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Title :  SOLUTION STRUCTURE OF THE C-TERMINAL SCR-16/20 FRAGMENT OF COMPLEMENT FACTOR H.
 
Authors :  A. I. Okemefuna, H. E. Gilbert, K. M. Griggs, R. J. Ormsby, D. L. Gordon, S. J. Perkins
Date :  27 Jun 07  (Deposition) - 25 Sep 07  (Release) - 07 Apr 10  (Revision)
Method :  SOLUTION SCATTERING
Resolution :  NOT APPLICABLE
Chains :  Asym. Unit :  A  (10x)
Keywords :  X-Ray Scattering, Complement, Scr Domain, Factor H, Age- Related Macular Degeneration, Alternative Splicing, Complement Alternate Pathway, Disease Mutation, Glycoprotein, Immune Response, Innate Immunity, Polymorphism, Sushi, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. I. Okemefuna, H. E. Gilbert, K. M. Griggs, R. J. Ormsby, D. L. Gordon, S. J. Perkins
The Regulatory Scr-1/5 And Cell Surface-Binding Scr-16/20 Fragments Of Factor H Reveal Partially Folded-Back Solution Structures And Different Self-Associative Properties.
J. Mol. Biol. V. 375 80 2008
PubMed-ID: 18005991  |  Reference-DOI: 10.1016/J.JMB.2007.09.026

(-) Compounds

Molecule 1 - COMPLEMENT FACTOR H
    ChainsA
    EngineeredYES
    Expression SystemPICHIA PASTORIS
    Expression System StrainX33
    Expression System Taxid4922
    Expression System Vector TypePPICZALPHAA
    FragmentSCR DOMAINS 16-20 (RESIDUES 928-1231)
    GeneCFH, HF, HF1, HF2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsPURIFIED BY NICKEL AFFINITY AND SIZE EXCLUSION CHROMATOGRAPHY.
    SynonymH FACTOR 1

 Structural Features

(-) Chains, Units

  
Asymmetric Unit (10x)

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2QFH)

(-) Sites  (0, 0)

(no "Site" information available for 2QFH)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QFH)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2QFH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (38, 38)

