2XWB: Complement C3b

Crystal Structure of Complement C3b in complex with Factors B and D. Determined by X-ray diffraction at 3.49 Å resolution. Released 12 Jan 2011.

Method
X-ray diffraction
Resolution
3.49 Å
Organism
HOMO SAPIENS
Chains
8
Atoms
39,285
Mol. weight
566.82 kDa
Ligands
MG, NAG
Released
12 Jan 2011

Explore 2XWB in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2XWB contains 168 α-helices and 360 β-strands across 8 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: 13 helices, 54 β-strands

ElementResiduesLengthSheet
β-strand311
β-strand5-952
β-strand11-1333
β-strand17-2372
β-strand2511
β-strand32-4093
β-strand48-5363
α-helix56-583
β-strand61-6772
β-strand82-9093
β-strand93-102103
β-strand107-11264
β-strand116-11725
β-strand122-13094
β-strand13614
β-strand140-14675
β-strand152-15985
β-strand166-17274
α-helix173-1742
β-strand180-18895
β-strand196-20275
β-strand210-21676
β-strand229-23796
α-helix2411
β-strand24216
α-helix2431
β-strand245-254107
β-strand259-271137
β-strand27216
β-strand275-28066
α-helix282-2887
β-strand29818
β-strand30018
β-strand301-310107
β-strand316-325107
β-strand332-33439
β-strand341-342210
β-strand348-35589
β-strand36119
β-strand367-369311
β-strand384-38969
α-helix3971
β-strand398-404711
α-helix411-4133
β-strand416-421611
β-strand422-423210
β-strand433-438612
β-strand443113
β-strand448-456912
α-helix462-4643
β-strand467-474814
β-strand477-485914
β-strand492-498712
α-helix4991
β-strand506-5151014
β-strand523-5321014
β-strand533113
β-strand542-545415
β-strand558-565815
β-strand570-572316
β-strand575-577317
α-helix578-5814
α-helix591-5999
α-helix613-6208
β-strand622-62652
β-strand63112
α-helix632-6343
Chain B: 36 helices, 57 β-strands
ElementResiduesLengthSheet
β-strand742118
β-strand748-749217
β-strand753-755316
β-strand761119
β-strand764119
β-strand765-772815
β-strand779-782417
β-strand785-787316
β-strand793-795316
α-helix796-7983
β-strand799-802417
β-strand807-812620
β-strand816-818321
β-strand823-831920
β-strand838-844718
α-helix845-8462
β-strand861118
β-strand864-866318
β-strand870-878920
β-strand886-894918
β-strand900-907818
β-strand908-910321
α-helix9111
β-strand914-921822
β-strand924-925222
β-strand932123
β-strand935-939523
α-helix941-9433
β-strand948122
α-helix9491
β-strand955-962822
β-strand966124
α-helix970-9745
α-helix975-9784
α-helix991-100919
α-helix1012-10154
α-helix1020-103516
β-strand1038125
β-strand1044125
α-helix1051-10522
α-helix1054-106411
α-helix1067-10693
α-helix1075-10839
α-helix1084-10885
α-helix1109-11113
α-helix1117-113014
α-helix1143-115412
α-helix1164-117512
α-helix1183-11908
β-strand1193126
β-strand1197126
α-helix1205-122117
α-helix1227-12359
α-helix1247-126014
β-strand1267124
β-strand1271-1277723
β-strand1285-1290623
β-strand1298-1302522
β-strand1309-1315723
β-strand1318-13281122
β-strand1339-1346827
β-strand1362-1370927
β-strand1376128
β-strand1379-1384629
β-strand1390-1391227
α-helix1393-14019
β-strand1405-1406229
α-helix1409-14124
α-helix1415-14173
β-strand1421-1423329
β-strand1425-1426229
β-strand1429128
β-strand1437-1442627
α-helix1450-14523
β-strand1453-1459729
β-strand1467-1471529
α-helix1476-14783
α-helix1479-14813
β-strand1482-1485430
β-strand1488-1491430
α-helix1507-15148
β-strand1519-15321431
β-strand1537-15481231
β-strand1559-1563531
α-helix1566-15683
α-helix1569-15724
β-strand1579-1585731
α-helix1586-15883
β-strand1598-1599231
β-strand1605-1608431
