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(-) Description

Title :  MURINE POLYOMAVIRUS COMPLEXED WITH 3'SIALYL LACTOSE
 
Authors :  T. Stehle, S. C. Harrison
Date :  12 Dec 95  (Deposition) - 20 Jun 96  (Release) - 04 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.65
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C,D,E,F  (60x)
Keywords :  Coat Protein, Icosahedral Virus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Stehle, S. C. Harrison
Crystal Structures Of Murine Polyomavirus In Complex With Straight-Chain And Branched-Chain Sialyloligosaccharide Receptor Fragments.
Structure V. 4 183 1996
PubMed-ID: 8805524  |  Reference-DOI: 10.1016/S0969-2126(96)00021-4
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - POLYOMAVIRUS COAT PROTEIN VP1
    Chains: A, B, C, D, E, F
    Organism Scientific: MOUSE POLYOMAVIRUS (STRAIN P16 SMALL- PLAQUE)
    Organism Taxid: 47935
    Strain: SMALL-PLAQUE P16

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (60x): ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 18)

Asymmetric Unit (3, 18)
No.NameCountTypeFull Name
1BGC6Ligand/IonBETA-D-GLUCOSE
2GAL6Ligand/IonBETA-D-GALACTOSE
3SIA6Ligand/IonO-SIALIC ACID
Biological Unit 1 (3, 1080)
No.NameCountTypeFull Name
1BGC360Ligand/IonBETA-D-GLUCOSE
2GAL360Ligand/IonBETA-D-GALACTOSE
3SIA360Ligand/IonO-SIALIC ACID

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:72 , ARG A:77 , GLY A:78 , THR A:291 , VAL A:296 , HIS A:298 , GAL A:385 , ASP B:85BINDING SITE FOR RESIDUE SIA A 384
02AC2SOFTWAREGLY A:78 , ASN A:93 , SIA A:384 , BGC A:386BINDING SITE FOR RESIDUE GAL A 385
03AC3SOFTWAREGAL A:385BINDING SITE FOR RESIDUE BGC A 386
04AC4SOFTWARETYR B:72 , ARG B:77 , THR B:291 , VAL B:296 , HIS B:298 , GAL B:385BINDING SITE FOR RESIDUE SIA B 384
05AC5SOFTWAREGLY B:78 , ASN B:93 , SIA B:384 , BGC B:386BINDING SITE FOR RESIDUE GAL B 385
06AC6SOFTWAREGAL B:385BINDING SITE FOR RESIDUE BGC B 386
07AC7SOFTWARETYR C:72 , ARG C:77 , THR C:291 , HIS C:298 , GAL C:385BINDING SITE FOR RESIDUE SIA C 384
08AC8SOFTWAREGLY C:78 , ASN C:93 , SIA C:384 , BGC C:386BINDING SITE FOR RESIDUE GAL C 385
09AC9SOFTWAREGAL C:385BINDING SITE FOR RESIDUE BGC C 386
10BC1SOFTWARETYR D:72 , ARG D:77 , VAL D:296 , HIS D:298 , GAL D:385 , ASP E:85BINDING SITE FOR RESIDUE SIA D 384
11BC2SOFTWAREGLY D:78 , ASN D:93 , SIA D:384 , BGC D:386BINDING SITE FOR RESIDUE GAL D 385
12BC3SOFTWAREGAL D:385BINDING SITE FOR RESIDUE BGC D 386
13BC4SOFTWARETYR E:72 , ARG E:77 , GLY E:78 , THR E:291 , VAL E:296 , HIS E:298 , GAL E:385BINDING SITE FOR RESIDUE SIA E 384
14BC5SOFTWAREGLY E:78 , ILE E:79 , ASN E:93 , THR E:94 , SIA E:384 , BGC E:386BINDING SITE FOR RESIDUE GAL E 385
15BC6SOFTWAREGAL E:385BINDING SITE FOR RESIDUE BGC E 386
16BC7SOFTWARETYR F:72 , ARG F:77 , THR F:291 , ASN F:293 , VAL F:296 , HIS F:298 , GAL F:385BINDING SITE FOR RESIDUE SIA F 384
17BC8SOFTWAREGLY F:78 , ILE F:79 , ASN F:93 , SIA F:384 , BGC F:386BINDING SITE FOR RESIDUE GAL F 385
18BC9SOFTWAREGAL F:385BINDING SITE FOR RESIDUE BGC F 386

