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Conserved domains on  [gi|1000362798|gb|AML29101|]
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polymerase PB2 [Influenza B virus (B/Sydney/5/2012)]

Protein Classification

polymerase basic protein 2( domain architecture ID 10457091)

polymerase basic protein 2 recognizes and binds the 7-methylguanosine-containing cap of the target pre-RNA which is subsequently cleaved after 10-13 nucleotides by the viral protein PA

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Flu_PB2 pfam00604
Influenza RNA-dependent RNA polymerase subunit PB2; PB2 can bind 5' end cap structure of RNA.
3-761 0e+00

Influenza RNA-dependent RNA polymerase subunit PB2; PB2 can bind 5' end cap structure of RNA.


:

Pssm-ID: 395481  Cd Length: 754  Bit Score: 1299.11  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798   3 LAKIELLKQLLRDNEAKTVLKQTTVDQYNIIRKFNTSRIEKNPSLRMKWAMCSNFPLALTKgDMANRIPLEYKGIQLKTN 82
Cdd:pfam00604   1 LTIIKELKRLCQDAKAAQMLTVTTVDNYTIIKKWTTSRKEKNPSLRMKWAMSSKFPIIANK-RMLEQIPKEHNGVALWED 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798  83 AEDIGTKGQMCSIAAVTWWNTYGPIGDTEGFEKVYESFFLRKMRLDNATWGRITFGPVERVRKRVLLNPLTKEMPPDEAS 162
Cdd:pfam00604  80 TEDVGKDHVMASASAVTWWNFCGPINNTEVIKKVYKSRFGRLERLKEITWGELRFTLVDRQRRRVDTNPVEQRLRTGEAK 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 163 NVIMEILFPKEAGIPRESTWIHRELIKEKREKLKGTMITPIVLAYMLERELVARRRFLPVAGATSAEFIEMLHCLQGENW 242
Cdd:pfam00604 160 DVIMETLFPDEAGLASKFILDNYGLVKEKREKLANKPINPEVVAYMLERELVPESRFLPVAGATSPERIELLHALQGETW 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 243 RQIYHPGGNKLTESRSQSMIVACRKIIRRSIVASNPLELAVEIANKTVIDTEPLKSCLTAIDGGDVACDIIRAALGLKIR 322
Cdd:pfam00604 240 IQEYNPGGISNVDQRKQSMIAACRKICRRANVSMNPLSKLVEYIKSTSITERKLEELLLETDDVSPAVDICKAALGLRIG 319
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 323 QRQRFGRLELKRISGRGFKNDEEILIGNGTIQKIGIWDGEEEFHVRCGECRGILKKSKMRMEKLLINSAKKEDMKDLIIL 402
Cdd:pfam00604 320 KTLSFGPMLLKRISGSGVKVKEEVLIGNVRAVKIEYWDGQEEFYGEYKSATAILSKKERRLEWLTIGGGINEDRKRLIIM 399
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 403 CMVFSQDTRMFQGVRGEINFLNRAGQLLSPMYQLQRYFLSRSNDLFDQWGYEESPKASELHGINELMNASDYTLKGVVVT 482
Cdd:pfam00604 400 CMVFSQDGDMFKDVRGTINFANRATQLLRPMQQLMRNFIQKSEDLFSRWGVETNPGKMGSMGIDGSMRASEKSLRGVTIQ 479
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 483 KNVIDDFSSTETEKVSITKNLSLIKRTGEVIMGANDVSELESQAQLMITYDTPKMWEMGTTKELVQNTYQWVMKNLVTLK 562
Cdd:pfam00604 480 KGKIDMPSSTEKIHVSISDNLEAFDSSGRVVATILDVSEDKKVTFLDITYQHPDMWELRDEKTAITNTYQWLIKNLGTAK 559
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 563 AQFLLGKEDMFQWDAFEAFESIIPQKMAGQYSGFARAVLKQMRDQEVMKTDQFIKLLPFCFSPPKLRSngepYQFLRLVL 642
Cdd:pfam00604 560 KQYLQNPTSLYNLPEFELFASLIPPNRKGQYSGFARKLVSQMRDTGHYSTHQLIKLLPFTYFPPKQGM----MQFFEGRL 635
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 643 KGGGENFIEVRKGSPLFSYNPQTEVLTICGRMMSLKGKIEDEERNRSMGNAVLAGFLVSGKYDPDLGDFKTIEELEKLKP 722
Cdd:pfam00604 636 FGSGDSFIEVRVNSPVFSYNKATSKLTIHGIAIRVPLVIEDEEMDTSLESAVLEGFLVCGKNDPRYGPMVTIQELIDLGF 715
                         730       740       750
                  ....*....|....*....|....*....|....*....
gi 1000362798 723 GEKANILLYQGKPVKVVKRKRYSALSNDISQGIKRQRMT 761
Cdd:pfam00604 716 GEKANLLVGQGSVVTVKKRKRQSAASSDVNKNVKRIRMS 754
 
Name Accession Description Interval E-value
Flu_PB2 pfam00604
Influenza RNA-dependent RNA polymerase subunit PB2; PB2 can bind 5' end cap structure of RNA.
3-761 0e+00

Influenza RNA-dependent RNA polymerase subunit PB2; PB2 can bind 5' end cap structure of RNA.