α-helix1612-16143
α-helix1621-163212
α-helix1633-16375
Chain C: 15 helices, 53 β-strands
ElementResiduesLengthSheet
β-strand3132
β-strand5-9533
β-strand11-13334
β-strand17-23733
β-strand25132
β-strand32-40934
β-strand48-53634
α-helix56-583
β-strand61-67733
β-strand82-90934
β-strand93-1021034
β-strand107-112635
β-strand116-117236
β-strand122-130935
β-strand136135
β-strand140-146736
β-strand152-159836
β-strand166-172735
α-helix173-1742
β-strand180-188936
β-strand196-202736
β-strand210-216737
β-strand229-237937
α-helix2411
β-strand242137
α-helix2431
β-strand245-2541038
β-strand259-2711338
β-strand272137
β-strand275-280637
α-helix282-2887
α-helix295-2973
β-strand298139
β-strand300139
β-strand301-3101038
β-strand316-3251038
β-strand332-334340
β-strand341-342241
β-strand348-355840
β-strand361140
β-strand367-369342
β-strand384-389640
α-helix3971
β-strand398-404742
α-helix411-4133
β-strand416-421642
β-strand422-423241
β-strand433-438643
β-strand443144
β-strand448-456943
α-helix462-4643
β-strand467-474845
β-strand477-485945
β-strand492-498743
α-helix4991
β-strand506-5151045
β-strand523-5321045
β-strand533144
β-strand542-545446
β-strand558-565846
β-strand570-577847
α-helix578-5814
α-helix591-5999
α-helix613-6208
β-strand622-626533
β-strand631133
α-helix632-6343
α-helix640-6412
Chain D: 34 helices, 52 β-strands
ElementResiduesLengthSheet
β-strand742148
β-strand748-749247
β-strand753-755347
β-strand765-772846
β-strand779-787947
β-strand793-795347
β-strand799-802447
β-strand807-812649
β-strand816-818348
β-strand823-831949
β-strand838-844748
α-helix845-8462
β-strand860-866748
β-strand870-878949
β-strand884-8941148
β-strand900-9101148
α-helix9111
β-strand914-921850
β-strand924-925250
β-strand932151
β-strand935-939551
α-helix941-9433
β-strand948150
α-helix9491
β-strand954-962950
β-strand966152
α-helix970-9745
α-helix975-9784
α-helix991-100919
α-helix1012-10154
α-helix1020-103516
β-strand1038153
β-strand1044153
α-helix1051-10522
α-helix1054-106411
α-helix1067-10693
α-helix1075-10839
α-helix1084-10885
α-helix1109-11113
α-helix1117-113014
α-helix1143-115412
α-helix1164-117512
α-helix1183-11908
β-strand1193154
β-strand1197154
α-helix1205-122117
α-helix1227-12359
α-helix1247-126014
β-strand1267152
β-strand1271-1277751
β-strand1285-1290651
β-strand1298-1302550
β-strand1309-1315751
β-strand1318-13281150
β-strand1339-1346855
β-strand1362-1370955
β-strand1376156
β-strand1379-1384657
β-strand1390-1391255
α-helix1393-14019
β-strand1405-1406257
α-helix1409-14124
α-helix1415-14173
β-strand1421-1423357
β-strand1425-1426257
β-strand1429156
β-strand1437-1442655
α-helix1450-14523
β-strand1453-1459757
β-strand1467-1471557
α-helix1476-14783
β-strand1482-1485458
β-strand1488-1491458
α-helix1507-15148
β-strand1519-15321459
β-strand1537-15481259
β-strand1559-1564659
α-helix1566-15683
α-helix1569-15724
β-strand1579-1585759
α-helix1586-15883
β-strand1598-1599259
β-strand1605-1608459
α-helix1612-16143
α-helix1621-163212
α-helix1633-16375
Chain F: 29 helices, 52 β-strands
ElementResiduesLengthSheet
α-helix11-133
β-strand19-20260
β-strand22160
β-strand23-27561
β-strand32-36561
α-helix37-382
β-strand41-44460
β-strand48-50361
β-strand51162
β-strand57162
α-helix58-592
β-strand61163
β-strand67163
β-strand71-75560
β-strand78164
β-strand87-90465
β-strand96164
β-strand101-106665
β-strand111-113366
β-strand117-119365
β-strand120167
β-strand126167
α-helix129-1313
β-strand132-134366