Asymmetric Unit (38, 38)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_020261E936DCFAH_HUMANPolymorphism1065489AE936D
02UniProtVAR_025867Q950HCFAH_HUMANDisease (AHUS1)149474608AQ950H
03UniProtVAR_025868Y951HCFAH_HUMANDisease (AHUS1)  ---AY951H
04UniProtVAR_025869T956MCFAH_HUMANDisease (AHUS1)145975787AT956M
05UniProtVAR_019406C959YCFAH_HUMANDisease (CFHD)  ---AC959Y
06UniProtVAR_025870W978CCFAH_HUMANDisease (AHUS1)  ---AW978C
07UniProtVAR_055683N997TCFAH_HUMANPolymorphism17575212AN997T
08UniProtVAR_025094V1007ICFAH_HUMANPolymorphism  ---AV1007I
09UniProtVAR_043894V1007LCFAH_HUMANPolymorphism534399AV1007L
10UniProtVAR_055684A1010TCFAH_HUMANPolymorphism11539862AA1010T
11UniProtVAR_025095T1017ICFAH_HUMANPolymorphism34362004AT1017I
12UniProtVAR_025871Y1021FCFAH_HUMANDisease (AHUS1)  ---AY1021F
13UniProtVAR_025872C1043RCFAH_HUMANDisease (AHUS1)  ---AC1043R
14UniProtVAR_025096N1050YCFAH_HUMANPolymorphism35274867AN1050Y
15UniProtVAR_025097I1059TCFAH_HUMANPolymorphism35343172AI1059T
16UniProtVAR_025873Q1076ECFAH_HUMANDisease (CFHD)  ---AQ1076E
17UniProtVAR_043895R1078SCFAH_HUMANUnclassified  ---AR1078S
18UniProtVAR_025874D1119GCFAH_HUMANDisease (CFHD)  ---AD1119G
19UniProtVAR_025875V1134GCFAH_HUMANDisease (AHUS1)  ---AV1134G
20UniProtVAR_025876Y1142DCFAH_HUMANDisease (AHUS1)  ---AY1142D
21UniProtVAR_043896Q1143ECFAH_HUMANPolymorphism34247141AQ1143E
22UniProtVAR_025877W1157RCFAH_HUMANDisease (AHUS1)  ---AW1157R
23UniProtVAR_025878C1163WCFAH_HUMANDisease (AHUS1)  ---AC1163W
24UniProtVAR_063650I1169LCFAH_HUMANDisease (AHUS1)  ---AI1169L
25UniProtVAR_063651W1183CCFAH_HUMANDisease (AHUS1)  ---AW1183C
26UniProtVAR_025879W1183LCFAH_HUMANDisease (AHUS1)  ---AW1183L
27UniProtVAR_025880W1183RCFAH_HUMANDisease (AHUS1)  ---AW1183R
28UniProtVAR_025881T1184RCFAH_HUMANDisease (CFHD)  ---AT1184R
29UniProtVAR_019407L1189RCFAH_HUMANDisease (AHUS1)  ---AL1189R
30UniProtVAR_019408S1191LCFAH_HUMANDisease (AHUS1)460897AS1191L
31UniProtVAR_025882G1194DCFAH_HUMANDisease (AHUS1)  ---AG1194D
32UniProtVAR_025883V1197ACFAH_HUMANDisease (AHUS1)460184AV1197A
33UniProtVAR_025884E1198ACFAH_HUMANDisease (AHUS1)  ---AE1198A
34UniProtVAR_031986F1199SCFAH_HUMANDisease (AHUS1)  ---AF1199S
35UniProtVAR_025885R1210CCFAH_HUMANDisease (ARMD4)  ---AR1210C
36UniProtVAR_025886R1215GCFAH_HUMANDisease (AHUS1)  ---AR1215G
37UniProtVAR_025887R1215QCFAH_HUMANDisease (CFHD)  ---AR1215Q
38UniProtVAR_025888P1226SCFAH_HUMANDisease (AHUS1)  ---AP1226S

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

(-) PROSITE Motifs  (1, 5)

Asymmetric Unit (1, 5)
 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
  5-
-
-
-
-
-
-
-
-
-
-
-
-
-
A:929-986
A:987-1045
A:1046-1104
A:1107-1165
A:1194-1230

(-) Exons   (6, 6)

Asymmetric Unit (6, 6)
 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_HUMAN264-322590--
1.7ENST000003674297ENSE00001769047chr1:196658550-196658744195CFAH_HUMAN322-387660--
1.8aENST000003674298aENSE00001597868chr1:196659193-196659369177CFAH_HUMAN387-446600--
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_HUMAN866-928631A:922-928 (gaps)29
1.20aENST0000036742920aENSE00000791028chr1:196709749-196709922174CFAH_HUMAN928-986591A:928-98659
1.20dENST0000036742920dENSE00000469053chr1:196711005-196711181177CFAH_HUMAN986-1045601A:986-104560
1.21ENST0000036742921ENSE00001622338chr1:196712582-196712758177CFAH_HUMAN1045-1104601A:1045-110460
1.22ENST0000036742922ENSE00001719380chr1:196714947-196715129183CFAH_HUMAN1104-1165621A:1104-116562
1.23ENST0000036742923ENSE00001931000chr1:196716241-196716634394CFAH_HUMAN1165-1231671A:1165-123167

(-) 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:333
 aligned with CFAH_HUMAN | P08603 from UniProtKB/Swiss-Prot  Length:1231

