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(-) Description

Title :  CRYSTAL STRUCTURE OF THE RUBELLA VIRUS GLYCOPROTEIN E1 IN ITS POST-FUSION FORM CRYSTALLIZED IN PRESENCE OF 20MM OF CALCIUM ACETATE
 
Authors :  M. C. Vaney, R. M. Dubois, M. A. Tortorici, F. A. Rey
Date :  26 Jul 12  (Deposition) - 09 Jan 13  (Release) - 14 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Viral Protein, Envelope Glycoprotein, Membrane Fusion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. M. Dubois, M. C. Vaney, M. A. Tortorici, R. A. Kurdi, G. Barba-Spaeth T. Krey, F. A. Rey
Functional And Evolutionary Insight From The Crystal Structure Of Rubella Virus Protein E1.
Nature V. 493 552 2013
PubMed-ID: 23292515  |  Reference-DOI: 10.1038/NATURE11741
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - E1 ENVELOPE GLYCOPROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: DROSOPHILA MELANOGASTER
    Expression System Cell Line: SCHNEIDER 2
    Expression System Common: FRUIT FLY
    Expression System Plasmid: PMT MODIFIED INVITROGEN
    Expression System Taxid: 7227
    Expression System Vector Type: PLASMID
    Fragment: ECTODOMAIN, RESIDUES 583-1018
    Organism Scientific: RUBELLA VIRUS
    Organism Taxid: 11041
    Strain: M33
    Synonym: ENVELOPE GLYCOPROTEIN E1

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 37)

Asymmetric Unit (8, 37)
No.NameCountTypeFull Name
1ACT7Ligand/IonACETATE ION
2CA3Ligand/IonCALCIUM ION
3GOL15Ligand/IonGLYCEROL
4NA1Ligand/IonSODIUM ION
5NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
6NGA2Ligand/IonN-ACETYL-D-GALACTOSAMINE
7PEG4Ligand/IonDI(HYDROXYETHYL)ETHER
8PG41Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 1 (6, 11)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3GOL4Ligand/IonGLYCEROL
4NA-1Ligand/IonSODIUM ION
5NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
6NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE
7PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
8PG41Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 2 (4, 10)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3GOL6Ligand/IonGLYCEROL
4NA-1Ligand/IonSODIUM ION
5NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
6NGA-1Ligand/IonN-ACETYL-D-GALACTOSAMINE
7PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
8PG4-1Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 3 (5, 12)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3GOL5Ligand/IonGLYCEROL
4NA-1Ligand/IonSODIUM ION
5NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
6NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE
7PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
8PG4-1Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (37, 37)

