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(-) Description

Title :  CRYSTAL STRUCTURE OF MURINE NOROVIRUS RNA DEPENDENT RNA POLYMERASE IN COMPLEX WITH 2THIOURIDINE(2TU)
 
Authors :  K. H. Kim, I. Alam
Date :  13 Jun 11  (Deposition) - 09 May 12  (Release) - 09 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.21
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B,C  (1x)
Keywords :  Right Hand Conformation, Polymerase, Rna Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Alam, J. H. Lee, K. J. Cho, K. R. Han, J. M. Yang, M. S. Chung, K. H. Kim
Crystal Structures Of Murine Norovirus-1 Rna-Dependent Rna Polymerase In Complex With 2-Thiouridine Or Ribavirin.
Virology V. 426 143 2012
PubMed-ID: 22341781  |  Reference-DOI: 10.1016/J.VIROL.2012.01.016

(-) Compounds

Molecule 1 - RNA POLYMERASE
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RDRP
    Organism Scientific: MURINE NOROVIRUS 1
    Organism Taxid: 223997

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (2x): A  
Biological Unit 2 (1x):  BC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 59)

Asymmetric Unit (4, 59)
No.NameCountTypeFull Name
12TU3Ligand/Ion1-(BETA-D-RIBOFURANOSYL)-2-THIOXO-2,3-DIHYDROPYRIMIDIN-4(1H)-ONE
2GOL25Ligand/IonGLYCEROL
3MG3Ligand/IonMAGNESIUM ION
4SO428Ligand/IonSULFATE ION
Biological Unit 1 (3, 44)
No.NameCountTypeFull Name
12TU2Ligand/Ion1-(BETA-D-RIBOFURANOSYL)-2-THIOXO-2,3-DIHYDROPYRIMIDIN-4(1H)-ONE
2GOL24Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4SO418Ligand/IonSULFATE ION
Biological Unit 2 (3, 34)
No.NameCountTypeFull Name
12TU2Ligand/Ion1-(BETA-D-RIBOFURANOSYL)-2-THIOXO-2,3-DIHYDROPYRIMIDIN-4(1H)-ONE
2GOL13Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION
4SO419Ligand/IonSULFATE ION

(-) Sites  (59, 59)

