1P2C: Light chain anti-lysozyme antibody F10.6.6

crystal structure analysis of an anti-lysozyme antibody. Determined by X-ray diffraction at 2.0 Å resolution. Released 17 Feb 2004.

Method: X-ray diffraction
Resolution: 2.0 Å
Organisms: Mus musculus, Gallus gallus
Chains: 6
Atoms: 9,350
Mol. weight: 122.14 kDa
Released: 17 Feb 2004

Explore 1P2C in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1P2C contains 41 α-helices and 110 β-strands across 6 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 6 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	4-7	4	1
β-strand	10-13	4	2
β-strand	19-25	7	1
β-strand	33-38	6	2
β-strand	45-49	5	2
β-strand	53-54	2	2
α-helix	55	1
β-strand	62-67	6	1
β-strand	70-75	6	1
α-helix	80-82	3
β-strand	84-90	7	2
β-strand	97-98	2	2
β-strand	102-106	5	2
β-strand	111	1	3
β-strand	114-118	5	4
α-helix	119-121	3
α-helix	122-126	5
β-strand	129-139	11	4
β-strand	140	1	3
β-strand	145-150	6	5
β-strand	153-155	3	5
β-strand	159-163	5	4
α-helix	164-167	4
β-strand	173-182	10	4
α-helix	183-188	6
β-strand	191-197	7	5
β-strand	205-210	6	5

Chain B: 7 helices, 26 β-strands

Element	Residues	Length	Sheet
β-strand	303-306	4	6
β-strand	310-312	3	2
β-strand	318-325	8	6
β-strand	334-339	6	2
β-strand	346-352	7	2
β-strand	357-360	4	2
β-strand	361	1	7
β-strand	364	1	7
β-strand	368-373	6	6
α-helix	374-376	3
β-strand	378-383	6	6
α-helix	388-390	3
β-strand	392-398	7	2
β-strand	400	1	8
β-strand	402	1	8
β-strand	406	1	2
β-strand	410-414	5	2
α-helix	417-419	3
β-strand	420	1	9
α-helix	421-422	2
β-strand	423-427	5	10
β-strand	439-448	10	10
β-strand	449	1	9
β-strand	454-457	4	11
α-helix	458-460	3
β-strand	462	1	11
β-strand	466-468	3	10
α-helix	469-471	3
β-strand	472-474	3	10
β-strand	477-486	10	10
β-strand	496-502	7	11
α-helix	503-505	3
β-strand	507-513	7	11

Chain C: 7 helices, 9 β-strands

Element	Residues	Length	Sheet
β-strand	602	1	12
α-helix	605-614	10
β-strand	620	1	13
β-strand	623	1	13
α-helix	625-636	12
β-strand	639	1	12
β-strand	643-645	3	14
β-strand	651-653	3	14
β-strand	658-659	2	14
β-strand	665	1	15
β-strand	679	1	15
α-helix	680-684	5
α-helix	689-698	10
α-helix	704-707	4
α-helix	709-714	6
α-helix	720-724	5

Chain D: 7 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	904-907	4	16
β-strand	910-913	4	17
β-strand	919-925	7	16
β-strand	933-938	6	17
β-strand	945-949	5	17
β-strand	953-954	2	17
α-helix	955	1
β-strand	962-967	6	16
β-strand	970-975	6	16
α-helix	980-982	3
β-strand	984-990	7	17
β-strand	997-998	2	17
β-strand	1002-1006	5	17
β-strand	1011	1	18
β-strand	1014-1018	5	19
α-helix	1019-1021	3
α-helix	1022-1027	6
β-strand	1029-1039	11	19
β-strand	1040	1	18
β-strand	1045-1050	6	20
β-strand	1053-1054	2	20
β-strand	1059-1063	5	19
α-helix	1064-1067	4
β-strand	1073-1082	10	19
α-helix	1083-1088	6
β-strand	1091-1097	7	20
α-helix	1104	1
β-strand	1105-1110	6	20

