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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MOUSE COLONY-STIMULATING FACTOR 1 (MCSF-1) CYTOKINE IN COMPLEX WITH THE VIRAL RECEPTOR BARF1
 
Authors :  J. Elegheert, N. Bracke, S. N. Savvides
Date :  02 Jan 12  (Deposition) - 22 Aug 12  (Release) - 26 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.50
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,D,E,F  (3x)
Biol. Unit 2:  B,C,G,H  (3x)
Keywords :  Immune System-Receptor Complex, Rtkiii, Extracellular, Cytokine Receptor-Cytokine Complex, Four-Helix Bundle, Glycoprotein, Immunoglobulin Domain, Oncogene, Cytokine/Signaling (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Elegheert, N. Bracke, P. Pouliot, I. Gutsche, A. V. Shkumatov, N. Tarbouriech, K. Verstraete, A. Bekaert, W. P. Burmeister, D. I. Svergun, B. N. Lambrecht, B. Vergauwen, S. N. Savvides
Allosteric Competitive Inactivation Of Hematopoietic Csf-1 Signaling By The Viral Decoy Receptor Barf1.
Nat. Struct. Mol. Biol. V. 19 938 2012
PubMed-ID: 22902366  |  Reference-DOI: 10.1038/NSMB.2367

(-) Compounds

Molecule 1 - SECRETED PROTEIN BARF1
    Chains: A, B, C, D
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293
    Expression System Common: HUMAN
    Expression System Plasmid: PHLSEC
    Expression System Taxid: 9606
    Expression System Variant: HEK293T
    Mutation: YES
    Organism Scientific: HUMAN HERPESVIRUS 4
    Organism Taxid: 10376
    Strain: B95-8
    Synonym: BARF1,33 KDA EARLY PROTEIN, P33
 
Molecule 2 - MACROPHAGE COLONY-STIMULATING FACTOR 1
    Chains: E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: CODONPLUS RIL
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 21-221
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: CSF-1, M-CSF, MCSF, PROCESSED MACROPHAGE COLONY-STIMULATING FACTOR 1

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (3x): A  DEF  
Biological Unit 2 (3x):  BC   GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric Unit (3, 13)
No.NameCountTypeFull Name
1BMA4Ligand/IonBETA-D-MANNOSE
2MAN1Ligand/IonALPHA-D-MANNOSE
3NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (2, 18)
No.NameCountTypeFull Name
1BMA6Ligand/IonBETA-D-MANNOSE
2MAN-1Ligand/IonALPHA-D-MANNOSE
3NAG12Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 2 (3, 21)
No.NameCountTypeFull Name
1BMA6Ligand/IonBETA-D-MANNOSE
2MAN3Ligand/IonALPHA-D-MANNOSE
3NAG12Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:73 , ASN A:95 , HIS A:98BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 95 RESIDUES 300 TO 302
2AC2SOFTWAREPRO B:73 , PHE B:74 , ASN B:95 , HIS B:98BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 95 RESIDUES 300 TO 303
3AC3SOFTWAREPHE C:77 , ASN C:95 , SER C:97 , HIS C:98BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 95 RESIDUES 300 TO 302
4AC4SOFTWAREPRO D:73 , PHE D:74 , ASN D:95 , HIS D:98BINDING SITE FOR CHAIN D OF SUGAR BOUND TO ASN D 95 RESIDUES 300 TO 302

(-) SS Bonds  (18, 18)

Asymmetric Unit
No.Residues
1A:146 -A:201
2B:146 -B:201
3C:146 -C:201
4D:146 -D:201
5E:7 -E:90
6E:31 -F:31
7E:48 -E:139
8E:102 -E:146
9F:7 -F:90
10F:48 -F:139
11F:102 -F:146
12G:7 -G:90
13G:31 -H:31
14G:48 -G:139
15G:102 -G:146
16H:7 -H:90
17H:48 -H:139
18H:102 -H:146

(-) Cis Peptide Bonds  (16, 16)