Asymmetric Unit (59, 59)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:250 , LEU A:301 , SER A:303 , THR A:308 , THR A:309 , ASN A:312 , TYR A:344 , ASP A:346BINDING SITE FOR RESIDUE 2TU A 601
02AC2SOFTWARETYR A:246 , THR A:247 , ARG A:248BINDING SITE FOR RESIDUE SO4 A 602
03AC3SOFTWARETHR A:148 , HIS A:149 , ASN A:152 , HOH A:745BINDING SITE FOR RESIDUE SO4 A 603
04AC4SOFTWARETRP A:134 , GLY A:136BINDING SITE FOR RESIDUE SO4 A 604
05AC5SOFTWAREARG A:374 , GLU A:383 , ARG A:385BINDING SITE FOR RESIDUE SO4 A 605
06AC6SOFTWAREPRO A:103 , ARG A:486BINDING SITE FOR RESIDUE SO4 A 606
07AC7SOFTWAREPRO A:82 , GLN A:83 , GLU A:84BINDING SITE FOR RESIDUE SO4 A 607
08AC8SOFTWARECYS A:90 , ASP A:91 , GLU A:94 , ARG A:260 , ILE A:264 , HOH A:718 , HOH A:817BINDING SITE FOR RESIDUE SO4 A 608
09AC9SOFTWAREMET A:31 , LEU A:168 , LYS A:169 , ASP A:170 , LEU A:187BINDING SITE FOR RESIDUE SO4 A 609
10BC1SOFTWAREASP A:410 , ARG A:411BINDING SITE FOR RESIDUE SO4 A 610
11BC2SOFTWARESER A:27 , THR A:28 , LYS A:29 , ASN A:425 , HOH A:878BINDING SITE FOR RESIDUE GOL A 611
12BC3SOFTWAREASP A:117 , THR A:120 , SER A:121 , LYS A:130 , MET A:195 , HOH A:734BINDING SITE FOR RESIDUE GOL A 612
13BC4SOFTWARELEU A:5 , SER A:9 , GLY A:10 , THR A:11 , TYR A:12 , ALA A:13 , ARG A:67 , HOH A:876BINDING SITE FOR RESIDUE GOL A 613
14BC5SOFTWARESER A:223 , MET A:224 , ASN A:225BINDING SITE FOR RESIDUE GOL A 614
15BC6SOFTWARETHR A:28 , GLY A:51 , SER A:52 , PRO A:60 , SER A:61 , LEU A:62 , HOH A:897BINDING SITE FOR RESIDUE GOL A 615
16BC7SOFTWARELYS A:158 , SER A:159 , HOH A:850 , HOH A:910BINDING SITE FOR RESIDUE GOL A 616
17BC8SOFTWAREPHE A:109 , CYS A:113 , SER A:137 , ALA A:138 , PHE A:139BINDING SITE FOR RESIDUE GOL A 617
18BC9SOFTWAREARG A:234 , ASN A:237 , GLU A:340 , ASP A:401 , GLN A:402 , GLY A:404 , HOH A:896BINDING SITE FOR RESIDUE GOL A 618
19CC1SOFTWAREPRO A:24 , SER A:121 , GLY A:123 , HIS A:127 , THR A:165BINDING SITE FOR RESIDUE GOL A 619
20CC2SOFTWARELYS A:29 , ASN A:425 , HIS A:426 , GLN A:427 , LYS C:158BINDING SITE FOR RESIDUE GOL A 620
21CC3SOFTWAREARG A:7 , SER A:9 , ALA A:18 , TYR A:20 , TYR A:293BINDING SITE FOR RESIDUE GOL A 621
22CC4SOFTWAREARG A:384 , GLN A:386BINDING SITE FOR RESIDUE GOL A 622
23CC5SOFTWAREASP A:243 , ASP A:347 , GLU A:348 , SER A:392 , HOH A:756BINDING SITE FOR RESIDUE MG A 623
24CC6SOFTWARETHR B:309 , ASN B:312 , TYR B:344 , GLY B:345 , ASP B:346 , HOH B:821BINDING SITE FOR RESIDUE 2TU B 601
25CC7SOFTWAREHIS B:149 , ASN B:152BINDING SITE FOR RESIDUE SO4 B 602
26CC8SOFTWAREGLN B:83 , HOH B:763BINDING SITE FOR RESIDUE SO4 B 603
27CC9SOFTWAREILE A:334 , ARG B:329BINDING SITE FOR RESIDUE SO4 B 604
28DC1SOFTWAREASP B:410 , ARG B:411 , HIS B:453 , HOH B:867BINDING SITE FOR RESIDUE SO4 B 605
29DC2SOFTWARELYS A:158 , LYS B:29 , HIS B:426 , GLN B:427 , GLU B:431BINDING SITE FOR RESIDUE SO4 B 606
30DC3SOFTWARECYS B:90 , ASP B:91 , GLU B:94 , ARG B:260 , ASP B:263 , ILE B:264 , ARG B:267BINDING SITE FOR RESIDUE SO4 B 607
31DC4SOFTWARESER B:223 , MET B:224 , ASN B:225BINDING SITE FOR RESIDUE SO4 B 608
32DC5SOFTWAREARG B:385 , GLN B:386 , THR B:387BINDING SITE FOR RESIDUE SO4 B 609
33DC6SOFTWAREASP B:117 , THR B:120 , LYS B:130 , MET B:195BINDING SITE FOR RESIDUE GOL B 610
34DC7SOFTWARETHR B:28 , SER B:52 , SER B:61 , LEU B:62 , GLN B:63 , HOH B:833BINDING SITE FOR RESIDUE GOL B 611
35DC8SOFTWAREGLY B:157 , LYS B:158 , SER B:159BINDING SITE FOR RESIDUE GOL B 612
36DC9SOFTWAREPHE B:109 , LYS B:110 , CYS B:113 , ALA B:138 , PHE B:139BINDING SITE FOR RESIDUE GOL B 613
37EC1SOFTWARESER B:121 , GLY B:123 , HIS B:127 , THR B:165 , GLY B:189 , SER B:190BINDING SITE FOR RESIDUE GOL B 614
38EC2SOFTWAREASN B:237 , PHE B:238 , ARG B:239 , ALA C:236 , ASN C:237 , PHE C:238BINDING SITE FOR RESIDUE GOL B 615
39EC3SOFTWARETHR B:108 , PHE B:109 , LYS B:110 , ASN B:151 , GLU B:155 , ARG B:200BINDING SITE FOR RESIDUE GOL B 616
40EC4SOFTWAREASP B:243 , ASP B:245 , ASP B:346 , ASP B:347 , GLU B:348 , HOH B:865BINDING SITE FOR RESIDUE MG B 617
41EC5SOFTWAREASP C:250 , SER C:303 , THR C:308 , THR C:309 , ASN C:312 , GLY C:345 , ASP C:346 , HOH C:846BINDING SITE FOR RESIDUE 2TU C 601
42EC6SOFTWARETYR C:246 , THR C:247 , ARG C:248 , HOH C:721BINDING SITE FOR RESIDUE SO4 C 602
43EC7SOFTWAREHIS C:149 , ASN C:152BINDING SITE FOR RESIDUE SO4 C 603
44EC8SOFTWAREARG C:374 , GLU C:383 , ARG C:385BINDING SITE FOR RESIDUE SO4 C 604
45EC9SOFTWAREGLY C:454 , GLU C:455 , LYS C:456BINDING SITE FOR RESIDUE SO4 C 605
46FC1SOFTWARETHR C:11 , TYR C:12 , ALA C:13BINDING SITE FOR RESIDUE SO4 C 606
47FC2SOFTWAREASN C:95 , ASN C:99BINDING SITE FOR RESIDUE SO4 C 607
48FC3SOFTWARETRP C:134 , GLY C:136BINDING SITE FOR RESIDUE SO4 C 608
49FC4SOFTWARETHR C:28 , GLY C:51 , SER C:52 , SER C:61 , LEU C:62 , HOH C:789BINDING SITE FOR RESIDUE SO4 C 609
50FC5SOFTWARELEU C:168 , LYS C:169 , ASP C:170 , LEU C:187BINDING SITE FOR RESIDUE SO4 C 610
51FC6SOFTWAREASN B:237 , ASP C:401 , TRP C:405 , HOH C:793BINDING SITE FOR RESIDUE SO4 C 611
52FC7SOFTWAREASP C:410 , ARG C:411 , HIS C:453 , HOH C:783BINDING SITE FOR RESIDUE SO4 C 612
53FC8SOFTWAREPHE C:109 , CYS C:113 , ALA C:138 , PHE C:139BINDING SITE FOR RESIDUE GOL C 613
54FC9SOFTWARESER C:27 , LYS C:29 , ASN C:425BINDING SITE FOR RESIDUE GOL C 614
55GC1SOFTWAREGLY C:157 , LYS C:158 , SER C:159 , HOH C:833BINDING SITE FOR RESIDUE GOL C 615
56GC2SOFTWAREARG C:384 , ARG C:385 , GLN C:386BINDING SITE FOR RESIDUE GOL C 616
57GC3SOFTWARECYS C:90 , ASP C:91 , GLU C:94 , ARG C:260 , ILE C:264 , ARG C:267BINDING SITE FOR RESIDUE GOL C 617
58GC4SOFTWAREHIS C:426 , GLN C:427 , ASN C:428 , GLU C:431BINDING SITE FOR RESIDUE GOL C 618
59GC5SOFTWAREASP C:243 , ASP C:347 , GLU C:348 , SER C:392 , HOH C:743BINDING SITE FOR RESIDUE MG C 619