Asymmetric Unit (37, 37)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:80 , ALA A:81 , CYS A:82 , ALA A:116 , GLU A:118 , HOH A:2108 , ARG B:256 , LEU B:264BINDING SITE FOR RESIDUE GOL A 1438
02AC2SOFTWAREARG A:256 , LEU A:257 , ASP A:262 , HOH A:2417 , LYS C:110BINDING SITE FOR RESIDUE GOL A 1439
03AC3SOFTWARETHR A:347 , PRO A:355 , LEU A:357 , ARG B:217 , HIS B:308 , THR B:311BINDING SITE FOR RESIDUE GOL A 1440
04AC4SOFTWARESER A:100 , TYR A:108BINDING SITE FOR RESIDUE GOL A 1441
05AC5SOFTWARESER A:91 , SER A:92 , ASP A:136BINDING SITE FOR RESIDUE ACT A 1443
06AC6SOFTWAREGLY A:93 , GLY A:94 , ARG A:342 , GLY A:364BINDING SITE FOR RESIDUE ACT A 1444
07AC7SOFTWARETHR A:9 , ALA A:10 , PG4 A:1447 , HOH A:2420 , PHE C:380 , THR C:387BINDING SITE FOR RESIDUE ACT A 1445
08AC8SOFTWAREASP A:314 , HIS A:317 , ACT A:1445 , HOH A:2331 , ALA C:388BINDING SITE FOR RESIDUE PG4 A 1447
09AC9SOFTWAREGLU A:52 , ILE A:53 , TYR A:90 , GLY A:94 , GLN A:97 , HOH A:2074BINDING SITE FOR RESIDUE PEG A 1449
10BC1SOFTWAREASN A:88 , ALA A:89 , ASP A:136 , THR A:137 , HOH A:2118BINDING SITE FOR RESIDUE NA A 1450
11BC2SOFTWAREASN A:88 , ALA A:89 , ASP A:136 , THR A:137 , HOH A:2118BINDING SITE FOR RESIDUE CA A 1451
12BC3SOFTWARESER B:126 , ALA B:128 , ALA B:129 , ALA B:260 , PRO B:278 , HOH B:2261BINDING SITE FOR RESIDUE GOL B 1437
13BC4SOFTWARETHR B:347 , PRO B:355 , LEU B:357 , HOH B:2375 , HOH B:2376 , HOH B:2377 , ARG C:217 , THR C:311 , THR C:312BINDING SITE FOR RESIDUE GOL B 1438
14BC5SOFTWAREALA B:99 , PHE B:102 , ASN B:103 , PRO B:121 , HOH B:2106 , HOH B:2378BINDING SITE FOR RESIDUE GOL B 1439
15BC6SOFTWARETHR B:78 , GLN B:79 , ARG B:252 , ALA C:268 , HIS C:298BINDING SITE FOR RESIDUE GOL B 1440
16BC7SOFTWARESER B:100 , TYR B:101BINDING SITE FOR RESIDUE GOL B 1441
17BC8SOFTWAREARG B:80 , ALA B:81 , CYS B:82 , ALA B:116 , GLU B:118 , ARG B:252 , HOH B:2086 , HOH B:2115 , ARG C:256 , LEU C:264BINDING SITE FOR RESIDUE GOL B 1442
18BC9SOFTWAREASN B:88 , THR B:135 , ASP B:136 , THR B:137 , CA B:1445BINDING SITE FOR RESIDUE ACT B 1443
19CC1SOFTWARESER B:92 , ASP B:136BINDING SITE FOR RESIDUE ACT B 1444
20CC2SOFTWAREASN B:88 , ALA B:89 , ASP B:136 , THR B:137 , ACT B:1443 , HOH B:2093BINDING SITE FOR RESIDUE CA B 1445
21CC3SOFTWAREPRO B:54 , THR B:55 , ASP B:56 , GLY B:61 , LYS B:384 , HOH B:2052BINDING SITE FOR RESIDUE PEG B 1446
22CC4SOFTWAREGLY C:93 , GLY C:94 , TYR C:95 , ALA C:96 , GLN C:97 , LEU C:98 , TYR C:101 , ARG C:342 , GOL C:1440 , HOH C:2332BINDING SITE FOR RESIDUE GOL C 1439
23CC5SOFTWARETYR C:95 , TYR C:101 , TYR C:112 , ARG C:342 , ALA C:362 , PRO C:363 , GLY C:364 , GOL C:1439BINDING SITE FOR RESIDUE GOL C 1440
24CC6SOFTWAREHIS A:308 , THR A:311 , THR A:312 , PRO C:355 , LEU C:357 , HOH C:2333BINDING SITE FOR RESIDUE GOL C 1441
25CC7SOFTWARELYS B:110 , HOH B:2115 , ARG C:256 , LEU C:257 , ASP C:262 , HOH C:2233BINDING SITE FOR RESIDUE GOL C 1442
26CC8SOFTWARESER C:100 , TYR C:101 , TYR C:108 , HOH C:2111BINDING SITE FOR RESIDUE GOL C 1443
27CC9SOFTWAREASN C:88 , THR C:135 , ASP C:136 , THR C:137 , CA C:1446 , HOH C:2128BINDING SITE FOR RESIDUE ACT C 1444
28DC1SOFTWARETYR C:90 , SER C:92 , ASP C:136BINDING SITE FOR RESIDUE ACT C 1445
29DC2SOFTWAREASN C:88 , ALA C:89 , ASP C:136 , THR C:137 , ACT C:1444 , HOH C:2093BINDING SITE FOR RESIDUE CA C 1446
30DC3SOFTWARESER B:433 , HOH B:2369 , GLY C:63 , TRP C:65 , VAL C:66 , PRO C:67 , THR C:68BINDING SITE FOR RESIDUE PEG C 1447
31DC4SOFTWAREGLU C:52 , ILE C:53 , THR C:55 , ASP C:56 , GLY C:61 , TYR C:90 , GLN C:97BINDING SITE FOR RESIDUE PEG C 1448
32DC5SOFTWAREGLN A:168 , SER A:175 , ASN A:177BINDING SITE FOR MONO-SACCHARIDE NAG A1436 BOUND TO ASN A 177
33DC6SOFTWARETHR A:430 , ALA A:431 , VAL A:432 , HOH A:2416 , THR B:46BINDING SITE FOR MONO-SACCHARIDE NGA A1437 BOUND TO THR A 430
34DC7SOFTWARESER B:175 , ASN B:177 , HOH B:2167 , HOH B:2175 , HOH B:2374BINDING SITE FOR MONO-SACCHARIDE NAG B1436 BOUND TO ASN B 177
35DC8SOFTWAREASN C:76BINDING SITE FOR MONO-SACCHARIDE NAG C1437 BOUND TO ASN C 76
36DC9SOFTWAREGLN C:168 , SER C:175 , ASN C:177BINDING SITE FOR MONO-SACCHARIDE NAG C1436 BOUND TO ASN C 177
37EC1SOFTWARETHR A:46 , HOH A:2067 , THR C:430 , ALA C:431 , VAL C:432BINDING SITE FOR MONO-SACCHARIDE NGA C1438 BOUND TO THR C 430