β-strand149-152468
β-strand161-166668
α-helix1671
β-strand171-173369
β-strand177-179368
β-strand180-181270
β-strand185-186270
β-strand192-194369
β-strand200171
α-helix202-21312
α-helix215-2184
β-strand244-251872
α-helix257-27620
α-helix2821
β-strand283-289772
β-strand293-297572
α-helix307-31610
α-helix319-3224
α-helix330-34112
β-strand356-363872
α-helix374-38310
α-helix395-3973
β-strand398-404772
α-helix411-4177
β-strand427-429372
β-strand430171
α-helix435-4428
α-helix449-4513
β-strand471-478873
β-strand482-490973
β-strand496-498373
α-helix509-5113
β-strand512-516573
β-strand523-530873
β-strand553-557573
β-strand571174
β-strand575175
α-helix576-5816
α-helix590-5978
β-strand602-610974
β-strand615-623974
α-helix628-6325
α-helix633-6375
α-helix641-6433
α-helix647-6493
β-strand655-658474
α-helix666-6694
α-helix671-6733
β-strand677-682674
β-strand685-6951174
β-strand700176
β-strand705176
β-strand715-719574
α-helix720-7223
α-helix724-7307
α-helix732-7343
β-strand738175
Chain H: 29 helices, 52 β-strands
ElementResiduesLengthSheet
α-helix11-133
β-strand19-20277
β-strand22177
β-strand23-27578
β-strand32-36578
α-helix37-382
β-strand41-44477
β-strand48-50378
β-strand51179
β-strand57179
α-helix58-592
β-strand61180
β-strand67180
β-strand71-75577
β-strand78181
β-strand87-90482
β-strand96181
β-strand101-106682
β-strand111-113383
β-strand117-119382
β-strand120184
β-strand126184
α-helix129-1313
β-strand132-134383
β-strand149-152485
β-strand161-166685
α-helix1671
β-strand171-173386
β-strand177-179385
β-strand180-181287
β-strand185-186287
β-strand192-194386
β-strand200188
α-helix202-21312
α-helix215-2184
β-strand244-251889
α-helix257-27620
α-helix2821
β-strand283-289789
β-strand293-297589
α-helix307-31610
α-helix319-3224
α-helix330-34011
β-strand356-363889
α-helix374-38310
α-helix395-3973
β-strand398-404789
α-helix411-4177
β-strand427-429389
β-strand430188
α-helix435-4428
α-helix449-4513
β-strand471-478890
β-strand482-490990
β-strand495-498490
α-helix509-5113
β-strand512-516590
β-strand523-530890
β-strand553-557590
β-strand571191
β-strand575192
α-helix576-5816
α-helix590-5978
β-strand602-610991
β-strand615-623991
α-helix628-6325
α-helix633-6375
α-helix641-6433
α-helix647-6493
β-strand655-658491
α-helix666-6694
α-helix671-6733
β-strand677-682691
β-strand685-6951191
β-strand700193
β-strand705193
β-strand715-719591
α-helix720-7223
α-helix724-7307
α-helix732-7343
β-strand738192
Chain I: 6 helices, 20 β-strands
ElementResiduesLengthSheet
β-strand2194
β-strand5-6295
α-helix7-82
β-strand15-20696
β-strand24-30796
β-strand35-38496
α-helix40-434
β-strand51-55596
β-strand59197
β-strand68-771096
β-strand91-95596
β-strand102198
β-strand105198
β-strand110195
α-helix116-1183
β-strand122-127695
β-strand140197
β-strand142-147695
α-helix151-1544
β-strand168-171495
β-strand177194
β-strand186-188395
β-strand193-197595
β-strand211-215595
α-helix216-2194
α-helix220-2267
Chain J: 6 helices, 20 β-strands
ElementResiduesLengthSheet
β-strand2199
β-strand5-62100
α-helix7-82
β-strand15-206101
β-strand24-307101
β-strand35-384101
α-helix40-445
β-strand51-555101
β-strand591102
β-strand68-7710101
β-strand91-955101
β-strand1021103
β-strand1051103
β-strand1101100
α-helix116-1183
β-strand122-1276100
β-strand1401102
β-strand142-1476100
α-helix151-1544
β-strand168-1714100
β-strand177199
β-strand186-1883100
β-strand193-1975100
β-strand211-2155100
α-helix216-2194
α-helix220-2267

