NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1046490004|ref|NP_041332|]
View 

major capsid protein L1 [Human papillomavirus 16]

Protein Classification

major capsid protein L1( domain architecture ID 10010233)

major capsid protein L1 forms an icosahedral capsid with a 50 nm diameter; the capsid is composed of 72 pentamers linked to each other by disulfide bonds and associated with L2 proteins

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PHA02778 PHA02778
major capsid L1 protein; Provisional
 1-504 0e+00

major capsid L1 protein; Provisional


:

Pssm-ID: 222928  Cd Length: 503  Bit Score: 1029.76  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004   1 MSLWLPSEATVYLPPVPVSKVVSTDEYVARTNIYYHAGTSRLLAVGHPYFPIKKPNNNKILVPKVSGLQYRVFRIHLPDP 80
Cdd:PHA02778    1 MALWLPSSGKLYLPPTPVAKVLSTDEYVTRTNIFYHASSDRLLTVGHPYFPIKDADKNKVTVPKVSGNQYRVFRVKLPDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004  81 NKFGFPDTSFYNPDTQRLVWACVGVEVGRGQPLGVGISGHPLLNKLDDTENASAYAANAGVDNRECISMDYKQTQLCLIG 160
Cdd:PHA02778   81 NKFALPDKSVYNPEKERLVWALRGLEVGRGQPLGVGVTGHPLFNKLKDTENPNKYPTAQGTDDRQNVSFDPKQTQLFIVG 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 161 CKPPIGEHWGKGSPCTNVAVNPGDCPPLELINTVIQDGDMVDTGFGAMDFTTLQANKSEVPLDICTSICKYPDYIKMVSE 240
Cdd:PHA02778  161 CTPALGEHWDKAKPCADAPPQAGDCPPIELKNSVIEDGDMVDIGFGAMNFKALQANKSDVPLDIVNSICKYPDYLKMAND 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 241 PYGDSLFFYLRREQMFVRHLFNRAGTVGENVPDDLYIKGSGSTA-NLASSNYFPTPSGSMVTSDAQIFNKPYWLQRAQGH 319
Cdd:PHA02778  241 PYGDSMFFFARREQMYARHFFTRAGTVGEAIPEDLYLKGASGQAqTLGSSVYFPTPSGSLVSSDAQLFNRPYWLQRAQGH 320

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 320 NNGICWGNQLFVTVVDTTRSTNMSLCAA-ISTSETTYKNTNFKEYLRHGEEYDLQFIFQLCKITLTADVMTYIHSMNSTI 398
Cdd:PHA02778  321 NNGICWNNQLFVTVVDNTRNTNFTISVKtDETPQTTYKASNFKEYLRHVEEYELSFIFQLCKVPLTPEVLAHLHTMNPSI 400

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 399 LEDWNFGLQPPPGGTLEDTYRFVTSQAIACQKHTPPAPKEDPLKKYTFWEVNLKEKFSADLDQFPLGRKFLLQAGLKAKP 478
Cdd:PHA02778  401 LEDWNLGFVPPPSSSLEDTYRYIQSLATKCPDNVPPKEKEDPYAKYTFWEVDLTERFSLDLDQFPLGRKFLFQAGLRRRT 480

                         490       500
                  ....*....|....*....|....*.
gi 1046490004 479 KftlgKRKATPTTSSTSTTAKRKKRK 504
Cdd:PHA02778  481 R----RRKRKSTSSSSSRSTKRRRRK 502
 