(-) SS Bonds  (30, 30)

Asymmetric Unit
No.Residues
1A:8 -A:13
2A:37 -A:242
3A:49 -A:287
4A:51 -A:130
5A:59 -A:71
6A:82 -A:117
7A:176 -A:185
8A:225 -A:235
9A:349 -A:352
10A:368 -A:401
11B:8 -B:13
12B:37 -B:242
13B:49 -B:287
14B:51 -B:130
15B:59 -B:71
16B:82 -B:117
17B:176 -B:185
18B:225 -B:235
19B:349 -B:352
20B:368 -B:401
21C:8 -C:13
22C:37 -C:242
23C:49 -C:287
24C:51 -C:130
25C:59 -C:71
26C:82 -C:117
27C:176 -C:185
28C:225 -C:235
29C:349 -C:352
30C:368 -C:401

(-) Cis Peptide Bonds  (13, 13)

Asymmetric Unit
No.Residues
1Thr A:17 -Pro A:18
2Ser A:222 -Pro A:223
3Gly A:320 -Pro A:321
4Pro A:395 -Pro A:396
5Thr B:17 -Pro B:18
6His B:189 -Gly B:190
7Ser B:222 -Pro B:223
8Gly B:320 -Pro B:321
9Pro B:395 -Pro B:396
10Thr C:17 -Pro C:18
11Ser C:222 -Pro C:223
12Gly C:320 -Pro C:321
13Pro C:395 -Pro C:396

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 3)

Asymmetric Unit (1, 3)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_POLS_RUBVM_005 *R609GPOLS_RUBVM  ---  ---A/B/CR27G
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_POLS_RUBVM_005 *R609GPOLS_RUBVM  ---  ---AR27G
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_POLS_RUBVM_005 *R609GPOLS_RUBVM  ---  ---BR27G
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 3 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_POLS_RUBVM_005 *R609GPOLS_RUBVM  ---  ---CR27G
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4B3V)

(-) Exons   (0, 0)

(no "Exon" information available for 4B3V)