(-) SS Bonds  (5, 5)

Asymmetric Unit
No.Residues
1A:19 -B:114
2A:114 -E:19
3B:19 -C:114
4C:19 -D:114
5D:19 -E:114

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SID)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SID)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SID)

(-) Exons   (0, 0)

(no "Exon" information available for 1SID)

(-) 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:366
 aligned with VP1_POVMP | P49302 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:366
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377      
            VP1_POVMP    18 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPG 383
               SCOP domains d1sida_ A: Polyomavirus coat proteins                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1sidA00 A:17-382 Polyomavirus Vp1, chain A                                                                                                                                                                                                                                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .................hhhhh.......eeeeeeee.............................................eeeeee...........eeeeeeeeeeeeeee.hhhhh........................eeeeeeee....eeee................hhhh........hhhh....eee...........eee.......eeeeeeee.......eeeee...eee..............eeeeeeeeeeee..........eee.eeeeeeeeeeeeee......hhhh.........................................eee....eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1sid A  17 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPG 382
                                    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      


Chain B from PDB  Type:PROTEIN  Length:367
 aligned with VP1_POVMP | P49302 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:367
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       
            VP1_POVMP    18 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPGN 384
               SCOP domains d1sidb_ B: Polyomavirus coat proteins                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1sidB00 B:17-383 Polyomavirus Vp1, chain A                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee.eee.hhhhh.......eeeeeeee.............................................eeeeee...........eeeeeeeeeeeeeee.hhhhh........................eeeeeeee....eeee................hhhh........hhhh....eee...........eee.......eeeeeeee.......eeeee....................eeeeeeeeeeee..........eee.eeeeeeeeeeeeee....hhhhhhhhhhh....................................eee....eee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sid B  17 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPGN 383
                                    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       


Chain C from PDB  Type:PROTEIN  Length:357
 aligned with VP1_POVMP | P49302 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:357
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       
            VP1_POVMP    18 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRF 374
               SCOP domains d1sidc_ C: Polyomavirus coat proteins                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1sidC00 C:17-373 Polyomavirus Vp1, chain A                                                                                                                                                                                                                                                                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhh........eeeeeee.............................................eeeeee............eeeeeeeeeeeeee.hhhhh........................eeeeeeee....eeee................hhhh........hhhh....eee...........eee.......eeeeeeee................................eeeeeeeeeeeeee......eeeee.eeeeeeeeeeeee.....hhhhhhh..........................................hhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sid C  17 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRF 373
                                    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       


Chain D from PDB  Type:PROTEIN  Length:340
 aligned with VP1_POVMP | P49302 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:340
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357
            VP1_POVMP    18 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDG 357
               SCOP domains d1sidd_ D: Polyomavirus coat proteins                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1sidD00 D:17-356 Polyomavirus Vp1, chain A                                                                                                                                                                                                                                                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhh........eeeeeee.............................................eeeeee...........eeeeeeeeeeeeeee.hhhhh........................eeeeeeee....eeee..........................hhhh......eee...........eee.......eeeeeeee.......eeeee....................eeeeeeeeeeee..........eee.eeeeeeeeeeeeee....hhhhhhhhhhhh........................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sid D  17 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDG 356
                                    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


Chain E from PDB  Type:PROTEIN  Length:367
 aligned with VP1_POVMP | P49302 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:367
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       
            VP1_POVMP    18 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPGN 384
               SCOP domains d1side_ E: Polyomavirus coat proteins                                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1sidE00 E:17-383 Polyomavirus Vp1, chain A                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................hhhhh.......eeeeeeee.............................................eeeeee...........eeeeeeeeeeeeee..hhhhh........................eeeeeeee.....eee................hhhh......hhhh....................eee.......eeeeeeee.......eeeee...eee..............eeeeeeeeeeee..........eee..eeeeeeeeeeeee....hhhhhhhhhhhh..................................eee......eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sid E  17 KACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVDRFGKTKTVFPGN 383
                                    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       