Name Accession Description Interval E-value
PHA02778 PHA02778
major capsid L1 protein; Provisional
 1-504 0e+00

major capsid L1 protein; Provisional


Pssm-ID: 222928  Cd Length: 503  Bit Score: 1029.76  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004   1 MSLWLPSEATVYLPPVPVSKVVSTDEYVARTNIYYHAGTSRLLAVGHPYFPIKKPNNNKILVPKVSGLQYRVFRIHLPDP 80
Cdd:PHA02778    1 MALWLPSSGKLYLPPTPVAKVLSTDEYVTRTNIFYHASSDRLLTVGHPYFPIKDADKNKVTVPKVSGNQYRVFRVKLPDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004  81 NKFGFPDTSFYNPDTQRLVWACVGVEVGRGQPLGVGISGHPLLNKLDDTENASAYAANAGVDNRECISMDYKQTQLCLIG 160
Cdd:PHA02778   81 NKFALPDKSVYNPEKERLVWALRGLEVGRGQPLGVGVTGHPLFNKLKDTENPNKYPTAQGTDDRQNVSFDPKQTQLFIVG 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 161 CKPPIGEHWGKGSPCTNVAVNPGDCPPLELINTVIQDGDMVDTGFGAMDFTTLQANKSEVPLDICTSICKYPDYIKMVSE 240
Cdd:PHA02778  161 CTPALGEHWDKAKPCADAPPQAGDCPPIELKNSVIEDGDMVDIGFGAMNFKALQANKSDVPLDIVNSICKYPDYLKMAND 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 241 PYGDSLFFYLRREQMFVRHLFNRAGTVGENVPDDLYIKGSGSTA-NLASSNYFPTPSGSMVTSDAQIFNKPYWLQRAQGH 319
Cdd:PHA02778  241 PYGDSMFFFARREQMYARHFFTRAGTVGEAIPEDLYLKGASGQAqTLGSSVYFPTPSGSLVSSDAQLFNRPYWLQRAQGH 320

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 320 NNGICWGNQLFVTVVDTTRSTNMSLCAA-ISTSETTYKNTNFKEYLRHGEEYDLQFIFQLCKITLTADVMTYIHSMNSTI 398
Cdd:PHA02778  321 NNGICWNNQLFVTVVDNTRNTNFTISVKtDETPQTTYKASNFKEYLRHVEEYELSFIFQLCKVPLTPEVLAHLHTMNPSI 400

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 399 LEDWNFGLQPPPGGTLEDTYRFVTSQAIACQKHTPPAPKEDPLKKYTFWEVNLKEKFSADLDQFPLGRKFLLQAGLKAKP 478
Cdd:PHA02778  401 LEDWNLGFVPPPSSSLEDTYRYIQSLATKCPDNVPPKEKEDPYAKYTFWEVDLTERFSLDLDQFPLGRKFLFQAGLRRRT 480

                         490       500
                  ....*....|....*....|....*.
gi 1046490004 479 KftlgKRKATPTTSSTSTTAKRKKRK 504
Cdd:PHA02778  481 R----RRKRKSTSSSSSRSTKRRRRK 502
Late_protein_L1 pfam00500
L1 (late) protein;
4-502 0e+00

L1 (late) protein;


Pssm-ID: 459833  Cd Length: 497  Bit Score: 939.84  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004   4 WLPSEATVYLPPVPVSKVVSTDEYVARTNIYYHAGTSRLLAVGHPYFPIKkPNNNKILVPKVSGLQYRVFRIHLPDPNKF 83
Cdd:pfam00500   1 WLPSQQKLYLPPQPVTKVLSTDEYVTRTNIFYHAGTDRLLTVGHPYFEIK-GRNDKVLVPKVSGNQYRVFRLKLPDPNRF 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004  84 GFPDTSFYNPDTQRLVWACVGVEVGRGQPLGVGISGHPLLNKLDDTENASAYAANAGVDNRECISMDYKQTQLCLIGCKP 163
Cdd:pfam00500  80 ALPDKSLYDPDKERLVWALRGLEIGRGQPLGIGVTGHPLFNKFDDAENPNKYINAQGGDNRQNMAFDPKQTQMFIVGCTP 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 164 PIGEHWGKGSPCTNVAVNPGDCPPLELINTVIQDGDMVDTGFGAMDFTTLQANKSEVPLDICTSICKYPDYIKMVSEPYG 243
Cdd:pfam00500 160 AIGEHWDKASPCPNQVPKTGDCPPIELKNTVIEDGDMCDIGFGAMDFKALQANKSDVPLDIVNSICKYPDYLKMAEDPYG 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 244 DSLFFYLRREQMFVRHLFNRAGTVGENVPDDLYIKG-SGSTANLASSNYFPTPSGSMVTSDAQIFNKPYWLQRAQGHNNG 322
Cdd:pfam00500 240 DSMFFYARREQMYARHFFSRAGTVGEAVPEDLYIKGaGEEQNTLATSNYFGTPSGSLVSSDGQLFNRPYWLQRAQGHNNG 319

