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(-) Description

Title :  COMPLEMENT FACTOR D INHIBITED WITH JH3
 
Authors :  J. A. Stuckey
Date :  14 Sep 16  (Deposition) - 19 Oct 16  (Release) - 04 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.15
Chains :  Asym. Unit :  A,B,C,D,E,F,G
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Biol. Unit 7:  G  (1x)
Keywords :  Serine Protease, Inhibitor, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Y. Yang, J. G. Phillips, J. A. Stuckey, L. Bai, H. Sun, J. Delproposto W. C. Brown, K. Chinnaswamy
Buried Hydrogen Bond Interactions Contribute To The High Potency Of Complement Factor D Inhibitors.
Acs Med Chem Lett V. 7 1092 2016
PubMed-ID: 27994744  |  Reference-DOI: 10.1021/ACSMEDCHEMLETT.6B00299

(-) Compounds

Molecule 1 - COMPLEMENT FACTOR D
    Chains: A, B, C, D, E, F, G
    EC Number: 3.4.21.46
    Engineered: YES
    Expression System: UNIDENTIFIED BACULOVIRUS
    Expression System Taxid: 10469
    Fragment: RESIDUES 26-253
    Gene: CFD, DF, PFD
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ADIPSIN,C3 CONVERTASE ACTIVATOR,PROPERDIN FACTOR D

 Structural Features

(-) Chains, Units

  1234567
Asymmetric Unit : ABCDEFG
Biological Unit 1 (1x): A      
Biological Unit 2 (1x):  B     
Biological Unit 3 (1x):   C    
Biological Unit 4 (1x):    D   
Biological Unit 5 (1x):     E  
Biological Unit 6 (1x):      F 
Biological Unit 7 (1x):       G

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric Unit (1, 9)
No.NameCountTypeFull Name
1J559Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1J551Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1J551Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1J552Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 4 (1, 2)
No.NameCountTypeFull Name
1J552Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 5 (1, 1)
No.NameCountTypeFull Name
1J551Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 6 (1, 1)
No.NameCountTypeFull Name
1J551Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE
Biological Unit 7 (1, 1)
No.NameCountTypeFull Name
1J551Ligand/Ion1-(2-{(2S)-2-[(6-BROMOPYRIDIN-2-YL)CARBAMOYL]-1,3-THIAZOLIDIN-3-YL}-2-OXOETHYL)-1H-PYRAZOLO[3,4-B]PYRIDINE-3-CARBOXAMIDE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:40 , HIS A:56 , CYS A:57 , TRP A:143 , ARG A:152 , CYS A:194 , LYS A:195 , GLY A:196 , SER A:198 , VAL A:212 , THR A:213 , SER A:214 , GLY A:215 , SER A:216 , ARG A:217 , HIS C:148 , ALA C:149binding site for residue J55 A 500
2AC2SOFTWARELEU B:40 , HIS B:56 , CYS B:57 , TRP B:143 , ARG B:152 , CYS B:194 , LYS B:195 , GLY B:196 , SER B:198 , VAL B:212 , THR B:213 , SER B:214 , GLY B:215 , SER B:216 , ARG B:217 , CYS B:219binding site for residue J55 B 500
3AC3SOFTWAREALA A:149 , LEU C:40 , HIS C:56 , CYS C:57 , TRP C:143 , SER C:193 , CYS C:194 , LYS C:195 , GLY C:196 , SER C:198 , VAL C:212 , THR C:213 , SER C:214 , GLY C:215 , SER C:216 , ARG C:217 , CYS C:219binding site for residue J55 C 301
4AC4SOFTWAREALA A:62 , VAL A:66 , VAL A:87 , ALA A:90 , GLY C:18 , ARG C:20 , GLY C:135 , LEU C:137 , HIS C:158 , LEU C:160 , ARG C:191binding site for residue J55 C 302
5AC5SOFTWARELEU D:40 , HIS D:56 , CYS D:57 , TRP D:143 , SER D:193 , CYS D:194 , LYS D:195 , GLY D:196 , SER D:198 , VAL D:212 , THR D:213 , SER D:214 , GLY D:215 , SER D:216 , ARG D:217 , ALA F:149binding site for residue J55 D 301
6AC6SOFTWAREGLY D:135 , LEU D:137 , LEU D:160 , GLU D:187 , ARG D:191 , ALA E:62 , ASP E:63 , GLY E:64 , VAL E:66 , ALA E:90binding site for residue J55 D 302
7AC7SOFTWARELEU E:40 , HIS E:56 , CYS E:57 , ASP E:60 , TRP E:143 , ARG E:152 , SER E:193 , CYS E:194 , LYS E:195 , GLY E:196 , SER E:198 , VAL E:212 , THR E:213 , SER E:214 , GLY E:215 , SER E:216 , ARG E:217 , CYS E:219binding site for residue J55 E 500
8AC8SOFTWAREALA D:149 , LEU F:40 , HIS F:56 , CYS F:57 , TRP F:143 , CYS F:194 , LYS F:195 , GLY F:196 , SER F:198 , VAL F:212 , THR F:213 , SER F:214 , GLY F:215 , SER F:216 , ARG F:217binding site for residue J55 F 500
9AC9SOFTWARELEU G:40 , HIS G:56 , CYS G:57 , TRP G:143 , CYS G:194 , LYS G:195 , GLY G:196 , SER G:198 , VAL G:212 , THR G:213 , SER G:214 , GLY G:215 , SER G:216 , ARG G:217binding site for residue J55 G 500