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:206 -A:307
2B:206 -B:307
3C:206 -C:307

(-) Cis Peptide Bonds  (22, 22)

Asymmetric Unit
No.Residues
1Arg A:7 -Pro A:8
2Tyr A:124 -Pro A:125
3Glu A:379 -Gly A:380
4Ser A:466 -Lys A:467
5Met A:476 -Val A:477
6Val A:478 -Pro A:479
7Pro A:479 -Arg A:480
8His A:481 -Arg A:482
9Gly B:10 -Thr B:11
10Tyr B:124 -Pro B:125
11Asp B:376 -Lys B:377
12Glu B:379 -Gly B:380
13Gly B:380 -Pro B:381
14Ala B:462 -Ser B:463
15Ser B:463 -Arg B:464
16Arg B:480 -His B:481
17Arg B:482 -Ser B:483
18Pro C:6 -Arg C:7
19Tyr C:12 -Ala C:13
20Ala C:13 -Gly C:14
21Tyr C:124 -Pro C:125
22Gly C:491 -Thr C:492

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SFG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SFG)

(-) Exons   (0, 0)

(no "Exon" information available for 3SFG)

(-) 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:480
 aligned with Q80J95_9CALI | Q80J95 from UniProtKB/TrEMBL  Length:1687

    Alignment length:488
                                  1191      1201      1211      1221      1231      1241      1251      1261      1271      1281      1291      1301      1311      1321      1331      1341      1351      1361      1371      1381      1391      1401      1411      1421      1431      1441      1451      1461      1471      1481      1491      1501      1511      1521      1531      1541      1551      1561      1571      1581      1591      1601      1611      1621      1631      1641      1651      1661        
        Q80J95_9CALI   1182 LPRPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGT 1669
               SCOP domains d3sfga_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee..eeeeee.........eeeee...........ee.............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhh............hhhhhh.....hhhhhhhhhhhhhhhhh......eeeeee...ee.hhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhh...eee......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeee...eeeee.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..eeeeee..eeeeee....hhhhhhhhhhhh.......................ee..eeeeee..eeeee.hhhhhhhhhheeeeeee...........................hhhhhhhhh.....--------.......hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3sfg A    5 LPRPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSK--------MVVPRHRSVLRWVRFGT  492
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464  |      - |     484        
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        467      476                