Asymmetric Unit
No.Residues
1Phe A:136 -Pro A:137
2Phe A:151 -Pro A:152
3Lys A:193 -Pro A:194
4Leu A:197 -Pro A:198
5Phe B:136 -Pro B:137
6Phe B:151 -Pro B:152
7Lys B:193 -Pro B:194
8Leu B:197 -Pro B:198
9Phe C:136 -Pro C:137
10Phe C:151 -Pro C:152
11Lys C:193 -Pro C:194
12Leu C:197 -Pro C:198
13Phe D:136 -Pro D:137
14Phe D:151 -Pro D:152
15Lys D:193 -Pro D:194
16Leu D:197 -Pro D:198

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ADQ)

(-) 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:185
 aligned with BARF1_EBVB9 | P03228 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:199
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         
          BARF1_EBVB9    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.hhh...eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq A  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210         
                                                                                                                                                                     160            175                                            


Chain A from PDB  Type:PROTEIN  Length:185
 aligned with BARF1_EBVG | P0CW72 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:199
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         
           BARF1_EBVG    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.hhh...eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq A  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210         
                                                                                                                                                                     160            175                                            


Chain B from PDB  Type:PROTEIN  Length:185
 aligned with BARF1_EBVB9 | P03228 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:199
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         
          BARF1_EBVB9    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq B  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210         
                                                                                                                                                                     160            175                                            


Chain B from PDB  Type:PROTEIN  Length:185
 aligned with BARF1_EBVG | P0CW72 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:199
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         
           BARF1_EBVG    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq B  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYL 219
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210         
                                                                                                                                                                     160            175                                            


Chain C from PDB  Type:PROTEIN  Length:186
 aligned with BARF1_EBVB9 | P03228 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:200
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
          BARF1_EBVB9    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq C  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210       220
                                                                                                                                                                     160            175                                             


Chain C from PDB  Type:PROTEIN  Length:186
 aligned with BARF1_EBVG | P0CW72 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:200
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
           BARF1_EBVG    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq C  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210       220
                                                                                                                                                                     160            175                                             


Chain D from PDB  Type:PROTEIN  Length:186
 aligned with BARF1_EBVB9 | P03228 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:200
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
          BARF1_EBVB9    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq D  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210       220
                                                                                                                                                                     160            175                                             


Chain D from PDB  Type:PROTEIN  Length:186
 aligned with BARF1_EBVG | P0CW72 from UniProtKB/Swiss-Prot  Length:221

    Alignment length:200
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
           BARF1_EBVG    21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLMPEGVEPAPTAANGGVMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeeee..........eeeeeeee...eeeeeeeee..eeee.......eeeeee..eeeeee...hhhhheeeeeeeee..eeeeeeeeeeeeeeeeeeeeeee........eeeeeeeeee..eeeee..--------------.ee.....eeeeeeeee.......eeeeeee..eeeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq D  21 VTAFLGERVTLTSYWRRVSLGPEIEVSWFKLGPGEEQVLIGRMHHDVIFIEWPFRGFFDIHRSANTFFLVVTAANISHDGNYLCRMKLGETEVTKQEHLSVVKPLTLSVHSERSQFPDFSVLTVTCTVNAFPHPHVQWLM--------------VMKEKDGSLSVAVDLSLPKPWHLPVTCVGKNDKEEAHGVYVSGYLS 220
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160         -    |  180       190       200       210       220
                                                                                                                                                                     160            175                                             


Chain E from PDB  Type:PROTEIN  Length:144
 aligned with CSF1_MOUSE | P07141 from UniProtKB/Swiss-Prot  Length:552

    Alignment length:144
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175    
           CSF1_MOUSE    36 SEHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKCS 179
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhh.hhhhhhhhhhhhhh.......eeeeee......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...........eeeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhh.hhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4adq E   4 SEHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKCS 147
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143    


Chain F from PDB  Type:PROTEIN  Length:142
 aligned with CSF1_MOUSE | P07141 from UniProtKB/Swiss-Prot  Length:552

