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(-) Description

Title :  FACTOR B SERINE PROTEASE DOMAIN
 
Authors :  H. Jing, Y. Xu, M. Carson, D. Moore, K. J. Macon, J. E. Volanakis, S. V. Narayana
Date :  09 Dec 99  (Deposition) - 13 Dec 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Serine Protease, Complement System, Factor B, Protein- Protein Interaction, Activation Mechanism, Beta-Barrel Fold, , Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Jing, Y. Xu, M. Carson, D. Moore, K. J. Macon, J. E. Volanakis, S. V. Narayana
New Structural Motifs On The Chymotrypsin Fold And Their Potential Roles In Complement Factor B.
Embo J. V. 19 164 2000
PubMed-ID: 10637221  |  Reference-DOI: 10.1093/EMBOJ/19.2.164
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - COMPLEMENT FACTOR B
    ChainsA, B
    FragmentSERINE PROTEASE DOMAIN
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    TissueBLOOD

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1DLE)

(-) Sites  (0, 0)

(no "Site" information available for 1DLE)

(-) SS Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1A:1 -A:122
2A:42 -A:58
3A:125 -A:125P
4A:168 -A:182
5A:191 -A:220
6B:1 -B:122
7B:42 -B:58
8B:125 -B:125P
9B:168 -B:182
10B:191 -B:220

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser A:186A-Pro A:186B
2Ser B:186A-Pro B:186B

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (4, 8)

Asymmetric/Biological Unit (4, 8)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_006495A736SCFAB_HUMANPolymorphism  ---A/BA222S
2UniProtVAR_063664K533RCFAB_HUMANDisease (AHUS4)149101394A/BK62BR
3UniProtVAR_016277K565ECFAB_HUMANPolymorphism4151659A/BK97CE
4UniProtVAR_016278D651ECFAB_HUMANPolymorphism4151660A/BD164BE

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (3, 6)

Asymmetric/Biological Unit (3, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.CFAB_HUMAN477-757
 
  2A:1A-243
B:1A-243
2TRYPSIN_HISPS00134 Serine proteases, trypsin family, histidine active site.CFAB_HUMAN522-527
 
  2A:53-58
B:53-58
3TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.CFAB_HUMAN693-704
 
  2A:189-200
B:189-200

(-) Exons   (0, 0)

(no "Exon" information available for 1DLE)

(-) Sequences/Alignments

Asymmetric/Biological 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:288
 aligned with CFAB_HUMAN | P00751 from UniProtKB/Swiss-Prot  Length:764

    Alignment length:349
                                   425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755         
          CFAB_HUMAN    416 KNPREDYLDVYVFGVGPLVNQVNINALASKKDNEQHVFKVKDMENLEDVFYQMIDESQSLSLCGMVWEHRKGTDYHKQPWQAKISVIRPSKGHESCMGAVVSEYFVLTAAHCFTVDDKEHSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYDYDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVSEEEKKLTRKEVYIKNGDKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNTCRGDSGGPLIVHKRSRFIQVGVISWGVVDVCKNQKRQKQVPAHARDFHINLFQVLPWLKEKLQDEDLGFL  764
               SCOP domains d1d                                                   lea_ A: Fact    or B                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ---                                                   --------1dle    A01 A:1-120,A:233-248 Trypsin-like serine proteases                                                          1dleA02 A:121-229 Trypsin-like serine proteases                                                                                                      ---1dleA01         -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...---------------------------------------------------.hhhhhh.....----..hhhhhh..eeeeee.......eeeeeee....eeeehhhhh........eeeee........eeeeee........hhhhh.........eeeee.................hhhhhhhh......hhhhhhhhhh...eeeeeeeeee..eeeeeeeeee...hhhhhhhhhhhh.......hhhhh....eeeee..........hhhhh..eeee......eeeeeeeee......------.hhhh.eeeeee...hhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------R-------------------------------E-------------------------------------------------------------------------------------E------------------------------------------------------------------------------------S---------------------------- SAPs(SNPs)
                PROSITE (1) -------------------------------------------------------------TRYPSIN_DOM  PDB: A:1A-243 UniProt: 477-757                                                                                                                                                                                                                                              ------- PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------------------------------TRYPSI---------------------------------------------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1dle A   1K ADP---------------------------------------------------DESQSLSLCGMV----KGTDYHKQPWQAKISVIRPSKGHESCMGAVVSEYFVLTAAHCFTVDDKEHSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYDYDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVSEEEKKLTRKEVYIKNGDKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNTCRGDSGGPLIVHKRSRFIQVGVISWGVVDVCK------QVPAHARDFHINLFQVLPWLKEKLQDEDLGFL  250
                            |||      -         -         -         -         -    ||||1C||   |   -|       29       36C        46        56      |62D       |80        90       97C|||||| 101       111       121    ||125F||||||125P||||   131       141  ||   160    |||167     |172E|||||||175       185 ||||  191       201       211       220|      221       231       241         
                            |||                                                  1H|||||||   4   20              36A||                        62A|||      70|                97A||||||||                         125A|||||125J|||||125S|                144|       164A||     172A|||||172J||           186A|||                             218A  |   220H|                              
                           1K||                                                   1G||||||                        36B|                         62B||       79                 97B|||||||                          125B|||||125K|||||125T                 154        164B|      172B|||||172K|            186B||                                220A    220I                              
                            1J|                                                    1F|||||                         36C                          62C|                           97C||||||                           125C|||||125L||||||                               164C       172C|||||172L             186C|                                                                          
                             1I                                                     1E||||                                                       62D                            97D|||||                            125D|||||125M|||||                                           172D|||||                 186D                                                                          
                                                                                     1D|||                                                                                       97E||||                             125E|||| 125N||||                                            172E||||                                                                                               
                                                                                      1C||                                                                                        97F|||                              125F|||  125O|||                                             172F|||                                                                                               
                                                                                       1B|                                                                                         97G||                               125G||   125P||                                              172G||                                                                                               
                                                                                        1A                                                                                          97H|                                125H|    125Q|                                               172H|                                                                                               
                                                                                                                                                                                     97I                                 125I     125R                                                172I                                                                                               