Chain B from PDB  Type:PROTEIN  Length:474
 aligned with Q80J95_9CALI | Q80J95 from UniProtKB/TrEMBL  Length:1687

    Alignment length:487
                                  1191      1201      1211      1221      1231      1241      1251      1261      1271      1281      1291      1301      1311      1321      1331      1341      1351      1361      1371      1381      1391      1401      1411      1421      1431      1441      1451      1461      1471      1481      1491      1501      1511      1521      1531      1541      1551      1561      1571      1581      1591      1601      1611      1621      1631      1641      1651      1661       
        Q80J95_9CALI   1182 LPRPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFG 1668
               SCOP domains d3sfgb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeee.........eeeee...........ee.............hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhh............hhhhhh.....hhhhhhhhhhhhhhhhh......eeeeee...ee.hhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhh...eee.....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeee...eeeee.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhheeeeee..eeeeee....hhhhhhhhhhhh.........-.............ee..eeeeee..eeeeeehhhhhhhhhheeeeeee...........---...hhhhhhhhh.hhhhhhhh.....---------.......hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3sfg B    5 LPRPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADK-EGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHA---SQLMALLGEAAMHGEKYYRTVASRVS---------MVVPRHRSVLRWVRFG  491
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374  | |  384       394       404       414       424       434  |   |444       454       464 |       - |     484       
                                                                                                                                                                                                                                                                                                                                                                                                              377 |                                                       437 441                      466       476               
                                                                                                                                                                                                                                                                                                                                                                                                                379                                                                                                                


Chain C from PDB  Type:PROTEIN  Length:488
 aligned with Q80J95_9CALI | Q80J95 from UniProtKB/TrEMBL  Length:1687

    Alignment length:488
                                  1191      1201      1211      1221      1231      1241      1251      1261      1271      1281      1291      1301      1311      1321      1331      1341      1351      1361      1371      1381      1391      1401      1411      1421      1431      1441      1451      1461      1471      1481      1491      1501      1511      1521      1531      1541      1551      1561      1571      1581      1591      1601      1611      1621      1631      1641      1651      1661        
        Q80J95_9CALI   1182 LPRPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGT 1669
               SCOP domains d3sfgc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeee.........eeeee...........ee.............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhh............hhhhhh.....hhhhhhhhhhhhhhhhhh.....eeeeee...ee.hhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeee...eeeee.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhheeeeee..eeeeee....hhhhhhhhhhhh.......................ee..eeeeee..eeeee.hhhhhhhhhheeeeeee............hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3sfg C    5 LPRPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGT  492
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484
   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, 3)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (Q80J95_9CALI | Q80J95)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003724    RNA helicase activity    Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a RNA helix.
    GO:0003968    RNA-directed 5'-3' RNA polymerase activity    Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); uses an RNA template, i.e. the catalysis of RNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time.
    GO:0004197    cysteine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0008234    cysteine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0017111    nucleoside-triphosphatase activity    Catalysis of the reaction: a nucleoside triphosphate + H2O = nucleoside diphosphate + phosphate.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    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:0044419    interspecies interaction between organisms    Any process in which an organism has an effect on an organism of a different species.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    GO:0001172    transcription, RNA-templated    The cellular synthesis of RNA on a template of RNA.
    GO:0039694    viral RNA genome replication    The replication of a viral RNA genome.

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  Cis Peptide Bonds
    Ala B:462 - Ser B:463   [ RasMol ]  
    Ala C:13 - Gly C:14   [ RasMol ]  
    Arg A:7 - Pro A:8   [ RasMol ]  
    Arg B:480 - His B:481   [ RasMol ]  
    Arg B:482 - Ser B:483   [ RasMol ]  
    Asp B:376 - Lys B:377   [ RasMol ]  
    Glu A:379 - Gly A:380   [ RasMol ]  
    Glu B:379 - Gly B:380   [ RasMol ]  
    Gly B:10 - Thr B:11   [ RasMol ]  
    Gly B:380 - Pro B:381   [ RasMol ]  
    Gly C:491 - Thr C:492   [ RasMol ]  
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    Met A:476 - Val A:477   [ RasMol ]  
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  3sfg
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  Q80J95_9CALI | Q80J95
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 Related Entries

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

UniProtKB/TrEMBL
        Q80J95_9CALI | Q80J95: 2m4g 2mcd 2mch 3nah 3nai 3qid 3sfu 3upf 3uqs 3ur0 4ash 4nru 4o4r 4x2v 4x2w 4x2x 4x2y

(-) Related Entries Specified in the PDB File

3nah MURINE NOROVIRUS RDRP IN COMPLEX WITH 5FU
3nai MURINE NOROVIRUS RDRP NATIVE STRUCTURE
3qid MURINE NOROVIRUS RDRP NATIVE STRUCTURE
3sfu