(-) SS Bonds  (28, 28)

Asymmetric Unit
No.Residues
1A:41 -A:57
2A:138 -A:204
3A:169 -A:185
4A:194 -A:219
5B:41 -B:57
6B:138 -B:204
7B:169 -B:185
8B:194 -B:219
9C:41 -C:57
10C:138 -C:204
11C:169 -C:185
12C:194 -C:219
13D:41 -D:57
14D:138 -D:204
15D:169 -D:185
16D:194 -D:219
17E:41 -E:57
18E:138 -E:204
19E:169 -E:185
20E:194 -E:219
21F:41 -F:57
22F:138 -F:204
23F:169 -F:185
24F:194 -F:219
25G:41 -G:57
26G:138 -G:204
27G:169 -G:185
28G:194 -G:219

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5TCA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TCA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TCA)

(-) Exons   (0, 0)

(no "Exon" information available for 5TCA)

(-) 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:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee...eeeeeeeee..eeeehhhhh.......eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeeeeehhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca A  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        


Chain B from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee...eeeeeeeee..eeeehhhhhh......eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeeeeehhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca B  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        


Chain C from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee...eeeeeeeee..eeeehhhhhh......eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeee..hhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca C  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        


Chain D from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee...eeeeeeeee..eeeehhhhhh......eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeeeeehhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca D  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        


Chain E from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee..eeeeeeeeee..eeee............eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeeeeehhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca E  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        


Chain F from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee...eeeeeeeee..eeee............eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeeeeehhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca F  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235        


Chain G from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee........eeeeee...eeeeeeeee..eeeehhhhhh......eeeee............eeeeeeeeee.............eeeee..........................eeeeee..............eeeeeeeehhhhhh............eeee..............eeee..eeeeee.............eeeee...hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tca G  16 ILGGREAEAHARPYMASVQLNGAHLCGGVLVAEQWVLSAAHCLEDAADGKVQVLLGAHSLSQPEPSKRLYDVLRAVPHPDSQPDTIDHDLLLLQLSEKATLGPAVRPLPWQRVDRDVAPGTLCDVAGWGIVNHAGRRPDSLQHVLLPVLDRATCNRRTHHDGAITERLMCAESNRRDSCKGDSGGPLVCGGVLEGVVTSGSRVCGNRKKPGIYTRVASYAAWIDSVLA 243
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235
   Legend:   → Mismatch (orange background)
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  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 5TCA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5TCA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TCA)

(-) Gene Ontology  (14, 14)

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  5tca
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 Related Entries

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

UniProtKB/Swiss-Prot
        CFAD_HUMAN | P00746: 1bio 1dfp 1dic 1dst 1dsu 1fdp 1hfd 2xw9 2xwa 2xwb 4cbn 4cbo 4d9r 5fbe 5fbi 5fck 5mt0 5mt4 5nar 5naw 5nb6 5nb7 5nba 5tcc

(-) Related Entries Specified in the PDB File

5tcc