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(-) Description

Title :  CRYSTAL STRUCTURES AND FUNCTIONAL ANALYSIS OF MURINE NOROVIRUS RNA-DEPENDENT RNA POLYMERASE
 
Authors :  K. H. Kim, A. Intekhab, J. H. Lee
Date :  27 Jan 11  (Deposition) - 21 Dec 11  (Release) - 21 Dec 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B,C  (1x)
Keywords :  Rna Polymerase, Viral Replication Enzyme, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. H. Lee, I. Alam, K. R. Han, S. Cho, S. Shin, S. Kang, J. M. Yang, K. H. Kim
Crystal Structures Of Murine Norovirus-1 Rna-Dependent Rna Polymerase.
J. Gen. Virol. V. 92 1607 2011
PubMed-ID: 21471315  |  Reference-DOI: 10.1099/VIR.0.031104-0

(-) Compounds

Molecule 1 - RNA DEPENDENT 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: MNV 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  (3, 41)

Asymmetric Unit (3, 41)
No.NameCountTypeFull Name
1GOL10Ligand/IonGLYCEROL
2MN33Ligand/IonMANGANESE (III) ION
3SO428Ligand/IonSULFATE ION
Biological Unit 1 (3, 32)
No.NameCountTypeFull Name
1GOL6Ligand/IonGLYCEROL
2MN32Ligand/IonMANGANESE (III) ION
3SO424Ligand/IonSULFATE ION
Biological Unit 2 (3, 25)
No.NameCountTypeFull Name
1GOL7Ligand/IonGLYCEROL
2MN32Ligand/IonMANGANESE (III) ION
3SO416Ligand/IonSULFATE ION

(-) Sites  (41, 41)

Asymmetric Unit (41, 41)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:410 , ARG A:411 , HIS A:453 , HOH A:691BINDING SITE FOR RESIDUE SO4 A 1
02AC2SOFTWARETHR A:120 , SER A:121 , HOH A:656BINDING SITE FOR RESIDUE SO4 A 521
03AC3SOFTWAREARG A:408BINDING SITE FOR RESIDUE SO4 A 522
04AC4SOFTWARETHR A:28 , GLY A:51 , SER A:52 , SER A:61 , LEU A:62BINDING SITE FOR RESIDUE SO4 A 523
05AC5SOFTWARETYR A:246 , THR A:247 , ARG A:248 , HOH A:560BINDING SITE FOR RESIDUE SO4 A 524
06AC6SOFTWAREHIS A:149 , ASN A:152BINDING SITE FOR RESIDUE SO4 A 525
07AC7SOFTWARETRP A:134 , GLY A:136BINDING SITE FOR RESIDUE SO4 A 526
08AC8SOFTWAREPHE A:238 , ASP A:401 , TRP A:405BINDING SITE FOR RESIDUE SO4 A 527
09AC9SOFTWAREGLU A:338 , ASN A:353 , SO4 A:530 , VAL B:327BINDING SITE FOR RESIDUE SO4 A 528
10BC1SOFTWARESER A:9 , SER A:61 , GLN A:64 , ARG A:67BINDING SITE FOR RESIDUE SO4 A 529
11BC2SOFTWAREARG A:239 , SO4 A:528 , LYS B:360BINDING SITE FOR RESIDUE SO4 A 530
12BC3SOFTWARELYS A:29 , HIS A:426 , GLN A:427 , GLU A:431BINDING SITE FOR RESIDUE SO4 A 531
13BC4SOFTWAREASP A:243 , ASP A:347 , HOH A:620 , HOH A:648 , HOH A:655 , HOH A:664BINDING SITE FOR RESIDUE MN3 A 532
14BC5SOFTWAREPRO A:82 , GLN A:83 , GLU A:84BINDING SITE FOR RESIDUE GOL A 533
15BC6SOFTWARESER A:223 , MET A:224 , ASN A:225 , ASP A:494BINDING SITE FOR RESIDUE GOL A 534
16BC7SOFTWAREGLY A:157 , SER A:159BINDING SITE FOR RESIDUE GOL A 535
17BC8SOFTWAREASP B:410 , ARG B:411 , HIS B:453 , HOH B:597BINDING SITE FOR RESIDUE SO4 B 3
18BC9SOFTWARELYS B:158 , SER B:159BINDING SITE FOR RESIDUE SO4 B 521
19CC1SOFTWAREASP B:117 , THR B:120 , LYS B:130 , MET B:195 , HOH B:542BINDING SITE FOR RESIDUE SO4 B 522
20CC2SOFTWARELYS A:158 , LYS B:29 , HIS B:426 , GLN B:427 , GLU B:431BINDING SITE FOR RESIDUE SO4 B 523
21CC3SOFTWAREHIS B:149 , ASN B:152BINDING SITE FOR RESIDUE SO4 B 524
22CC4SOFTWAREILE B:85 , ARG B:329 , ASP B:331 , HOH B:647BINDING SITE FOR RESIDUE SO4 B 525
23CC5SOFTWAREARG B:248BINDING SITE FOR RESIDUE SO4 B 526
24CC6SOFTWAREGLY B:51 , SER B:52 , SER B:61 , LEU B:62 , HOH B:571BINDING SITE FOR RESIDUE SO4 B 527
25CC7SOFTWAREPRO B:82 , GLN B:83BINDING SITE FOR RESIDUE SO4 B 528
26CC8SOFTWAREASP B:243 , ASP B:347 , HOH B:621 , HOH B:642BINDING SITE FOR RESIDUE MN3 B 529
27CC9SOFTWARESER B:27 , THR B:28 , ASN B:425BINDING SITE FOR RESIDUE GOL B 2
28DC1SOFTWARETHR A:328 , GLU A:355 , THR B:328 , GLU B:355 , GOL B:531BINDING SITE FOR RESIDUE GOL B 530
29DC2SOFTWAREVAL A:327 , LYS A:360 , GLU B:338 , ASN B:353 , GOL B:530BINDING SITE FOR RESIDUE GOL B 531
30DC3SOFTWARETHR B:247 , ARG B:248 , HOH B:645BINDING SITE FOR RESIDUE GOL B 532
31DC4SOFTWAREHIS C:149 , ASN C:152BINDING SITE FOR RESIDUE SO4 C 2
32DC5SOFTWAREARG C:408BINDING SITE FOR RESIDUE SO4 C 521
33DC6SOFTWARETHR C:247 , ARG C:248 , HOH C:615BINDING SITE FOR RESIDUE SO4 C 522
34DC7SOFTWARELYS C:158 , SER C:159BINDING SITE FOR RESIDUE SO4 C 523
35DC8SOFTWAREGLY C:51 , SER C:52 , SER C:61 , LEU C:62BINDING SITE FOR RESIDUE SO4 C 524
36DC9SOFTWAREARG C:248BINDING SITE FOR RESIDUE SO4 C 525
37EC1SOFTWAREASP C:410 , ARG C:411 , HIS C:453 , HOH C:608BINDING SITE FOR RESIDUE SO4 C 526
38EC2SOFTWAREASP C:243 , ASP C:347 , HOH C:633BINDING SITE FOR RESIDUE MN3 C 527
39EC3SOFTWARESER C:27 , THR C:28 , LYS C:29 , ASN C:425BINDING SITE FOR RESIDUE GOL C 1
40EC4SOFTWARETHR C:11 , ALA C:13 , GLY C:14BINDING SITE FOR RESIDUE GOL C 528
41EC5SOFTWARELYS B:158 , ASN C:425 , HIS C:426 , GLN C:427 , ASN C:428 , GLU C:431BINDING SITE FOR RESIDUE GOL C 529