    Alignment length:355
                                                                                                                                                                                                                                                                                                                                                                    1231                       
                                   909       919       929       939       949       959       969       979       989       999      1009      1019      1029      1039      1049      1059      1069      1079      1089      1099      1109      1119      1129      1139      1149      1159      1169      1179      1189      1199      1209      1219      1229 |       -         -     
          CFAH_HUMAN    900 TCEGGFRISEENETTCYMGKWSSPPQCEGLPCKSPPEISHGVVAHMSDSYQYGEEVTYKCFEGFGIDGPAIAKCLGEKWSHPPSCIKTDCLSLPSFENAIPMGEKKDVYKAGEQVTYTCATYYKMDGASNVTCINSRWTGRPTCRDTSCVNPPTVQNAYIVSRQMSKYPSGERVRYQCRSPYEMFGDEEVMCLNGNWTEPPQCKDSTGKCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKR-----------------------    -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......----------------------....................................................................................................................................................................................................................................................................................................................................... Sec.struct. author
             SAPs(SNPs) (1) ------------------------------------D-------------HH----M--Y------------------C------------------T---------I--T------I---F---------------------R------Y--------T----------------E-S----------------------------------------G--------------G-------DE-------------R-----W-----L-------------CR----R-L--D--AAS----------C----G----------S---------------------------- SAPs(SNPs) (1)
             SAPs(SNPs) (2) -----------------------------------------------------------------------------------------------------------L-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------L-------------------------------Q--------------------------------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R----------------------------------------------------------------------- SAPs(SNPs) (3)
                    PROSITE SUSHI  PDB: -                SUSHI  PDB: A:929-986 UniProt: 929-986                    SUSHI  PDB: A:987-1045 UniProt: 987-1045                   SUSHI  PDB: A:1046-1104 UniProt: 1046-1104                 --SUSHI  PDB: A:1107-1165 UniProt: 1107-1165                 ----------------------------SUSHI  PDB: A:1194-1230              ------------------------ PROSITE
           Transcript 1 (1) Exon 1.19 UniProt: 866-928   ---------------------------------------------------------Exon 1.20d  PDB: A:986-1045 UniProt: 986-1045               ----------------------------------------------------------Exon 1.22  PDB: A:1104-1165 UniProt: 1104-1165                ----------------------------------------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------Exon 1.20a  PDB: A:928-986 UniProt: 928-986                ----------------------------------------------------------Exon 1.21  PDB: A:1045-1104 UniProt: 1045-1104              ------------------------------------------------------------Exon 1.23  PDB: A:1165-1231 UniProt: 1165-1231                     ----------------------- Transcript 1 (2)
                2qfh A  922 EAEAEF----------------------GLPCKSPPEISHGVVAHMSDSYQYGEEVTYKCFEGFGIDGPAIAKCLGEKWSHPPSCIKTDCLSLPSFENAIPMGEKKDVYKAGEQVTYTCATYYKMDGASNVTCINSRWTGRPTCRDTSCVNPPTVQNAYIVSRQMSKYPSGERVRYQCRSPYEMFGDEEVMCLNGNWTEPPQCKDSTGKCGPPPPIDNGDITSFPLSVYAPASSVEYQCQNLYQLEGNKRITCRNGQWSEPPKCLHPCVISREIMENYNIALRWTAKQKLYSRTGESVEFVCKRGYRLSSRSHTLRTTCWDGKLEYPTCAKRPLEQKLISEEDLNSAVDHHHHHH 1254
                                 |   -         -       929       939       949       959       969       979       989       999      1009      1019      1029      1039      1049      1059      1069      1079      1089      1099      1109      1119      1129      1139      1149      1159      1169      1179      1189      1199      1209      1219      1229      1239      1249     
                               927                    928                                                                                                                                                                                                                                                                                                                                      

   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 2QFH)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2QFH)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2QFH)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(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 1kov 2bzm 2g7i 2ic4 2jgw 2jgx 2kms 2qfg 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

1haq SOLUTION SCATTERING MODEL FOR FACTOR H SCR-1/20
1hcc NMR STRUCTURE OF FACTOR H SCR-16
2g7i CRYSTAL STRUCTURE OF FACTOR H SCR-19/20
2qfg SOLUTION STRUCTURE OF THE N-TERMINAL SCR-1/5 FRAGMENT OF COMPLEMENT FACTOR H