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(-) Description

Title :  COMPLEMENT FACTOR H IN COMPLEX WITH THE GM1 GLYCAN
 
Authors :  B. S. Blaum, T. Stehle
Date :  24 Apr 15  (Deposition) - 13 Jan 16  (Release) - 13 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.24
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,E  (1x)
Biol. Unit 2:  B,F  (1x)
Biol. Unit 3:  C,D  (1x)
Keywords :  Lectin, Ganglioside, Innate Immunity, Glycans, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. S. Blaum, M. Frank, R. C. Walker, U. Neu, T. Stehle
Complement Factor H And Simian Virus 40 Bind The Gm1 Ganglioside In Distinct Conformations.
Glycobiology V. 26 532 2016
PubMed-ID: 26715202  |  Reference-DOI: 10.1093/GLYCOB/CWV170

(-) Compounds

Molecule 1 - COMPLEMENT C3
    ChainsA, B, C
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    GeneC3, CPAMD1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymC3 AND PZP-LIKE ALPHA-2-MACROGLOBULIN DOMAIN-CONTAINING PROTEIN 1
 
Molecule 2 - COMPLEMENT FACTOR H
    ChainsD, E, F
    EngineeredYES
    Expression SystemPICHIA
    Expression System Taxid4919
    FragmentRESIDUES 1107-1231
    GeneCFH, HF, HF1, HF2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymH FACTOR 1

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 15)

Asymmetric Unit (5, 15)
No.NameCountTypeFull Name
1BGC2Ligand/IonBETA-D-GLUCOSE
2GAL4Ligand/IonBETA-D-GALACTOSE
3GOL4Ligand/IonGLYCEROL
4NGA2Ligand/IonN-ACETYL-D-GALACTOSAMINE
5SIA3Ligand/IonO-SIALIC ACID
Biological Unit 1 (5, 6)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL2Ligand/IonBETA-D-GALACTOSE
3GOL1Ligand/IonGLYCEROL
4NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE
5SIA1Ligand/IonO-SIALIC ACID
Biological Unit 2 (5, 5)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GOL1Ligand/IonGLYCEROL
4NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE
5SIA1Ligand/IonO-SIALIC ACID
Biological Unit 3 (3, 4)
No.NameCountTypeFull Name
1BGC-1Ligand/IonBETA-D-GLUCOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GOL2Ligand/IonGLYCEROL
4NGA-1Ligand/IonN-ACETYL-D-GALACTOSAMINE
5SIA1Ligand/IonO-SIALIC ACID

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:84 , GLU A:127 , PRO A:130 , VAL A:131 , GLN A:134 , LEU A:140 , HOH A:587binding site for residue GOL A 401
2AC2SOFTWARETRP B:84 , GLU B:127 , PRO B:130 , VAL B:131 , GLN B:134binding site for residue GOL B 401
3AC3SOFTWARETRP C:84 , GLU C:127 , PRO C:130 , VAL C:131 , GLN C:134binding site for residue GOL C 401
4AC4SOFTWAREGLU B:37 , LYS B:291 , GLU D:1175 , LYS D:1202 , HOH D:1465binding site for residue GOL D 1303
5AC5SOFTWAREILE D:1169 , ARG D:1182 , TRP D:1183 , LYS D:1188 , SER D:1191 , GLU D:1195 , SER D:1196 , VAL D:1197 , GLU D:1198 , ARG D:1215binding site for Poly-Saccharide residues GAL D 1301 through SIA D 1302
6AC6SOFTWAREVAL B:77 , LYS B:78 , SER C:104 , GLN C:105 , GLN C:168 , ARG E:1182 , TRP E:1183 , LYS E:1188 , TYR E:1190 , GLU E:1195 , SER E:1196 , GLU E:1198 , ARG E:1215 , HOH E:1406 , HOH E:1409 , HOH E:1410 , HOH E:1414binding site for Poly-Saccharide residues BGC E 1301 through GAL E 1305
7AC7SOFTWAREVAL B:77 , LYS B:78 , SER C:104 , GLN C:105 , GLN C:168 , ARG E:1182 , TRP E:1183 , LYS E:1188 , TYR E:1190 , GLU E:1195 , SER E:1196 , GLU E:1198 , ARG E:1215 , HOH E:1406 , HOH E:1409 , HOH E:1410 , HOH E:1414 , LEU F:1181 , ARG F:1182 , TRP F:1183 , TYR F:1190 , SER F:1191 , GLU F:1195 , SER F:1196 , GLU F:1198 , ARG F:1215binding site for Poly-Saccharide residues BGC F 1301 through NGA F 1304

(-) SS Bonds  (14, 14)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4ZH1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ZH1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ZH1)

(-) Exons   (0, 0)

(no "Exon" information available for 4ZH1)

(-) 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:293
                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..............hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zh1 A    2 RDAERLKHLIVTPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAP  294
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291   

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..hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..............hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zh1 B   12 VTPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYGSTQATFMVFQALAQYQKDAPDHQELNLDVSLQLP  308
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261     ||276       286       296       306  
                                                                                                                                                                                                                                                                                         267|                                   
                                                                                                                                                                                                                                                                                          273                                   

Chain C from PDB  Type:PROTEIN  Length:291
                                                                                                                                                                                                                                                                                                                                    
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..............hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh...hhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4zh1 C    4 AERLKHLIVTPSGAGEQNMIGMTPTVIAVHYLDETEQWEKFGLEKRQGALELIKKGYTQQLAFRQPSSAFAAFVKRAPSTWLTAYVVKVFSLAVNLIAIDSQVLCGAVKWLILEKQKPDGVFQEDAPVIHQEMIGGLRNNNEKDMALTAFVLISLQEAKDICEEQVNSLPGSITKAGDFLEANYMNLQRSYTVAIAGYALAQMGRLKGPLLNKFLTTAKDKNRWEDPGKQLYNVEATSYALLALLQLKDFDFVPPVVRWLNEQRYYGGGYGSTQATFMVFQALAQYQKDAP  294
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293 

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.hhhhhhhh.eee........ee....eeeeee...eee.......eee..........eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                4zh1 D 1106 FGKCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKR 1231
                                  1115      1125      1135      1145      1155      1165      1175      1185      1195      1205      1215      1225      

Chain E from PDB  Type:PROTEIN  Length:122
                                                                                                                                                           
               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
                4zh1 E 1107 GKCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKR 1231
                                  1116      1126      1136      1146      1156      1166      1176      1189      1199      1209      1219      1229  
                                                                                                      1184|                                           
                                                                                                       1188                                           

Chain F from PDB  Type:PROTEIN  Length:104
                                                                                                                                         
               SCOP domains -------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee............eeeeee....eee...eee..........eee..eeehhhhhhhhh..........eee..................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                4zh1 F 1109 CGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFTLRTTCWDGKLEY 1225
                                  1118      1128      1138      1148      1158      1168      1178      1188      1198||    1221    
                                                                                                                   1199|            
                                                                                                                    1213            

   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 4ZH1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ZH1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ZH1)

(-) Gene Ontology  (49, 59)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CFAH_HUMAN | P086031fhc 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 4ont 5o32 5o35
        CO3_HUMAN | P010241c3d 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 4ont 5fo7 5fo8 5fo9 5foa 5fob 5m6w 5o32 5o35

(-) Related Entries Specified in the PDB File

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