Chain E: 7 helices, 24 β-strands

Element	Residues	Length	Sheet
β-strand	1203-1206	4	21
β-strand	1210-1212	3	17
β-strand	1218-1225	8	21
β-strand	1234-1240	7	17
β-strand	1243-1252	10	17
β-strand	1257-1260	4	17
α-helix	1262-1264	3
β-strand	1268-1273	6	21
α-helix	1274-1276	3
β-strand	1278-1283	6	21
α-helix	1288-1290	3
β-strand	1292-1298	7	17
β-strand	1300	1	22
β-strand	1302	1	22
β-strand	1306	1	17
β-strand	1310-1314	5	17
α-helix	1318-1319	2
β-strand	1320	1	23
β-strand	1323-1327	5	24
β-strand	1338-1348	11	24
β-strand	1349	1	23
β-strand	1354-1357	4	25
α-helix	1358-1360	3
β-strand	1362	1	25
β-strand	1366-1368	3	24
α-helix	1369-1371	3
β-strand	1372-1374	3	24
β-strand	1377-1387	11	24
β-strand	1397-1402	6	25
α-helix	1403-1405	3
β-strand	1407-1412	6	25

Chain F: 7 helices, 9 β-strands

Element	Residues	Length	Sheet
β-strand	1502	1	26
α-helix	1505-1514	10
β-strand	1520	1	27
β-strand	1523	1	27
α-helix	1525-1536	12
β-strand	1539	1	26
β-strand	1543-1545	3	28
β-strand	1551-1553	3	28
β-strand	1558-1559	2	28
β-strand	1565	1	29
β-strand	1579	1	29
α-helix	1580-1584	5
α-helix	1589-1598	10
α-helix	1604-1607	4
α-helix	1609-1614	6
α-helix	1620-1624	5

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
light chain anti-lysozyme antibody F10.6.6	A, D	protein	212	Mus musculus	P01837 (AlphaFold model)
heavy chain VH+CH1 anti-lysozyme antibody F10.6.6	B, E	protein	218	Mus musculus	P01868 (AlphaFold model)
Lysozyme C	C, F	protein	129	Gallus gallus	P00698 (AlphaFold model)

Sequence of entity 1 (A, D), FASTA

>1P2C_1 light chain anti-lysozyme antibody F10.6.6 (chains A, D)
DIELTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYTSQSMSGIPS
RFSGSGSGTDFTLSINSVETEDFGVYFCQQSGSWPRTFGGGTKLDIKRADAAPTVSIFPP
SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLT
LTKDEYERHNSYTCEATHKTSTSPIVKSFNRN

Sequence of entity 2 (B, E), FASTA

>1P2C_2 heavy chain VH+CH1 anti-lysozyme antibody F10.6.6 (chains B, E)
EVQLQESGAELMKPGASVKISCKATGYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYY
NEKVKGKVTFTADASSNTAYMQLSSLTSEDSAVYYCARGDGFYVYWGQGTTLTVSSASTT
PPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTL
SSSVTVPSSPWPSETVTCNVAHPASSTKVDKKIVPRDC

Sequence of entity 3 (C, F), FASTA

>1P2C_3 Lysozyme C (chains C, F)
KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINS
RWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDV
QAWIRGCRL

Primary citation

Structural mechanism for affinity maturation of an anti-lysozyme antibody. Cauerhff, A., Goldbaum, F.A., Braden, B.C. Proc Natl Acad Sci U S A (2004) 101:3539-3544. DOI 10.1073/pnas.0400060101 · PubMed

Other PDB entries of the same protein (UniProt P01837 (AlphaFold model), which also has an AlphaFold model), best resolution first:

3D9A 1.2 Å, High Resolution Crystal Structure Structure of HyHel10 Fab Complexed to Hen Egg Lysozyme
1RUR 1.5 Å, Crystal Structure (I) of native Diels-Alder antibody 13G5 Fab at pH 8.0 with a data set…
2AJU 1.5 Å, Cyrstal structure of cocaine catalytic antibody 7A1 Fab'
2AJV 1.5 Å, Crystal Structure of Cocaine catalytic Antibody 7A1 Fab' in Complex with Cocaine
2W60 1.5 Å, Anti citrullinated Collagen type 2 antibody acc4
2W9D 1.57 Å, Structure of Fab fragment of the ICSM 18 - anti-Prp therapeutic antibody at 1.57 A…
3BKJ 1.59 Å, Crystal structure of Fab wo2 bound to the n terminal domain of amyloid beta peptide (1-16)
3BAE 1.59 Å, Crystal structure of Fab WO2 bound to the N terminal domain of Amyloid beta peptide (1-28)
2R1Y 1.6 Å, Crystal structure of S25-2 Fab in complex with Kdo analogues
2R2B 1.6 Å, Crystal structure of S25-2 Fab in complex with Kdo analogues
3BKM 1.6 Å, Structure of anti-amyloid-beta Fab WO2 (Form A, P212121)
3CFB 1.6 Å, High-resolution structure of blue fluorescent antibody EP2-19G2 in complex with stilbene…

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