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (17, 17)

Asymmetric Unit
No.Residues
1Arg A:7 -Pro A:8
2Tyr A:124 -Pro A:125
3Ser B:9 -Gly B:10
4Tyr B:124 -Pro B:125
5His B:436 -Ala B:437
6Gly B:473 -Ile B:474
7Glu B:475 -Met B:476
8Thr B:497 -Pro B:498
9Ser C:9 -Gly C:10
10Tyr C:124 -Pro C:125
11Ala C:375 -Asp C:376
12Gly C:435 -His C:436
13His C:436 -Ala C:437
14Ile C:474 -Glu C:475
15Thr C:492 -Met C:493
16Met C:493 -Asp C:494
17Ala C:495 -Glu C:496

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QID)

(-) 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:492
 aligned with Q80J95_9CALI | Q80J95 from UniProtKB/TrEMBL  Length:1687

    Alignment length:492
                                  1193      1203      1213      1223      1233      1243      1253      1263      1273      1283      1293      1303      1313      1323      1333      1343      1353      1363      1373      1383      1393      1403      1413      1423      1433      1443      1453      1463      1473      1483      1493      1503      1513      1523      1533      1543      1553      1563      1573      1583      1593      1603      1613      1623      1633      1643      1653      1663      1673  
        Q80J95_9CALI   1184 RPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGTMDAETP 1675
               SCOP domains d3qida_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee..eeeeee.........eeeee...........ee.............hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhh............hhhhhh.....hhhhhhhhhhhhhhhhh......eeeeee...ee.hhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhh..eee......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeee...eeeee.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhheeeeee..eeeeee....hhhhhhhhhhhh.......................ee..eeeeee..eeeee.hhhhhhhhhheeeeeee............hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh........hhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3qid A    7 RPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGTMDAETP  498
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496  