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 323 ICWGNQLFVTVVDTTRSTNMSLC-AAISTSETTYKNTNFKEYLRHGEEYDLQFIFQLCKITLTADVMTYIHSMNSTILED 401
Cdd:pfam00500 320 ICWNNQLFVTVVDNTRGTNFTISvKADENDETTYDASNFKEYLRHVEEYELSFIFQLCKVKLTPENLAYLHTMNPSILED 399

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 402 WNFGLQPPPGGTLEDTYRFVTSQAIACQKHTPPAPKEDPLKKYTFWEVNLKEKFSADLDQFPLGRKFLLQAGLKAkpkFT 481
Cdd:pfam00500 400 WNLGVTPPPSSSLEDTYRYIESLATKCPDNPPPAEKEDPYKGLKFWEVDLSERLSADLDQFPLGRKFLYQSGLTQ---SS 476

                         490       500
                  ....*....|....*....|.
gi 1046490004 482 LGKRKATPTTSSTSTTAKRKK 502
Cdd:pfam00500 477 SSTKRKAPASVAVSRSSKRKR 497
 
Name Accession Description Interval E-value
PHA02778 PHA02778
major capsid L1 protein; Provisional
 1-504 0e+00

major capsid L1 protein; Provisional


Pssm-ID: 222928  Cd Length: 503  Bit Score: 1029.76  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004   1 MSLWLPSEATVYLPPVPVSKVVSTDEYVARTNIYYHAGTSRLLAVGHPYFPIKKPNNNKILVPKVSGLQYRVFRIHLPDP 80
Cdd:PHA02778    1 MALWLPSSGKLYLPPTPVAKVLSTDEYVTRTNIFYHASSDRLLTVGHPYFPIKDADKNKVTVPKVSGNQYRVFRVKLPDP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004  81 NKFGFPDTSFYNPDTQRLVWACVGVEVGRGQPLGVGISGHPLLNKLDDTENASAYAANAGVDNRECISMDYKQTQLCLIG 160
Cdd:PHA02778   81 NKFALPDKSVYNPEKERLVWALRGLEVGRGQPLGVGVTGHPLFNKLKDTENPNKYPTAQGTDDRQNVSFDPKQTQLFIVG 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 161 CKPPIGEHWGKGSPCTNVAVNPGDCPPLELINTVIQDGDMVDTGFGAMDFTTLQANKSEVPLDICTSICKYPDYIKMVSE 240
Cdd:PHA02778  161 CTPALGEHWDKAKPCADAPPQAGDCPPIELKNSVIEDGDMVDIGFGAMNFKALQANKSDVPLDIVNSICKYPDYLKMAND 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 241 PYGDSLFFYLRREQMFVRHLFNRAGTVGENVPDDLYIKGSGSTA-NLASSNYFPTPSGSMVTSDAQIFNKPYWLQRAQGH 319
Cdd:PHA02778  241 PYGDSMFFFARREQMYARHFFTRAGTVGEAIPEDLYLKGASGQAqTLGSSVYFPTPSGSLVSSDAQLFNRPYWLQRAQGH 320

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 320 NNGICWGNQLFVTVVDTTRSTNMSLCAA-ISTSETTYKNTNFKEYLRHGEEYDLQFIFQLCKITLTADVMTYIHSMNSTI 398
Cdd:PHA02778  321 NNGICWNNQLFVTVVDNTRNTNFTISVKtDETPQTTYKASNFKEYLRHVEEYELSFIFQLCKVPLTPEVLAHLHTMNPSI 400