Pssm-ID: 395481  Cd Length: 754  Bit Score: 1299.11  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798   3 LAKIELLKQLLRDNEAKTVLKQTTVDQYNIIRKFNTSRIEKNPSLRMKWAMCSNFPLALTKgDMANRIPLEYKGIQLKTN 82
Cdd:pfam00604   1 LTIIKELKRLCQDAKAAQMLTVTTVDNYTIIKKWTTSRKEKNPSLRMKWAMSSKFPIIANK-RMLEQIPKEHNGVALWED 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798  83 AEDIGTKGQMCSIAAVTWWNTYGPIGDTEGFEKVYESFFLRKMRLDNATWGRITFGPVERVRKRVLLNPLTKEMPPDEAS 162
Cdd:pfam00604  80 TEDVGKDHVMASASAVTWWNFCGPINNTEVIKKVYKSRFGRLERLKEITWGELRFTLVDRQRRRVDTNPVEQRLRTGEAK 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 163 NVIMEILFPKEAGIPRESTWIHRELIKEKREKLKGTMITPIVLAYMLERELVARRRFLPVAGATSAEFIEMLHCLQGENW 242
Cdd:pfam00604 160 DVIMETLFPDEAGLASKFILDNYGLVKEKREKLANKPINPEVVAYMLERELVPESRFLPVAGATSPERIELLHALQGETW 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 243 RQIYHPGGNKLTESRSQSMIVACRKIIRRSIVASNPLELAVEIANKTVIDTEPLKSCLTAIDGGDVACDIIRAALGLKIR 322
Cdd:pfam00604 240 IQEYNPGGISNVDQRKQSMIAACRKICRRANVSMNPLSKLVEYIKSTSITERKLEELLLETDDVSPAVDICKAALGLRIG 319
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 323 QRQRFGRLELKRISGRGFKNDEEILIGNGTIQKIGIWDGEEEFHVRCGECRGILKKSKMRMEKLLINSAKKEDMKDLIIL 402
Cdd:pfam00604 320 KTLSFGPMLLKRISGSGVKVKEEVLIGNVRAVKIEYWDGQEEFYGEYKSATAILSKKERRLEWLTIGGGINEDRKRLIIM 399
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 403 CMVFSQDTRMFQGVRGEINFLNRAGQLLSPMYQLQRYFLSRSNDLFDQWGYEESPKASELHGINELMNASDYTLKGVVVT 482
Cdd:pfam00604 400 CMVFSQDGDMFKDVRGTINFANRATQLLRPMQQLMRNFIQKSEDLFSRWGVETNPGKMGSMGIDGSMRASEKSLRGVTIQ 479
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 483 KNVIDDFSSTETEKVSITKNLSLIKRTGEVIMGANDVSELESQAQLMITYDTPKMWEMGTTKELVQNTYQWVMKNLVTLK 562
Cdd:pfam00604 480 KGKIDMPSSTEKIHVSISDNLEAFDSSGRVVATILDVSEDKKVTFLDITYQHPDMWELRDEKTAITNTYQWLIKNLGTAK 559
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 563 AQFLLGKEDMFQWDAFEAFESIIPQKMAGQYSGFARAVLKQMRDQEVMKTDQFIKLLPFCFSPPKLRSngepYQFLRLVL 642
Cdd:pfam00604 560 KQYLQNPTSLYNLPEFELFASLIPPNRKGQYSGFARKLVSQMRDTGHYSTHQLIKLLPFTYFPPKQGM----MQFFEGRL 635
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 643 KGGGENFIEVRKGSPLFSYNPQTEVLTICGRMMSLKGKIEDEERNRSMGNAVLAGFLVSGKYDPDLGDFKTIEELEKLKP 722
Cdd:pfam00604 636 FGSGDSFIEVRVNSPVFSYNKATSKLTIHGIAIRVPLVIEDEEMDTSLESAVLEGFLVCGKNDPRYGPMVTIQELIDLGF 715
                         730       740       750
                  ....*....|....*....|....*....|....*....
gi 1000362798 723 GEKANILLYQGKPVKVVKRKRYSALSNDISQGIKRQRMT 761
Cdd:pfam00604 716 GEKANLLVGQGSVVTVKKRKRQSAASSDVNKNVKRIRMS 754
 
Name Accession Description Interval E-value
Flu_PB2 pfam00604
Influenza RNA-dependent RNA polymerase subunit PB2; PB2 can bind 5' end cap structure of RNA.
3-761 0e+00

Influenza RNA-dependent RNA polymerase subunit PB2; PB2 can bind 5' end cap structure of RNA.