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Complement C3B beta chainA, Cprotein642HOMO SAPIENSP01024 (AlphaFold model)
Complement C3B alpha' chainB, Dprotein912HOMO SAPIENSP01024 (AlphaFold model)
Complement factor BF, Hprotein732HOMO SAPIENSP00751 (AlphaFold model)
Complement factor DI, Jprotein228HOMO SAPIENSP00746 (AlphaFold model)
Sequence of entity 1 (A, C), FASTA
>2XWB_1 COMPLEMENT C3B BETA CHAIN (chains A, C)
SPMYSIITPNILRLESEETMVLEAHDAQGDVPVTVTVHDFPGKKLVLSSEKTVLTPATNH
MGNVTFTIPANREFKSEKGRNKFVTVQATFGTQVVEKVVLVSLQSGYLFIQTDKTIYTPG
STVLYRIFTVNHKLLPVGRTVMVNIENPEGIPVKQDSLSSQNQLGVLPLSWDIPELVNMG
QWKIRAYYENSPQQVFSTEFEVKEYVLPSFEVIVEPTEKFYYIYNEKGLEVTITARFLYG
KKVEGTAFVIFGIQDGEQRISLPESLKRIPIEDGSGEVVLSRKVLLDGVQNPRAEDLVGK
SLYVSATVILHSGSDMVQAERSGIPIVTSPYQIHFTKTPKYFKPGMPFDLMVFVTNPDGS
PAYRVPVAVQGEDTVQSLTQGDGVAKLSINTHPSQKPLSITVRTKKQELSEAEQATRTMQ
ALPYSTVGNSNNYLHLSVLRTELRPGETLNVNFLLRMDRAHEAKIRYYTYLIMNKGRLLK
AGRQVREPGQDLVVLPLSITTDFIPSFRLVAYYTLIGASGQREVVADSVWVDVKDSCVGS
LVVKSGQSEDRQPVPGQQMTLKIEGDHGARVVLVAVDKGVFVLNKKNKLTQSKIWDVVEK
ADIGCTPGSGKDYAGVFSDAGLTFTSSSGQQTAQRAELQCPQ
Sequence of entity 2 (B, D), FASTA
>2XWB_2 COMPLEMENT C3B ALPHA' CHAIN (chains B, D)
DEDIIAEENIVSRSEFPESWLWNVEDLKEPPKNGISTKLMNIFLKDSITTWEILAVSMSD
KKGICVADPFEVTVMQDFFIDLRLPYSVVRNEQVEIRAVLYNYRQNQELKVRVELLHNPA
FCSLATTKRRHQQTVTIPPKSSLSVPYVIVPLKTGLQEVEVKAAVYHHFISDGVRKSLKV
VPEGIRMNKTVAVRTLDPERLGREGVQKEDIPPADLSDQVPDTESETRILLQGTPVAQMT
EDAVDAERLKHLIVTPSGCGEENMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKK
GYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEK
QKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITK
AGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVE
ATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAPDHQE
LNLDVSLQLPSRSSKITHRIHWESASLLRSEETKENEGFTVTAEGKGQGTLSVVTMYHAK
AKDQLTCNKFDLKVTIKPAPETEKRPQDAKNTMILEICTRYRGDQDATMSILDISMMTGF
APDTDDLKQLANGVDRYISKYELDKAFSDRNTLIIYLDKVSHSEDDCLAFKVHQYFNVEL
IQPGAVKVYAYYNLEESCTRFYHPEKEDGKLNKLCRDELCRCAEENCFIQKSDDKVTLEE
RLDKACEPGVDYVYKTRLVKVQLSNDFDEYIMAIEQTIKSGSDEVQVGQQRTFISPIKCR
EALKLEEKKHYLMWGLSSDFWGEKPNLSYIIGKDTWVEHWPEEDECQDEENQKQCQDLGA
FTESMVVFGCPN
Sequence of entity 3 (F, H), FASTA
>2XWB_3 COMPLEMENT FACTOR B (chains F, H)
GSCSLEGVEIKGGSFRLLQEGQALEYVCPSGFYPYPVQTRTCRSTGSWSTLKTQDQKTVR
KAECRAIHCPRPHDFENGEYWPRSPYYNVSDEISFHCYDGYTLRGSANRTCQVNGRWSGQ
TAICDNGAGYCSNPGIPIGTRKVGSQYRLEDSVTYHCSRGLTLRGSQRRTCQEGGSWSGT
EPSCQDSFMYDTPQEVAEAFLSSLTETIEGVDAEDGHGPGEQQKRKIVLDPSGSMNIYLV
LDGSGSIGASDFTGAKKCLVNLIEKVASYGVKPRYGLVTYATYPKIWVKVSEADSSNADW
VTKQLNEINYEDHKLKSGTNTKKALQAVYSMMSWPDDVPPEGWNRTRHVIILMTDGLHNM
GGDPITVIDEIRDLLYIGKDRKNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFK
VKDMENLEDVFYQMIDESQSLSLCGMVWEHRKGTDYHKQPWQAKISVIRPSKGHESCMGA
VVSEYFVLTAAHCFTVDDKEHSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYD
YDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVS
EEEKKLTRKEVYIKNGDKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNT
CRGDSGGPLIVHKRSRFIQVGVISWGVVDVCKNQKRQKQVPAHARDFHINLFQVLPWLKE
KLQDEDLGFLAA
Sequence of entity 4 (I, J), FASTA
>2XWB_4 COMPLEMENT FACTOR D (chains I, J)
ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSL
SQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPG
TLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCK
GDAGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg4
NAG2-acetamido-2-deoxy-beta-D-glucopyranoseC8 H15 N O65

Water and common crystallization additives (GOL) are not listed.

Primary citation

Structures of C3B in Complex with Factors B and D Give Insight Into Complement Convertase Formation. Forneris, F., Ricklin, D., Wu, J. et al. Science (2010) 330:1816. DOI 10.1126/SCIENCE.1195821 · PubMed

Other PDB entries of the same protein (UniProt P01024 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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