Chain B from PDB  Type:PROTEIN  Length:282
 aligned with CFAB_HUMAN | P00751 from UniProtKB/Swiss-Prot  Length:764

    Alignment length:289
                                   485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725       735       745       755         
          CFAB_HUMAN    476 SLCGMVWEHRKGTDYHKQPWQAKISVIRPSKGHESCMGAVVSEYFVLTAAHCFTVDDKEHSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYDYDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVSEEEKKLTRKEVYIKNGDKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNTCRGDSGGPLIVHKRSRFIQVGVISWGVVDVCKNQKRQKQVPAHARDFHINLFQVLPWLKEKLQDEDLGFL  764
               SCOP domains d1dleb_ B: Factor B                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains --1dleB01 B:1-120,B:233-248 Trypsin-like serine proteases                                                              1dleB02 B:121-229 Trypsin-like serine proteases                                                                                                      ---1dleB01         -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhh..eeeeee.......eeeeeee....eeeehhhhh........eeeee........eeeeee........hhhhh.........eeeee.................hhhhhhhh......hhhhhhhhhh...eeeeeeeeee..eeeeeeeeee...hhhhhhhhhhhh.......hhhhh....eeeee..........hhhhh..eeeeee..eeeeeeeeeee......-------hhhh.eeeeee...hhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------R-------------------------------E-------------------------------------------------------------------------------------E------------------------------------------------------------------------------------S---------------------------- SAPs(SNPs)
                PROSITE (1) -TRYPSIN_DOM  PDB: B:1A-243 UniProt: 477-757                                                                                                                                                                                                                                              ------- PROSITE (1)
                PROSITE (2) ----------------------------------------------TRYPSI---------------------------------------------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1dle B   1B SLCGMVWEHRKGTDYHKQPWQAKISVIRPSKGHESCMGAVVSEYFVLTAAHCFTVDDKEHSIKVSVGGEKRDLEIEVVLFHPNYNINGKKEAGIPEFYDYDVALIKLKNKLKYGQTIRPICLPCTEGTTRALRLPPTTTCQQQKEELLPAQDIKALFVSEEEKKLTRKEVYIKNGDKKGSCERDAQYAPGYDKVKDISEVVTPRFLCTGGVSPYADPNTCRGDSGGPLIVHKRSRFIQVGVISWGVVDVCK-------VPAHARDFHINLFQVLPWLKEKLQDEDLGFL  250
                            ||       8|       29       36C        46        56      |62D       |80        90       97C|||||| 101       111       121    ||125F||||||125P||||   131       141  ||   160    |||167     |172E|||||||175       185 ||||  191       201       211       220|      221       231       241         
                           1B|       8|              36A||                        62A|||      70|                97A||||||||                         125A|||||125J|||||125S|                144|       164A||     172A|||||172J||           186A|||                             218A  |    220I                              
                            1A       20               36B|                         62B||       79                 97B|||||||                          125B|||||125K|||||125T                 154        164B|      172B|||||172K|            186B||                                220A                                      
                                                       36C                          62C|                           97C||||||                           125C|||||125L||||||                               164C       172C|||||172L             186C|                                                                          
                                                                                     62D                            97D|||||                            125D|||||125M|||||                                           172D|||||                 186D                                                                          
                                                                                                                     97E||||                             125E|||| 125N||||                                            172E||||                                                                                               
                                                                                                                      97F|||                              125F|||  125O|||                                             172F|||                                                                                               
                                                                                                                       97G||                               125G||   125P||                                              172G||                                                                                               
                                                                                                                        97H|                                125H|    125Q|                                               172H|                                                                                               
                                                                                                                         97I                                 125I     125R                                                172I                                                                                               

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)
1a1dleA01A:1-120,A:233-248
1b1dleB01B:1-120,B:233-248
1c1dleB02B:121-229
1d1dleA02A:121-229

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1DLE)

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (CFAB_HUMAN | P00751)
molecular function
    GO:0001848    complement binding    Interacting selectively and non-covalently with any component or product of the complement cascade.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0006956    complement activation    Any process involved in the activation of any of the steps of the complement cascade, which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes; the initial steps of complement activation involve one of three pathways, the classical pathway, the alternative pathway, and the lectin pathway, all of which lead to the terminal complement pathway.
    GO:0006957    complement activation, alternative pathway    Any process involved in the activation of any of the steps of the alternative pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0030449    regulation of complement activation    Any process that modulates the frequency, rate or extent of complement activation.
cellular component
    GO:0072562    blood microparticle    A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CFAB_HUMAN | P007511q0p 1rrk 1rs0 1rtk 2ok5 2win 2xwb 2xwj 3hrz 3hs0 5m6w

(-) Related Entries Specified in the PDB File

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