    Alignment length:142
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176  
           CSF1_MOUSE    37 EHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKC 178
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.hhhhhhhhhhhhhh.......eeeeee......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...........eeeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhh.hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq F   5 EHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKC 146
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144  


Chain G from PDB  Type:PROTEIN  Length:143
 aligned with CSF1_MOUSE | P07141 from UniProtKB/Swiss-Prot  Length:552

    Alignment length:143
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175   
           CSF1_MOUSE    36 SEHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKC 178
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh.hhhhhhhhhhhhhh.......eeeeee......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...........eeeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhh.hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq G   4 SEHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKC 146
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143   


Chain H from PDB  Type:PROTEIN  Length:142
 aligned with CSF1_MOUSE | P07141 from UniProtKB/Swiss-Prot  Length:552

    Alignment length:142
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176  
           CSF1_MOUSE    37 EHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKC 178
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.hhhhhhhhhhhhhh.......eeeeee......hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...........eeeeeehhhhhhhhhhhhhhhhhhhhhhh.hhhhh.hhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4adq H   5 EHCSHMIGNGHLKVLQQLIDSQMETSCQIAFEFVDQEQLDDPVCYLKKAFFLVQDIIDETMRFKDNTPNANATERLQELSNNLNSCFTKDYEEQNKACVRTFHETPLQLLEKIKNFFNETKNLLEKDWNIFTKNCNNSFAKC 146
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144
   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 4ADQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (48, 50)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (BARF1_EBVG | P0CW72)
molecular function
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
cellular component
    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.

Chain A,B,C,D   (BARF1_EBVB9 | P03228)
cellular component
    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.