Chain F from PDB  Type:PROTEIN  Length:354
 aligned with VP1_POVMP | P49302 from UniProtKB/Swiss-Prot  Length:384

    Alignment length:354
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368    
            VP1_POVMP    19 ACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVD 372
               SCOP domains d1sidf_ F: Polyomavirus coat proteins                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1sidF00 F:18-371 Polyomavirus Vp1, chain A                                                                                                                                                                                                                                                                                                                         CATH domains
           Pfam domains (1) ----------Polyoma_coat-1sidF01 F:28-338                                                                                                                                                                                                                                                                                          --------------------------------- Pfam domains (1)
           Pfam domains (2) ----------Polyoma_coat-1sidF02 F:28-338                                                                                                                                                                                                                                                                                          --------------------------------- Pfam domains (2)
           Pfam domains (3) ----------Polyoma_coat-1sidF03 F:28-338                                                                                                                                                                                                                                                                                          --------------------------------- Pfam domains (3)
           Pfam domains (4) ----------Polyoma_coat-1sidF04 F:28-338                                                                                                                                                                                                                                                                                          --------------------------------- Pfam domains (4)
           Pfam domains (5) ----------Polyoma_coat-1sidF05 F:28-338                                                                                                                                                                                                                                                                                          --------------------------------- Pfam domains (5)
           Pfam domains (6) ----------Polyoma_coat-1sidF06 F:28-338                                                                                                                                                                                                                                                                                          --------------------------------- Pfam domains (6)
         Sec.struct. author ................hhhhh........eeeeeee.............................................eeeeee............eeeeeeeeeeeeee.hhhhh........................eeeeeeee.....eee................hhhh..............................eee.......eeeeeeee..........................eee...eeeeeeeeeeee..........eee.eeeeeeeeeeeee.....hhhhhhhhhhhh...............eeeeeeeeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1sid F  18 ACPRPAPVPKLLIKGGMEVLDLVTGPDSVTEIEAFLNPRMGQPPTPESLTEGGQYYGWSRGINLATSDTEDSPGNNTLPTWSMAKLQLPMLNEDLTCDTLQMWEAVSVKTEVVGSGSLLDVHGFNKPTDTVNTKGISTPVEGSQYHVFAVGGEPLDLQGLVTDARTKYKEEGVVTIKTITKKDMVNKDQVLNPISKAKLDKDGMYPVEIWHPDPAKNENTRYFGNYTGGTTTPPVLQFTNTLTTVLLDENGVGPLCKGEGLYLSCVDIMGWRVTRNYDVHHWRGLPRYFKITLRKRWVKNPYPMASLISSLFNNMLPQVQGQPMEGENTQVEEVRVYDGTEPVPGDPDMTRYVD 371
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367
   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, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 6)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: no clan defined [family: Polyoma_coat] (8)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (VP1_POVMP | P49302)
molecular function
    GO:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
biological process
    GO:0075513    caveolin-mediated endocytosis of virus by host cell    Any caveolin-mediated endocytosis that is involved in the uptake of a virus into a host cell. Begins when material is taken up into plasma membrane caveolae - specialized lipid rafts that form 50-70 nm flask-shaped invaginations of the plasma membrane - which then pinch off to form endocytic caveolar carriers 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: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:0039620    T=7 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=7 symmetry. The T=7 capsid is composed of 12 pentameric and 60 hexameric capsomeres.
    GO:0042025    host cell nucleus    A membrane-bounded organelle as it is found in the host cell in which chromosomes are housed and replicated. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    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:0019012    virion    The complete fully infectious extracellular virus particle.

 Visualization

(-) Interactive Views

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 Related Entries

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        VP1_POVMP | P49302: 1cn3 1sie 1vpn 1vps 5cpu 5cpw 5cpx 5cpy 5cpz 5cq0

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