(-) 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:431
 aligned with POLS_RUBVM | P08563 from UniProtKB/Swiss-Prot  Length:1063

    Alignment length:434
                                   593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003      1013    
          POLS_RUBVM    584 EAFTYLCTAPGCATQTPVPVRLAGVRFESKIVDGGCFAPWDLEATGACICEIPTDVSCEGLGAWVPTAPCARIWNGTQRACTFWAVNAYSSGGYAQLASYFNPGGSYYKQYHPTACEVEPAFGHSDAACWGFPTDTVMSVFALASYVQHPHKTVRVKFHTETRTVWQLSVAGVSCNVTTEHPFCNTPHGQLEVQVPPDPGDLVEYIMNYTGNQQSRWGLGSPNCHGPDWASPVCQRHSPDCSRLVGATPERPRLRLVDADDPLLRTAPGPGEVWVTPVIGSQARKCGLHIRAGPYGHATVEMPEWIHAHTTSDPWHPPGPLGLKFKTVRPVALPRALAPPRNVRVTGCYQCGTPALVEGLAPGGGNCHLTVNGEDVGAFPPGKFVTAALLNTPPPYQVSCGGESDRASARVIDPAAQSFTGVVYGTHTTAVSET 1017
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......ee.....eeeeeeeeeeeeeeeeeee..eeeeeeeee................hhhhhhhhhh.eeeeeeeeeee..........hhhh...hhhhhhhh....eeee.................eeeeeeeeee.hhhhheeeeeeeeeeeeeeeee..eeeee.....eeee..eeeeee.......eeeeee.---..eeeeee...........hhhhheee..............eeee....hhhhhh.....eeeeeeee......eeeeeee.hhh.eeehhhhhhhhhh..........eeeeee..............eeeeeeee......eeeeeee.....eeeee..eeeeee..eeeeeee........eee....eee.eeeeehhhhhhh..eee..eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4b3v A    2 EAFTYLCTAPGCATQTPVPVRLAGVRFESKIVDGGCFAPWDLEATGACICEIPTDVSCEGLGAWVPTAPCARIWNGTQRACTFWAVNAYSSGGYAQLASYFNPGGSYYKQYHPTACEVEPAFGHSDAACWGFPTDTVMSVFALASYVQHPHKTVRVKFHTETRTVWQLSVAGVSCNVTTEHPFCNTPHGQLEVQVPPDPGDLVEYIMN---NQQSRWGLGSPNCHGPDWASPVCQRHSPDCSRLVGATPERPRLRLVDADDPLLRTAPGPGEVWVTPVIGSQARKCGLHIRAGPYGHATVEMPEWIHAHTTSDPWHPPGPLGLKFKTVRPVALPRALAPPRNVRVTGCYQCGTPALVEGLAPGGGNCHLTVNGEDVGAFPPGKFVTAALLNTPPPYQVSCGGESDRASARVIDPAAQSFTGVVYGTHTTAVSET  435
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       | - |     221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431    
                                                                                                                                                                                                                                         209 213                                                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:432
 aligned with POLS_RUBVM | P08563 from UniProtKB/Swiss-Prot  Length:1063