Chain E,F,G,H   (CSF1_MOUSE | P07141)
molecular function
    GO:0005125    cytokine activity    Functions to control the survival, growth, differentiation and effector function of tissues and cells.
    GO:0008083    growth factor activity    The function that stimulates a cell to grow or proliferate. Most growth factors have other actions besides the induction of cell growth or proliferation.
    GO:0005157    macrophage colony-stimulating factor receptor binding    Interacting selectively and non-covalently with the macrophage colony-stimulating factor receptor.
    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).
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
    GO:0060444    branching involved in mammary gland duct morphogenesis    The process in which the branching structure of the mammary gland duct is generated and organized. The mammary gland is a large compound sebaceous gland that in female mammals is modified to secrete milk.
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    GO:0003006    developmental process involved in reproduction    A developmental process in which a progressive change in the state of some part of an organism specifically contributes to its ability to form offspring.
    GO:0048873    homeostasis of number of cells within a tissue    Any biological process involved in the maintenance of the steady-state number of cells within a population of cells in a tissue.
    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:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0038145    macrophage colony-stimulating factor signaling pathway    A series of molecular signals initiated by the binding of the cytokine macrophage colony-stimulating factor (M-CSF) to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0030225    macrophage differentiation    The process in which a relatively unspecialized monocyte acquires the specialized features of a macrophage.
    GO:0060763    mammary duct terminal end bud growth    The morphogenetic growth of the large, club-shaped terminal end of a mammary gland duct during prepubertal growth and during puberty.
    GO:0060611    mammary gland fat development    The progression of the mammary gland fat over time, from its formation to the mature structure. The mammary fat is an adipose structure in the gland that is invaded by the mammary ducts.
    GO:0042476    odontogenesis    The process whose specific outcome is the progression of a tooth or teeth over time, from formation to the mature structure(s). A tooth is any hard bony, calcareous, or chitinous organ found in the mouth or pharynx of an animal and used in procuring or masticating food.
    GO:0001503    ossification    The formation of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone or a bony substance.
    GO:0030316    osteoclast differentiation    The process in which a relatively unspecialized monocyte acquires the specialized features of an osteoclast. An osteoclast is a specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue.
    GO:0002158    osteoclast proliferation    The multiplication or reproduction of osteoclasts, resulting in the expansion of an osteoclast cell population. An osteoclast is a specialized phagocytic cell associated with the absorption and removal of the mineralized matrix of bone tissue, which typically differentiates from monocytes.
    GO:0046579    positive regulation of Ras protein signal transduction    Any process that activates or increases the frequency, rate or extent of Ras protein signal transduction.
    GO:0030335    positive regulation of cell migration    Any process that activates or increases the frequency, rate or extent of cell migration.
    GO:0008284    positive regulation of cell proliferation    Any process that activates or increases the rate or extent of cell proliferation.
    GO:0001954    positive regulation of cell-matrix adhesion    Any process that activates or increases the rate or extent of cell adhesion to an extracellular matrix.
    GO:0032270    positive regulation of cellular protein metabolic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving a protein, occurring at the level of an individual cell.
    GO:0010628    positive regulation of gene expression    Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
    GO:0010759    positive regulation of macrophage chemotaxis    Any process that increases the rate, frequency or extent of macrophage chemotaxis. Macrophage chemotaxis is the movement of a macrophage in response to an external stimulus.
    GO:1902228    positive regulation of macrophage colony-stimulating factor signaling pathway    Any process that activates or increases the frequency, rate or extent of macrophage colony-stimulating factor signaling pathway.
    GO:0010744    positive regulation of macrophage derived foam cell differentiation    Any process that increases the rate, frequency or extent of macrophage derived foam cell differentiation. Macrophage derived foam cell differentiation is the process in which a macrophage acquires the specialized features of a foam cell. A foam cell is a type of cell containing lipids in small vacuoles and typically seen in atherosclerotic lesions, as well as other conditions.
    GO:0045651    positive regulation of macrophage differentiation    Any process that activates or increases the frequency, rate or extent of macrophage differentiation.
    GO:1904141    positive regulation of microglial cell migration    Any process that activates or increases the frequency, rate or extent of microglial cell migration.
    GO:0045657    positive regulation of monocyte differentiation    Any process that activates or increases the frequency, rate or extent of monocyte differentiation.
    GO:0032946    positive regulation of mononuclear cell proliferation    Any process that activates or increases the frequency, rate or extent of mononuclear cell proliferation.
    GO:0040018    positive regulation of multicellular organism growth    Any process that activates or increases the frequency, rate or extent of growth of an organism to reach its usual body size.
    GO:0042488    positive regulation of odontogenesis of dentin-containing tooth    Any process that activates or increases the frequency, rate or extent of the formation and development of teeth, the hard, bony appendages that are borne on the jaws, or on other bones in the walls of the mouth or pharynx of most vertebrates.
    GO:0045672    positive regulation of osteoclast differentiation    Any process that activates or increases the frequency, rate or extent of osteoclast differentiation.
    GO:0045860    positive regulation of protein kinase activity    Any process that activates or increases the frequency, rate or extent of protein kinase activity.
    GO:0030278    regulation of ossification    Any process that modulates the frequency, rate or extent of bone formation.
    GO:0007169    transmembrane receptor protein tyrosine kinase signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:1990682    CSF1-CSF1R complex    A protein complex consisting of a macrophage colony-stimulating factor (CSF1, also called M-CSF) dimer bound to a dimerized receptor (CSF1R, also called FMS). Receptor dimerization requires the presence of the ligand.
    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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.
    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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  4adq
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  BARF1_EBVB9 | P03228
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  BARF1_EBVG | P0CW72
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  CSF1_MOUSE | P07141
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 Related Entries

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

UniProtKB/Swiss-Prot
        BARF1_EBVB9 | P03228: 2ch8 3uez 4adf
        BARF1_EBVG | P0CW72: 4adf 4fa8
        CSF1_MOUSE | P07141: 3ejj 3uf5

(-) Related Entries Specified in the PDB File

4adf CRYSTAL STRUCTURE OF THE HUMAN COLONY-STIMULATING FACTOR 1 (HCSF-1) CYTOKINE IN COMPLEX WITH THE VIRAL RECEPTOR BARF1