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eF-site ID
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7k4n-B |
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PDB Code
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7k4n |
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Chain
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B |
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click to enlarge
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Title
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SARS-CoV-2 spike in complex with the S2E12 neutralizing antibody Fab fragment |
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Classification
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VIRAL PROTEIN/IMMUNE SYSTEM |
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Compound
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Spike glycoprotein |
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Source
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(7K4N) |
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Sequence
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B: |
AYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFH
DNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLI
VNNATNVVIKVCEFQFCNDPFLGVEFRVYSSANNCTFEYV
SNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPL
VDLPIGINITRFQTLLAAAYYVGYLQPRTFLLKYNENGTI
TDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTES
IVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADY
SVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGD
EVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKV
GGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEG
FNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVC
GPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQF
GRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTS
NQVAVLYQDVNCTEVNVFQTRAGCLIGAEHVNNSYECDIP
IGAGICASYQTQSIIAYTMSLGAENSVAYSNNSIAIPTNF
TISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYGS
FCTQLNRALTGIAVEQDKNTQEVFAQVKQIYKTPPIKDFG
GFNFSQILPDPSKPSKRSPIEDLLFNKVNGLTVLPPLLTD
EMIAQYTSALLAGTITSGWTFGAGPALQIPFPMQMAYRFN
GIGVTQNVLYENQKLIANQFNSAIGKIQDSLSSTPSALGK
LQDVVNQNAQALNTLVKQLSSNFGAISSVLNDILSRLDPP
EAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAAT
KMSECVLGQSKRVDFCGKGYHLMSFPQSAPHGVVFLHVTY
VPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQR
NFYEPQIITTDNTFVSGNCDVVIGIVNNTVYDPLQPEL
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Description
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(1) |
Spike glycoprotein, S2E12 neutralizing antibody Fab fragment (heavy chain), S2E12 neutralizing antibody Fab fragment (light chain)
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Functional site
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1)
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chain |
B |
| residue |
323 |
| type |
CARBOHYD |
| sequence |
T
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| description |
O-linked (GalNAc) threonine; by host => ECO:0000269|PubMed:32363391
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| source |
Swiss-Prot : SWS_FT_FI8
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2)
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chain |
B |
| residue |
325 |
| type |
CARBOHYD |
| sequence |
S
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| description |
O-linked (HexNAc...) serine; by host => ECO:0000269|PubMed:32363391
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| source |
Swiss-Prot : SWS_FT_FI9
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3)
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chain |
B |
| residue |
603 |
| type |
CARBOHYD |
| sequence |
N
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| description |
N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI10
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4)
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chain |
B |
| residue |
676 |
| type |
CARBOHYD |
| sequence |
T
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| description |
O-linked (GlcNAc...) threonine; by host GALNT1 => ECO:0000269|PubMed:34732583
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| source |
Swiss-Prot : SWS_FT_FI11
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5)
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chain |
B |
| residue |
1134 |
| type |
CARBOHYD |
| sequence |
N
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| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI12
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6)
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chain |
B |
| residue |
815 |
| type |
SITE |
| sequence |
R
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| description |
Cleavage; by host TMPRSS2 or CTSL => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32703818, ECO:0000269|PubMed:34159616
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| source |
Swiss-Prot : SWS_FT_FI2
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|
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7)
|
chain |
B |
| residue |
61 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI4
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|
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8)
|
chain |
B |
| residue |
122 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI4
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|
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9)
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chain |
B |
| residue |
717 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI4
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10)
|
chain |
B |
| residue |
801 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI4
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11)
|
chain |
B |
| residue |
1074 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (hybrid) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI4
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12)
|
chain |
B |
| residue |
165 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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13)
|
chain |
B |
| residue |
282 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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14)
|
chain |
B |
| residue |
331 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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15)
|
chain |
B |
| residue |
343 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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16)
|
chain |
B |
| residue |
616 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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17)
|
chain |
B |
| residue |
657 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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18)
|
chain |
B |
| residue |
1098 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (complex) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI6
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19)
|
chain |
B |
| residue |
709 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (high mannose) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
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| source |
Swiss-Prot : SWS_FT_FI7
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20)
|
chain |
B |
| residue |
234 |
| type |
CARBOHYD |
| sequence |
N
|
| description |
N-linked (GlcNAc...) (high mannose) asparagine; by host => ECO:0000255|HAMAP-Rule:MF_04099, ECO:0000269|PubMed:32155444, ECO:0000269|PubMed:32363391, ECO:0000269|PubMed:32366695, ECO:0000269|PubMed:32979942
|
| source |
Swiss-Prot : SWS_FT_FI7
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