Pssm-ID: 395481  Cd Length: 754  Bit Score: 1299.11  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798   3 LAKIELLKQLLRDNEAKTVLKQTTVDQYNIIRKFNTSRIEKNPSLRMKWAMCSNFPLALTKgDMANRIPLEYKGIQLKTN 82
Cdd:pfam00604   1 LTIIKELKRLCQDAKAAQMLTVTTVDNYTIIKKWTTSRKEKNPSLRMKWAMSSKFPIIANK-RMLEQIPKEHNGVALWED 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798  83 AEDIGTKGQMCSIAAVTWWNTYGPIGDTEGFEKVYESFFLRKMRLDNATWGRITFGPVERVRKRVLLNPLTKEMPPDEAS 162
Cdd:pfam00604  80 TEDVGKDHVMASASAVTWWNFCGPINNTEVIKKVYKSRFGRLERLKEITWGELRFTLVDRQRRRVDTNPVEQRLRTGEAK 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 163 NVIMEILFPKEAGIPRESTWIHRELIKEKREKLKGTMITPIVLAYMLERELVARRRFLPVAGATSAEFIEMLHCLQGENW 242
Cdd:pfam00604 160 DVIMETLFPDEAGLASKFILDNYGLVKEKREKLANKPINPEVVAYMLERELVPESRFLPVAGATSPERIELLHALQGETW 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 243 RQIYHPGGNKLTESRSQSMIVACRKIIRRSIVASNPLELAVEIANKTVIDTEPLKSCLTAIDGGDVACDIIRAALGLKIR 322
Cdd:pfam00604 240 IQEYNPGGISNVDQRKQSMIAACRKICRRANVSMNPLSKLVEYIKSTSITERKLEELLLETDDVSPAVDICKAALGLRIG 319
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 323 QRQRFGRLELKRISGRGFKNDEEILIGNGTIQKIGIWDGEEEFHVRCGECRGILKKSKMRMEKLLINSAKKEDMKDLIIL 402
Cdd:pfam00604 320 KTLSFGPMLLKRISGSGVKVKEEVLIGNVRAVKIEYWDGQEEFYGEYKSATAILSKKERRLEWLTIGGGINEDRKRLIIM 399
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 403 CMVFSQDTRMFQGVRGEINFLNRAGQLLSPMYQLQRYFLSRSNDLFDQWGYEESPKASELHGINELMNASDYTLKGVVVT 482
Cdd:pfam00604 400 CMVFSQDGDMFKDVRGTINFANRATQLLRPMQQLMRNFIQKSEDLFSRWGVETNPGKMGSMGIDGSMRASEKSLRGVTIQ 479
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 483 KNVIDDFSSTETEKVSITKNLSLIKRTGEVIMGANDVSELESQAQLMITYDTPKMWEMGTTKELVQNTYQWVMKNLVTLK 562
Cdd:pfam00604 480 KGKIDMPSSTEKIHVSISDNLEAFDSSGRVVATILDVSEDKKVTFLDITYQHPDMWELRDEKTAITNTYQWLIKNLGTAK 559
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 563 AQFLLGKEDMFQWDAFEAFESIIPQKMAGQYSGFARAVLKQMRDQEVMKTDQFIKLLPFCFSPPKLRSngepYQFLRLVL 642
Cdd:pfam00604 560 KQYLQNPTSLYNLPEFELFASLIPPNRKGQYSGFARKLVSQMRDTGHYSTHQLIKLLPFTYFPPKQGM----MQFFEGRL 635
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1000362798 643 KGGGENFIEVRKGSPLFSYNPQTEVLTICGRMMSLKGKIEDEERNRSMGNAVLAGFLVSGKYDPDLGDFKTIEELEKLKP 722
Cdd:pfam00604 636 FGSGDSFIEVRVNSPVFSYNKATSKLTIHGIAIRVPLVIEDEEMDTSLESAVLEGFLVCGKNDPRYGPMVTIQELIDLGF 715
                         730       740       750
                  ....*....|....*....|....*....|....*....
gi 1000362798 723 GEKANILLYQGKPVKVVKRKRYSALSNDISQGIKRQRMT 761
Cdd:pfam00604 716 GEKANLLVGQGSVVTVKKRKRQSAASSDVNKNVKRIRMS 754
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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