9T3Y
Cryo-EM structure of alphaM/beta2:C3d-anti-CR3-Nb headpiece complex (HPO2 3D class reconstruction)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Isoform 2 of Integrin alpha-M | polymer | 763 | 83989.7 | 1 | UniProt (P11215) Pfam (PF00092) Pfam (PF01839) Pfam (PF08441) | Homo sapiens (Human) | CD11 antigen-like family member B,CR-3 alpha chain,Cell surface glycoprotein MAC-1 subunit alpha,Leukocyte adhesion receptor MO1,Neutrophil adherence receptor |
| 2 | B (B) | Integrin beta-2 | polymer | 469 | 52281.1 | 1 | UniProt (P05107) Pfam (PF17205) Pfam (PF00362) | Homo sapiens (Human) | Cell surface adhesion glycoproteins LFA-1/CR3/p150,95 subunit beta,Complement receptor C3 subunit beta |
| 3 | C (C) | Nanobody,Complement C3dg fragment | polymer | 448 | 49171.1 | 1 | UniProt (P01024) Pfam (PF07678) Pfam (PF21308) | Lama glama (llama) | |
| 4 | D (D) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 5 | E, F (E, F) | alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 910.8 | 2 | In PDB GlyTouCan (G22768VO) | |||
| 6 | G, H (G, H) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 2 | In PDB GlyTouCan (G42666HT) | |||
| 7 | I, J, L, P, Q (A, B) | CALCIUM ION | non-polymer | 40.1 | 5 | Chemie (CA) PubChem (271) | |||
| 8 | K, O (A, B) | MANGANESE (II) ION | non-polymer | 54.9 | 2 | Chemie (MN) PubChem (27854) | |||
| 9 | M, N, R (A, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 3 | Chemie (NAG) | |||
| 10 | S, T, U (A, B, C) | water | water | 18.0 | 9 | Chemie (HOH) |
Sequence modifications
A: 1 - 754 (UniProt: P11215)
B: 1 - 460 (UniProt: P05107)
C: 2 - 77 (PDB: 9T3Y)
C: 78 - 372 (UniProt: P01024)
C: 373 - 449 (PDB: 9T3Y)
| PDB | External Database | Details |
|---|---|---|
| Thr 755 | - | expression tag |
| Gly 756 | - | expression tag |
| Gly 757 | - | expression tag |
| Glu 758 | - | expression tag |
| Asn 759 | - | expression tag |
| Leu 760 | - | expression tag |
| Tyr 761 | - | expression tag |
| Phe 762 | - | expression tag |
| Gln 763 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Pro 461 | - | expression tag |
| Ala 462 | - | expression tag |
| Ala 463 | - | expression tag |
| Glu 464 | - | expression tag |
| Asn 465 | - | expression tag |
| Leu 466 | - | expression tag |
| Tyr 467 | - | expression tag |
| Phe 468 | - | expression tag |
| Gln 469 | - | expression tag |
C: 78 - 372 (UniProt: P01024)
| PDB | External Database | Details |
|---|---|---|
| Ser 93 | Cys 1010 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 185442.0 | |
| Branched | Number of molecules | 5 |
| Total formula weight | 3257.0 | |
| Non-Polymers* | Number of molecules | 10 |
| Total formula weight | 973.9 | |
| All* | Total formula weight | 189672.8 |