    Alignment length:434
                                   593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003      1013    
          POLS_RUBVM    584 EAFTYLCTAPGCATQTPVPVRLAGVRFESKIVDGGCFAPWDLEATGACICEIPTDVSCEGLGAWVPTAPCARIWNGTQRACTFWAVNAYSSGGYAQLASYFNPGGSYYKQYHPTACEVEPAFGHSDAACWGFPTDTVMSVFALASYVQHPHKTVRVKFHTETRTVWQLSVAGVSCNVTTEHPFCNTPHGQLEVQVPPDPGDLVEYIMNYTGNQQSRWGLGSPNCHGPDWASPVCQRHSPDCSRLVGATPERPRLRLVDADDPLLRTAPGPGEVWVTPVIGSQARKCGLHIRAGPYGHATVEMPEWIHAHTTSDPWHPPGPLGLKFKTVRPVALPRALAPPRNVRVTGCYQCGTPALVEGLAPGGGNCHLTVNGEDVGAFPPGKFVTAALLNTPPPYQVSCGGESDRASARVIDPAAQSFTGVVYGTHTTAVSET 1017
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......ee.....eeeeeeeeeeeeeeeeeee...eeeeeeee................hhhhhhhhhh.eeeeeeeeeee..........hhhh...hhhhhhhh....eeee.................eeeeeeeee..hhhhheeeeeeeeeeeeeeeee..eeeee.....eeee..eeeeee.......eeeeee..--..eeeeee...........hhhhheee..............eeee....hhhhhh.....eeeeeee........eeeeee.hhh.eeehhhhhhhhhh..........eeeeee..............eeeeeeee......eeeeeee.....eeeee..eeeeee..eeeeeee........eee....eee.eeeeehhhhhhh..eee..eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4b3v B    2 EAFTYLCTAPGCATQTPVPVRLAGVRFESKIVDGGCFAPWDLEATGACICEIPTDVSCEGLGAWVPTAPCARIWNGTQRACTFWAVNAYSSGGYAQLASYFNPGGSYYKQYHPTACEVEPAFGHSDAACWGFPTDTVMSVFALASYVQHPHKTVRVKFHTETRTVWQLSVAGVSCNVTTEHPFCNTPHGQLEVQVPPDPGDLVEYIMNY--NQQSRWGLGSPNCHGPDWASPVCQRHSPDCSRLVGATPERPRLRLVDADDPLLRTAPGPGEVWVTPVIGSQARKCGLHIRAGPYGHATVEMPEWIHAHTTSDPWHPPGPLGLKFKTVRPVALPRALAPPRNVRVTGCYQCGTPALVEGLAPGGGNCHLTVNGEDVGAFPPGKFVTAALLNTPPPYQVSCGGESDRASARVIDPAAQSFTGVVYGTHTTAVSET  435
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201        |- |     221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431    
                                                                                                                                                                                                                                          210  |                                                                                                                                                                                                                              
                                                                                                                                                                                                                                             213                                                                                                                                                                                                                              


Chain C from PDB  Type:PROTEIN  Length:432
 aligned with POLS_RUBVM | P08563 from UniProtKB/Swiss-Prot  Length:1063

    Alignment length:434
                                   593       603       613       623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003      1013    
          POLS_RUBVM    584 EAFTYLCTAPGCATQTPVPVRLAGVRFESKIVDGGCFAPWDLEATGACICEIPTDVSCEGLGAWVPTAPCARIWNGTQRACTFWAVNAYSSGGYAQLASYFNPGGSYYKQYHPTACEVEPAFGHSDAACWGFPTDTVMSVFALASYVQHPHKTVRVKFHTETRTVWQLSVAGVSCNVTTEHPFCNTPHGQLEVQVPPDPGDLVEYIMNYTGNQQSRWGLGSPNCHGPDWASPVCQRHSPDCSRLVGATPERPRLRLVDADDPLLRTAPGPGEVWVTPVIGSQARKCGLHIRAGPYGHATVEMPEWIHAHTTSDPWHPPGPLGLKFKTVRPVALPRALAPPRNVRVTGCYQCGTPALVEGLAPGGGNCHLTVNGEDVGAFPPGKFVTAALLNTPPPYQVSCGGESDRASARVIDPAAQSFTGVVYGTHTTAVSET 1017
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......ee.....eeeeeeeeeeeeeeeeeee...eeeeeeee................hhhhhhhhhh.eeeeeeeeeee..........hhhh...hhhhhhhh....eeee.................eeeeeeeee..hhhhheeeeeeeeeeeeeeeee..eeeee.....eeee..eeeeee.......eeeeee..--..eeeeee...........hhhhheee..............eeee....hhhhhh.....eeeeeee........eeeeee.hhh.eeehhhhhhhhhh..........eeeeee..............eeeeeeee......eeeeeee.....eeeee..eeeeee..eeeeeee........eee....eee.eeeeehhhhhhh..eee..eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------G------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4b3v C    2 EAFTYLCTAPGCATQTPVPVRLAGVRFESKIVDGGCFAPWDLEATGACICEIPTDVSCEGLGAWVPTAPCARIWNGTQRACTFWAVNAYSSGGYAQLASYFNPGGSYYKQYHPTACEVEPAFGHSDAACWGFPTDTVMSVFALASYVQHPHKTVRVKFHTETRTVWQLSVAGVSCNVTTEHPFCNTPHGQLEVQVPPDPGDLVEYIMNY--NQQSRWGLGSPNCHGPDWASPVCQRHSPDCSRLVGATPERPRLRLVDADDPLLRTAPGPGEVWVTPVIGSQARKCGLHIRAGPYGHATVEMPEWIHAHTTSDPWHPPGPLGLKFKTVRPVALPRALAPPRNVRVTGCYQCGTPALVEGLAPGGGNCHLTVNGEDVGAFPPGKFVTAALLNTPPPYQVSCGGESDRASARVIDPAAQSFTGVVYGTHTTAVSET  435
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201        |- |     221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431    
                                                                                                                                                                                                                                          210  |                                                                                                                                                                                                                              
                                                                                                                                                                                                                                             213
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4B3V)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4B3V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4B3V)