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 399 LEDWNFGLQPPPGGTLEDTYRFVTSQAIACQKHTPPAPKEDPLKKYTFWEVNLKEKFSADLDQFPLGRKFLLQAGLKAKP 478
Cdd:PHA02778  401 LEDWNLGFVPPPSSSLEDTYRYIQSLATKCPDNVPPKEKEDPYAKYTFWEVDLTERFSLDLDQFPLGRKFLFQAGLRRRT 480

                         490       500
                  ....*....|....*....|....*.
gi 1046490004 479 KftlgKRKATPTTSSTSTTAKRKKRK 504
Cdd:PHA02778  481 R----RRKRKSTSSSSSRSTKRRRRK 502
Late_protein_L1 pfam00500
L1 (late) protein;
4-502 0e+00

L1 (late) protein;


Pssm-ID: 459833  Cd Length: 497  Bit Score: 939.84  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004   4 WLPSEATVYLPPVPVSKVVSTDEYVARTNIYYHAGTSRLLAVGHPYFPIKkPNNNKILVPKVSGLQYRVFRIHLPDPNKF 83
Cdd:pfam00500   1 WLPSQQKLYLPPQPVTKVLSTDEYVTRTNIFYHAGTDRLLTVGHPYFEIK-GRNDKVLVPKVSGNQYRVFRLKLPDPNRF 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004  84 GFPDTSFYNPDTQRLVWACVGVEVGRGQPLGVGISGHPLLNKLDDTENASAYAANAGVDNRECISMDYKQTQLCLIGCKP 163
Cdd:pfam00500  80 ALPDKSLYDPDKERLVWALRGLEIGRGQPLGIGVTGHPLFNKFDDAENPNKYINAQGGDNRQNMAFDPKQTQMFIVGCTP 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 164 PIGEHWGKGSPCTNVAVNPGDCPPLELINTVIQDGDMVDTGFGAMDFTTLQANKSEVPLDICTSICKYPDYIKMVSEPYG 243
Cdd:pfam00500 160 AIGEHWDKASPCPNQVPKTGDCPPIELKNTVIEDGDMCDIGFGAMDFKALQANKSDVPLDIVNSICKYPDYLKMAEDPYG 239

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 244 DSLFFYLRREQMFVRHLFNRAGTVGENVPDDLYIKG-SGSTANLASSNYFPTPSGSMVTSDAQIFNKPYWLQRAQGHNNG 322
Cdd:pfam00500 240 DSMFFYARREQMYARHFFSRAGTVGEAVPEDLYIKGaGEEQNTLATSNYFGTPSGSLVSSDGQLFNRPYWLQRAQGHNNG 319

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 323 ICWGNQLFVTVVDTTRSTNMSLC-AAISTSETTYKNTNFKEYLRHGEEYDLQFIFQLCKITLTADVMTYIHSMNSTILED 401
Cdd:pfam00500 320 ICWNNQLFVTVVDNTRGTNFTISvKADENDETTYDASNFKEYLRHVEEYELSFIFQLCKVKLTPENLAYLHTMNPSILED 399

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1046490004 402 WNFGLQPPPGGTLEDTYRFVTSQAIACQKHTPPAPKEDPLKKYTFWEVNLKEKFSADLDQFPLGRKFLLQAGLKAkpkFT 481
Cdd:pfam00500 400 WNLGVTPPPSSSLEDTYRYIESLATKCPDNPPPAEKEDPYKGLKFWEVDLSERLSADLDQFPLGRKFLYQSGLTQ---SS 476

                         490       500
                  ....*....|....*....|.
gi 1046490004 482 LGKRKATPTTSSTSTTAKRKK 502
Cdd:pfam00500 477 SSTKRKAPASVAVSRSSKRKR 497
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH