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(-) Description

Title :  TERNARY HOST RECOGNITION COMPLEX OF COMPLEMENT FACTOR H, C3D, AND SIALIC ACID
 
Authors :  B. S. Blaum, T. S. Stehle
Date :  29 Jan 14  (Deposition) - 26 Nov 14  (Release) - 14 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  B,F  (1x)
Biol. Unit 2:  A,E  (1x)
Biol. Unit 3:  C,D  (1x)
Keywords :  Complement Control Protein, Ccp, Short Consensus Repeat, Scr, Sushi Domain, Complement Regulation, Sialic Acid, Host Glycan, Host Cell Surface, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. S. Blaum, J. P. Hannan, A. P. Herbert, D. Kavanagh, D. Uhrin, T. Stehl
Structural Basis For Sialic Acid-Mediated Self-Recognition By Complement Factor H.
Nat. Chem. Biol. V. 11 77 2015
PubMed-ID: 25402769  |  Reference-DOI: 10.1038/NCHEMBIO.1696

(-) Compounds

Molecule 1 - COMPLEMENT FACTOR H
    Chains: F, D, E
    Engineered: YES
    Expression System: KOMAGATAELLA PASTORIS
    Expression System Common: PICHIA PASTORIS
    Expression System Taxid: 4922
    Fragment: SUSHI 19-20 DOMAINS (UNP RESIDUES 1107-1231)
    Gene: CFH, HF, HF1, HF2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: H FACTOR 1
 
Molecule 2 - COMPLEMENT C3D FRAGMENT
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 996-1303
    Gene: C3, CPAMD1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: C3D

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x):  B   F
Biological Unit 2 (1x): A   E 
Biological Unit 3 (1x):   CD  

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 16)

Asymmetric Unit (4, 16)
No.NameCountTypeFull Name
1BGC3Ligand/IonBETA-D-GLUCOSE
2GAL3Ligand/IonBETA-D-GALACTOSE
3GOL7Ligand/IonGLYCEROL
4SIA3Ligand/IonO-SIALIC ACID
Biological Unit 1 (4, 6)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GOL3Ligand/IonGLYCEROL
4SIA1Ligand/IonO-SIALIC ACID
Biological Unit 2 (4, 5)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GOL2Ligand/IonGLYCEROL
4SIA1Ligand/IonO-SIALIC ACID
Biological Unit 3 (4, 5)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GOL2Ligand/IonGLYCEROL
4SIA1Ligand/IonO-SIALIC ACID

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:84 , GLU A:127 , PRO A:130 , VAL A:131 , GLN A:134 , LEU A:140 , HOH A:520BINDING SITE FOR RESIDUE GOL A 401
02AC2SOFTWAREASP B:36 , GLU B:37 , LYS B:291 , GLU D:1175 , LYS D:1202BINDING SITE FOR RESIDUE GOL B 401
03AC3SOFTWAREGLU B:160 , GLN B:205 , ARG D:1203BINDING SITE FOR RESIDUE GOL B 402
04AC4SOFTWARESER B:82 , TRP B:84 , GLU B:127 , PRO B:130 , VAL B:131 , GLN B:134 , HOH B:535 , HOH B:619BINDING SITE FOR RESIDUE GOL B 403
05AC5SOFTWAREGLY A:207 , LYS A:210 , TYR C:273BINDING SITE FOR RESIDUE GOL C 401
06AC6SOFTWARETRP C:84 , GLU C:127 , PRO C:130 , VAL C:131 , GLN C:134BINDING SITE FOR RESIDUE GOL C 402
07AC7SOFTWARELEU B:64 , TRP E:1219 , HOH E:1413BINDING SITE FOR RESIDUE GOL E 1304
08AC8SOFTWAREGLN B:105 , ARG D:1182 , TRP D:1183 , LYS D:1188 , TYR D:1190 , SER D:1191 , GLU D:1195 , SER D:1196 , VAL D:1197 , GLU D:1198 , ARG D:1215 , HOH D:1427 , SER F:1126BINDING SITE FOR CHAIN D OF POLYSACCHARIDE RESIDUES 1301 TO 1303
09AC9SOFTWARELYS B:78 , GLN C:105 , GLU C:167 , GLN C:168 , ARG E:1182 , TRP E:1183 , TYR E:1190 , SER E:1191 , GLU E:1195 , SER E:1196 , VAL E:1197 , GLU E:1198 , ARG E:1215 , HOH E:1419 , HOH E:1432 , HOH E:1446BINDING SITE FOR CHAIN E OF POLYSACCHARIDE RESIDUES 1301 TO 1303
10BC1SOFTWAREARG F:1182 , TRP F:1183 , LEU F:1189 , TYR F:1190 , SER F:1191 , GLU F:1195 , SER F:1196 , GLU F:1198 , ARG F:1215BINDING SITE FOR CHAIN F OF POLYSACCHARIDE RESIDUES 1301 TO 1303

(-) SS Bonds  (15, 15)

Asymmetric Unit
No.Residues
1A:108 -A:165
2B:108 -B:165
3C:108 -C:165
4D:1109 -D:1152
5D:1138 -D:1163
6D:1167 -D:1218
7D:1201 -D:1228
8E:1109 -E:1152
9E:1138 -E:1163
10E:1167 -E:1218
11E:1201 -E:1228
12F:1109 -F:1152
13F:1138 -F:1163
14F:1167 -F:1218
15F:1201 -F:1228

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4ONT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ONT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ONT)

(-) Exons   (0, 0)

(no "Exon" information available for 4ONT)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:295
                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..............hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh....hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ont A    0 EFRDAERLKHLIVTPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAP  294
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289     


Chain B from PDB  Type:PROTEIN  Length:292
                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..............hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhh....hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ont B   13 TPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRGYGSTQATFMVFQALAQYQKDAPDHQELLDVSLQLPS  309
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262    || 276       286       296  ||   307  
                                                                                                                                                                                                                                                                                        267|                        299|        
                                                                                                                                                                                                                                                                                         272                         301        


Chain C from PDB  Type:PROTEIN  Length:292
                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh.......hhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..............hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ont C    3 DAERLKHLIVTPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAP  294
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292  


Chain D from PDB  Type:PROTEIN  Length:126
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............eee............eeeeee....eee...eeeee..ee....eee..ee.hhhhhhhhheee........ee....eeeeee...eee.......eee..........eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                4ont D 1106 FGKCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKR 1231
                                  1115      1125      1135      1145      1155      1165      1175      1185      1195      1205      1215      1225      


Chain E from PDB  Type:PROTEIN  Length:126
                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............eee............eeeeee....eee...eeeee..ee....eee..ee.hhhhhhhhheee........ee....eeeeee...eee.......eeeee..ee....eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                4ont E 1106 FGKCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKR 1231
                                  1115      1125      1135      1145      1155      1165      1175      1185      1195      1205      1215      1225      


Chain F from PDB  Type:PROTEIN  Length:124
                                                                                                                                                             
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee............eeeeee....eee...eee..........eee..eeehhhhhhhhheee.......eee...eeeeeee....ee.......eeee.........ee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                4ont F 1108 KCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKR 1231
                                  1117      1127      1137      1147      1157      1167      1177      1187      1197      1207      1217      1227
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4ONT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ONT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ONT)

(-) Gene Ontology  (49, 59)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CFAH_HUMAN | P08603: 1fhc 1haq 1hcc 1hfh 1hfi 1kov 2bzm 2g7i 2ic4 2jgw 2jgx 2kms 2qfg 2qfh 2rlp 2rlq 2uwn 2v8e 2w80 2w81 2wii 2xqw 3gau 3gav 3gaw 3kxv 3kzj 3oxu 3r62 3rj3 3sw0 4ayd 4aye 4ayi 4aym 4b2r 4b2s 4j38 4k12 4zh1 5o32 5o35
        CO3_HUMAN | P01024: 1c3d 1ghq 1w2s 2a73 2a74 2gox 2i07 2ice 2icf 2noj 2qki 2wii 2win 2wy7 2wy8 2xqw 2xwb 2xwj 3d5r 3d5s 3g6j 3l3o 3l5n 3nms 3oed 3ohx 3oxu 3rj3 3t4a 4hw5 4hwj 4i6o 4m76 4zh1 5fo7 5fo8 5fo9 5foa 5fob 5m6w 5o32 5o35

(-) Related Entries Specified in the PDB File

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