(-) Gene Ontology  (22, 22)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (POLS_RUBVM | P08563)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0075512    clathrin-dependent endocytosis of virus by host cell    Any clathrin-mediated endocytosis that is involved in the uptake of a virus into a host cell. Begins by invagination of a specific region of the host cell plasma membrane around the bound virus to form a clathrin-coated pit, which then pinches off to form a clathrin-coated endocytic vesicle containing the virus.
    GO:0075509    endocytosis involved in viral entry into host cell    Any endocytosis that is involved in the uptake of a virus into a host cell.
    GO:0039654    fusion of virus membrane with host endosome membrane    Fusion of a virus membrane with a host endosome membrane. Occurs after internalization of the virus through the endosomal pathway, and results in release of the virus contents into the cell.
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
cellular component
    GO:0039619    T=4 icosahedral viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles where the subunits (capsomeres) are arranged to form an icosahedron with T=4 symmetry. The T=4 capsid is composed of 12 pentameric and 30 hexameric capsomeres.
    GO:0044177    host cell Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic host cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack.
    GO:0044178    host cell Golgi membrane    The lipid bilayer surrounding any of the compartments of the host cell Golgi apparatus.
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0033650    host cell mitochondrion    A semiautonomous, self replicating organelle as found in host cells that occurs in varying numbers, shapes, and sizes in the cell cytoplasm. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019028    viral capsid    The protein coat that surrounds the infective nucleic acid in some virus particles. It comprises numerous regularly arranged subunits, or capsomeres.
    GO:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019013    viral nucleocapsid    The complete protein-nucleic acid complex that is the packaged form of the genome in a virus particle.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

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  POLS_RUBVM | P08563
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 Related Entries

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

UniProtKB/Swiss-Prot
        POLS_RUBVM | P08563: 4adg 4adi 4adj 4har 4hbe 4hbo 5khc

(-) Related Entries Specified in the PDB File

4adg CRYSTAL STRUCTURE OF THE RUBELLA VIRUS ENVELOPE GLYCOPROTEIN E1 IN POST-FUSION FORM (CRYSTAL FORM II)
4adi CRYSTAL STRUCTURE OF THE RUBELLA VIRUS ENVELOPE GLYCOPROTEIN E1 IN POST-FUSION FORM (CRYSTAL FORM I)
4adj CRYSTAL STRUCTURE OF THE RUBELLA VIRUS GLYCOPROTEIN E1 IN ITS POST- FUSION FORM CRYSTALLIZED IN PRESENCE OF 1MM OF CALCIUM ACETATE