGIHVNQLVPT 827
                                   355       365       375       385   |     -         -         -|      425       435       445       455       465      |  -         -         -|      505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755       765       775       785       795       805       815       825  
                                                                     389                        416                                                     472                     496                                                                                                                                                                                                                                                                                                                                           

Chain E from PDB  Type:DNA  Length:12
                                            
                 3gqc E   1 ATCCTCCCCTAc  12
                                    10 |
                                      12-DOC

Chain F from PDB  Type:DNA  Length:16
                                                
                 3gqc F   1 TAAGGTAGGGGAGGAT  16
                                    10      

Chain G from PDB  Type:DNA  Length:12
                                            
                 3gqc G   1 ATCCTCCCCTAc  12
                                    10 |
                                      12-DOC

Chain H from PDB  Type:DNA  Length:16
                                                
                 3gqc H   1 TAAGGTAGGGGAGGAT  16
                                    10      

Chain I from PDB  Type:DNA  Length:12
                                            
                 3gqc I   1 ATCCTCCCCTAc  12
                                    10 |
                                      12-DOC

Chain J from PDB  Type:DNA  Length:16
                                                
                 3gqc J   1 TAAGGTAGGGGAGGAT  16
                                    10      

Chain K from PDB  Type:DNA  Length:12
                                            
                 3gqc K   1 ATCCTCCCCTAc  12
                                    10 |
                                      12-DOC

Chain L from PDB  Type:DNA  Length:16
                                                
                 3gqc L   1 TAAGGTAGGGGAGGAT  16
                                    10      

   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 3GQC)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3GQC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3GQC)

(-) Gene Ontology  (16, 16)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (REV1_HUMAN | Q9UBZ9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003684    damaged DNA binding    Interacting selectively and non-covalently with damaged DNA.
    GO:0017125    deoxycytidyl transferase activity    Catalysis of the insertion of a dCMP residue opposite a template abasic site in DNA.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0071897    DNA biosynthetic process    The cellular DNA metabolic process resulting in the formation of DNA, deoxyribonucleic acid, one of the two main types of nucleic acid, consisting of a long unbranched macromolecule formed from one or two strands of linked deoxyribonucleotides, the 3'-phosphate group of each constituent deoxyribonucleotide being joined in 3',5'-phosphodiester linkage to the 5'-hydroxyl group of the deoxyribose moiety of the next one.
    GO:0006281    DNA repair    The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
    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:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    GO:0042276    error-prone translesion synthesis    The conversion of DNA-damage induced single-stranded gaps into large molecular weight DNA after replication by using a specialized DNA polymerase or replication complex to insert a defined nucleotide across the lesion. This process does not remove the replication-blocking lesions and causes an increase in the endogenous mutation level. For example, in E. coli, a low fidelity DNA polymerase, pol V, copies lesions that block replication fork progress. This produces mutations specifically targeted to DNA template damage sites, but it can also produce mutations at undamaged sites.
    GO:0009411    response to UV    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an ultraviolet radiation (UV light) stimulus. Ultraviolet radiation is electromagnetic radiation with a wavelength in the range of 10 to 380 nanometers.
    GO:0019985    translesion synthesis    The replication of damaged DNA by synthesis across a lesion in the template strand; a specialized DNA polymerase or replication complex inserts a defined nucleotide across from the lesion which allows DNA synthesis to continue beyond the lesion. This process can be mutagenic depending on the damaged nucleotide and the inserted nucleotide.
cellular component
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        REV1_HUMAN | Q9UBZ92ebw 2lsi 2lsk 2lsy 2n1g 3vu7 4ba9 4ext 4gk0 4gk5

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3GQC)