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(-) Description

Title :  HOMOLOGY MODEL OF HUMAN FACTOR H SCRS 6 AND 7
 
Authors :  S. Ranganathan, D. A. Male, R. J. Ormsby, E. Giannakis, D. L. Gordon
Date :  24 Dec 01  (Deposition) - 23 Jan 02  (Release) - 23 Jan 02  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Sushi Domain, Heparin Binding, Complement Factor H, Molecular Model, Electrostatics (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Ranganathan, D. A. Male, R. J. Ormsby, E. Giannakis, D. L. Gordon
Pinpointing The Putative Heparin/Sialic Acid-Binding Residues In The 'Sushi' Domain 7 Of Factor H: A Molecular Modeling Study
Pac. Symp. Biocomput. 155 2000
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - COMPLEMENT FACTOR H
    ChainsA
    CompoundSUSHI 6 AND 7
    FragmentSHORT CONSENSUS REPEAT (SCR) DOMAINS 6 AND 7
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1KOV)

(-) SS Bonds  (4, 4)

Theoretical Model
No.Residues
1A:5 -A:54
2A:37 -A:65
3A:69 -A:111
4A:96 -A:122

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1KOV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (4, 4)

Theoretical Model (4, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_063648C325YCFAH_HUMANDisease (AHUS1)  ---AC5Y
2UniProtVAR_031980Q400KCFAH_HUMANDisease (AHUS1)  ---AQ80K
3UniProtVAR_001979Y402HCFAH_HUMANPolymorphism1061170AH82H
4UniProtVAR_031981C431SCFAH_HUMANDisease (CFHD)  ---AC111S

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

(-) PROSITE Motifs  (1, 1)

Theoretical Model (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SUSHIPS50923 Sushi/CCP/SCR domain profile.CFAH_HUMAN19-82
83-143
144-207
208-264
265-322
387-444
446-507
515-566
567-625
628-686
689-746
751-805
809-866
868-928
929-986
987-1045
1046-1104
1107-1165
1194-1230
  1-
-
-
-
-
A:67-123
-
-
-
-
-
-
-
-
-
-
-
-
-

(-) Exons   (3, 3)

Theoretical Model (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003674291aENSE00001444484chr1:196621008-196621305298CFAH_HUMAN1-20200--
1.2aENST000003674292aENSE00001134426chr1:196642108-196642293186CFAH_HUMAN20-82630--
1.3ENST000003674293ENSE00000791013chr1:196642987-196643092106CFAH_HUMAN82-117360--
1.4ENST000003674294ENSE00000791014chr1:196645119-19664519577CFAH_HUMAN117-143270--
1.5bENST000003674295bENSE00000469039chr1:196646606-196646797192CFAH_HUMAN143-207650--
1.5cENST000003674295cENSE00000791016chr1:196648753-196648923171CFAH_HUMAN207-264580--
1.6ENST000003674296ENSE00000469041chr1:196654194-196654367174CFAH_HUMAN264-322591A:1-22
1.7ENST000003674297ENSE00001769047chr1:196658550-196658744195CFAH_HUMAN322-387661A:2-6766
1.8aENST000003674298aENSE00001597868chr1:196659193-196659369177CFAH_HUMAN387-446601A:67-12357
1.12ENST0000036742912ENSE00000469044chr1:196682865-196683047183CFAH_HUMAN446-507620--
1.13ENST0000036742913ENSE00000469045chr1:196684723-196684899177CFAH_HUMAN507-566600--
1.14ENST0000036742914ENSE00000791022chr1:196694251-196694427177CFAH_HUMAN566-625600--
1.15ENST0000036742915ENSE00000791023chr1:196695600-196695782183CFAH_HUMAN625-686620--
1.16ENST0000036742916ENSE00000469048chr1:196695891-196696070180CFAH_HUMAN686-746610--
1.17ENST0000036742917ENSE00000791025chr1:196697476-196697652177CFAH_HUMAN746-805600--
1.18aENST0000036742918aENSE00000791026chr1:196705954-196706136183CFAH_HUMAN805-866620--
1.19ENST0000036742919ENSE00000791027chr1:196706605-196706790186CFAH_HUMAN866-928630--
1.20aENST0000036742920aENSE00000791028chr1:196709749-196709922174CFAH_HUMAN928-986590--
1.20dENST0000036742920dENSE00000469053chr1:196711005-196711181177CFAH_HUMAN986-1045600--
1.21ENST0000036742921ENSE00001622338chr1:196712582-196712758177CFAH_HUMAN1045-1104600--
1.22ENST0000036742922ENSE00001719380chr1:196714947-196715129183CFAH_HUMAN1104-1165620--
1.23ENST0000036742923ENSE00001931000chr1:196716241-196716634394CFAH_HUMAN1165-1231670--

(-) Sequences/Alignments

Theoretical Model
   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:123
 aligned with CFAH_HUMAN | P08603 from UniProtKB/Swiss-Prot  Length:1231

    Alignment length:123
                                   330       340       350       360       370       380       390       400       410       420       430       440   
           CFAH_HUMAN   321 TLKPCDYPDIKHGGLYHENMRRPYFPVAVGKYYSYYCDEHFETPSGSYWDHIHCTQDGWSPAVPCLRKCYFPYLENGYNQNYGRKFVQGKSIDVACHPGYALPKAQTTVTCMENGWSPTPRCI 443
               SCOP domains --------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eee..............eee.eee..............eeee..ee...............................ee................eeee..ee....... Sec.struct. author
                 SAPs(SNPs) ----Y--------------------------------------------------------------------------K-H----------------------------S------------ SAPs(SNPs)
                    PROSITE SU----------------------------------------------------------------SUSHI  PDB: A:67-123 UniProt: 387-444                     PROSITE
           Transcript 1 (1) 1.----------------------------------------------------------------Exon 1.8a  PDB: A:67-123 UniProt: 387-446 [INCOMPLETE]    Transcript 1 (1)
           Transcript 1 (2) -Exon 1.7  PDB: A:2-67 UniProt: 322-387                            -------------------------------------------------------- Transcript 1 (2)
                 1kov A   1 TLKPCDYPDIKHGGLYHENMRRPYFPVAVGKYYSYYCDEHFETPSGSYWDHIHCTQDGWSPAVPCLRKCYFPYLENGYNQNHGRKFVQGKSIDVACHPGYALPKAQTTVTCMENGWSPTPRCI 123
                                    10        20        30        40        50        60        70        80        90       100       110       120   

   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  (0, 0)

(no "SCOP Domain" information available for 1KOV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1KOV)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Theoretical Model(hide GO term definitions)
Chain A   (CFAH_HUMAN | P08603)
molecular function
    GO:0043395    heparan sulfate proteoglycan binding    Interacting selectively and non-covalently with a heparan sulfate proteoglycan, any proteoglycan containing heparan sulfate as the glycosaminoglycan carbohydrate unit.
    GO:0008201    heparin binding    Interacting selectively and non-covalently with heparin, any member of a group of glycosaminoglycans found mainly as an intracellular component of mast cells and which consist predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
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: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.

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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 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 4zh1 5o32 5o35

(-) Related Entries Specified in the PDB File

1hfh 1HFH CONTAINS THE NMR STRUCTURE OF SCRS 15 AND 16 OF THE SAME PROTEIN.
1vvc 1VVC CONTAINS THE NMR STRUCTURE OF SCRS 3 AND 4 OF THE VACCINIA VIRUS COMPLEMENT CONTROL PROTEIN.