Chain B from PDB  Type:PROTEIN  Length:492
 aligned with Q80J95_9CALI | Q80J95 from UniProtKB/TrEMBL  Length:1687

    Alignment length:492
                                  1193      1203      1213      1223      1233      1243      1253      1263      1273      1283      1293      1303      1313      1323      1333      1343      1353      1363      1373      1383      1393      1403      1413      1423      1433      1443      1453      1463      1473      1483      1493      1503      1513      1523      1533      1543      1553      1563      1573      1583      1593      1603      1613      1623      1633      1643      1653      1663      1673  
        Q80J95_9CALI   1184 RPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGTMDAETP 1675
               SCOP domains d3qidb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee..eeeeee.........eeeee...........ee.............hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhh............hhhhhh.....hhhhhhhhhhhhhhhhh......eeeeee...ee.hhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhh..eee.....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeee...eeeee.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhheeeeee..eeeeee....hhhhhhhhhhhh.......................ee..eeeeee..eeeee.hhhhhhhhhheeeeeee............hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh........hhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3qid B    7 RPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGTMDAETP  498
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496  


Chain C from PDB  Type:PROTEIN  Length:492
 aligned with Q80J95_9CALI | Q80J95 from UniProtKB/TrEMBL  Length:1687

    Alignment length:492
                                  1193      1203      1213      1223      1233      1243      1253      1263      1273      1283      1293      1303      1313      1323      1333      1343      1353      1363      1373      1383      1393      1403      1413      1423      1433      1443      1453      1463      1473      1483      1493      1503      1513      1523      1533      1543      1553      1563      1573      1583      1593      1603      1613      1623      1633      1643      1653      1663      1673  
        Q80J95_9CALI   1184 RPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGTMDAETP 1675
               SCOP domains d3qidc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee..eeeeee.........eeeee...........ee.............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh......hhhhhhhh.............hhhhhh.....hhhhhhhhhhhhhhhhh......eeeeee...ee.hhhhhh.....eeee.hhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhh..eee...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.eeee...eeeee.........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhheeeeee..eeeeee....hhhhhhhhhhhh.......................ee..eeeeee..eeeee.hhhhhhhhhheeeeeee............hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh........hhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3qid C    7 RPSGTYAGLPIADYGDAPPLSTKTMFWRTSPEKLPPGAWEPAYLGSKDERVDGPSLQQVMRDQLKPYSEPRGLLPPQEILDAVCDAIENRLENTLEPQKPWTFKKACESLDKNTSSGYPYHKQKSKDWTGSAFIGDLGDQATHANNMYEMGKSMRPIYTAALKDELVKPDKIYGKIKKRLLWGSDLGTMIRAARAFGPFCDALKETCIFNPIRVGMSMNEDGPFIFARHANFRYHMDADYTRWDSTQQRAILKRAGDIMVRLSPEPDLARVVMDDLLAPSLLDVGDYKIVVEEGLPSGCPCTTQLNSLAHWILTLCAMVEVTRVDPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTRADKEEGPLERRQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLLWTKGPNHQNPFETLPGHAQRPSQLMALLGEAAMHGEKYYRTVASRVSKEAAQSGIEMVVPRHRSVLRWVRFGTMDAETP  498
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496
   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 3QID)

(-) Pfam Domains  (0, 0)

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

(-) 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 C:375 - Asp C:376   [ RasMol ]  
    Ala C:495 - Glu C:496   [ RasMol ]  
    Arg A:7 - Pro A:8   [ RasMol ]  
    Glu B:475 - Met B:476   [ RasMol ]  
    Gly B:473 - Ile B:474   [ RasMol ]  
    Gly C:435 - His C:436   [ RasMol ]  
    His B:436 - Ala B:437   [ RasMol ]  
    His C:436 - Ala C:437   [ RasMol ]  
    Ile C:474 - Glu C:475   [ RasMol ]  
    Met C:493 - Asp C:494   [ RasMol ]  
    Ser B:9 - Gly B:10   [ RasMol ]  
    Ser C:9 - Gly C:10   [ RasMol ]  
    Thr B:497 - Pro B:498   [ RasMol ]  
    Thr C:492 - Met C:493   [ RasMol ]  
    Tyr A:124 - Pro A:125   [ RasMol ]  
    Tyr B:124 - Pro B:125   [ RasMol ]  
    Tyr C:124 - Pro C:125   [ RasMol ]  
 
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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 3sfg 3sfu 3upf 3uqs 3ur0 4ash 4nru 4o4r 4x2v 4x2w 4x2x 4x2y

(-) Related Entries Specified in the PDB File

1sho 2b43 3bso 3h5x