8WYR
Cryo-EM structure of human CD5L bound to IgM-Fc/J
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C, D, E... (A, B, C, D, E...) | Interleukin-2,Isoform 1 of Immunoglobulin heavy constant mu | polymer | 403 | 44086.5 | 10 | UniProt (P60568) UniProt (P01871) Pfam (PF07654) | Homo sapiens (human) | IL-2,T-cell growth factor,TCGF,Ig mu chain C region,Ig mu chain C region BOT,Ig mu chain C region GAL,Ig mu chain C region OU |
| 2 | I (J) | Immunoglobulin J chain | polymer | 168 | 19204.7 | 1 | UniProt (P01591) Pfam (PF15097) | Homo sapiens (human) | |
| 3 | L (M) | Interleukin-2,CD5 antigen-like | polymer | 359 | 39757.5 | 1 | UniProt (P60568) UniProt (O43866) Pfam (PF00530) | Homo sapiens (human) | IL-2,T-cell growth factor,TCGF,Apoptosis inhibitor expressed by macrophages,hAIM,CT-2,IgM-associated peptide,SP-alpha |
| 4 | M (I) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 5 | N, O, P, Q, R... (A, B, C, D, E...) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 10 | Chemie (NAG) | |||
| 6 | X, Y (M) | CALCIUM ION | non-polymer | 40.1 | 2 | Chemie (CA) |
Sequence modifications
A, B, C, D, E, F, G, H, K, L: 174 - 194 (UniProt: P60568)
A, B, C, D, E, F, G, H, K, L: 229 - 576 (UniProt: P01871)
J: -22 - 136 (UniProt: P01591)
M: -11 - 9 (UniProt: P60568)
M: 20 - 347 (UniProt: O43866)
| PDB | External Database | Details |
|---|---|---|
| Ser 195 | - | linker |
| Ala 196 | - | linker |
| Trp 197 | - | linker |
| Ser 198 | - | linker |
| His 199 | - | linker |
| Pro 200 | - | linker |
| Gln 201 | - | linker |
| Phe 202 | - | linker |
| Glu 203 | - | linker |
| Lys 204 | - | linker |
| Gly 205 | - | linker |
| Gly 206 | - | linker |
| Gly 207 | - | linker |
| Ser 208 | - | linker |
| Gly 209 | - | linker |
| Gly 210 | - | linker |
| Gly 211 | - | linker |
| Ser 212 | - | linker |
| Gly 213 | - | linker |
| Gly 214 | - | linker |
| Ser 215 | - | linker |
| Ala 216 | - | linker |
| Trp 217 | - | linker |
| Ser 218 | - | linker |
| His 219 | - | linker |
| Pro 220 | - | linker |
| Gln 221 | - | linker |
| Phe 222 | - | linker |
| Glu 223 | - | linker |
| Lys 224 | - | linker |
| Ile 225 | - | linker |
| Asp 226 | - | linker |
| Thr 227 | - | linker |
| Thr 228 | - | linker |
J: -22 - 136 (UniProt: P01591)
| PDB | External Database | Details |
|---|---|---|
| Tyr 137 | - | expression tag |
| Pro 138 | - | expression tag |
| Tyr 139 | - | expression tag |
| Asp 140 | - | expression tag |
| Val 141 | - | expression tag |
| Pro 142 | - | expression tag |
| Asp 143 | - | expression tag |
| Tyr 144 | - | expression tag |
| Ala 145 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Arg 10 | - | linker |
| Ile 11 | - | linker |
| His 12 | - | linker |
| His 13 | - | linker |
| His 14 | - | linker |
| His 15 | - | linker |
| His 16 | - | linker |
| His 17 | - | linker |
| His 18 | - | linker |
| His 19 | - | linker |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 12 |
| Total formula weight | 499826.9 | |
| Branched | Number of molecules | 1 |
| Total formula weight | 424.4 | |
| Non-Polymers* | Number of molecules | 12 |
| Total formula weight | 2292.2 | |
| All* | Total formula weight | 502543.5 |
