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(-) Description

Title :  STRUCTURE OF THE FAB FRAGMENT OF GC-1008 IN COMPLEX WITH TRANSFORMING GROWTH FACTOR-BETA 3
 
Authors :  C. Gruetter, M. G. Gruetter
Date :  26 Sep 08  (Deposition) - 02 Dec 08  (Release) - 06 Jan 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C,D,E,F  (1x)
Biol. Unit 2:  G,H,I,J,K,L  (1x)
Keywords :  Antibody-Cytokine Complex, Growth Factor, Fab Fragment, Cardiomyopathy, Cleavage On Pair Of Basic Residues, Glycoprotein, Mitogen, Polymorphism, Secreted, Immune System/Cytokine Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Wilkinson, R. Turner, S. Podichetty, D. Finch, M. Mccourt, S. Loning, L. Jermutus
A Cytokine-Neutralizing Antibody As A Structural Mimetic Of 2 Receptor Interactions
Proc. Natl. Acad. Sci. Usa V. 105 20251 2008
PubMed-ID: 19073914  |  Reference-DOI: 10.1073/PNAS.0807200106
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GC-1008 FAB LIGHT CHAIN
    ChainsA, D, G, J
    EngineeredYES
    Expression SystemMUS MUSCULUS
    Expression System StrainNS0
    Expression System Taxid10090
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
 
Molecule 2 - GC-1008 FAB HEAVY CHAIN
    ChainsB, E, H, K
    EngineeredYES
    Expression SystemMUS MUSCULUS
    Expression System StrainNS0
    Expression System Taxid10090
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
 
Molecule 3 - TRANSFORMING GROWTH FACTOR BETA-3
    ChainsC, F, I, L
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentUNP RESIDUES 301-412, RECEPTOR BINDING FRAGMENT
    GeneTGFB3
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymTGF-BETA-3

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit ABCDEFGHIJKL
Biological Unit 1 (1x)ABCDEF      
Biological Unit 2 (1x)      GHIJKL

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3EO1)

(-) Sites  (0, 0)

(no "Site" information available for 3EO1)

(-) SS Bonds  (34, 34)

Asymmetric Unit
No.Residues
1A:23 -A:89
2A:135 -A:195
3B:22 -B:96
4B:147 -B:203
5C:7 -C:16
6C:15 -C:78
7C:44 -C:109
8C:48 -C:111
9C:77 -F:77
10D:23 -D:89
11D:135 -D:195
12E:22 -E:96
13E:147 -E:203
14F:7 -F:16
15F:15 -F:78
16F:44 -F:109
17F:48 -F:111
18G:23 -G:89
19G:135 -G:195
20H:22 -H:96
21H:147 -H:203
22I:7 -I:16
23I:15 -I:78
24I:44 -I:109
25I:48 -I:111
26I:77 -L:77
27J:23 -J:89
28J:135 -J:195
29K:22 -K:96
30K:147 -K:203
31L:7 -L:16
32L:15 -L:78
33L:44 -L:109
34L:48 -L:111

(-) Cis Peptide Bonds  (24, 24)

Asymmetric Unit
No.Residues
1Ser A:7 -Pro A:8
2Ser A:95 -Pro A:96
3Tyr A:141 -Pro A:142
4Gly B:125 -Pro B:126
5Phe B:153 -Pro B:154
6Glu C:35 -Pro C:36
7Ser D:7 -Pro D:8
8Ser D:95 -Pro D:96
9Tyr D:141 -Pro D:142
10Gly E:125 -Pro E:126
11Phe E:153 -Pro E:154
12Glu F:35 -Pro F:36
13Ser G:7 -Pro G:8
14Ser G:95 -Pro G:96
15Tyr G:141 -Pro G:142
16Gly H:125 -Pro H:126
17Phe H:153 -Pro H:154
18Glu I:35 -Pro I:36
19Ser J:7 -Pro J:8
20Ser J:95 -Pro J:96
21Tyr J:141 -Pro J:142
22Gly K:125 -Pro K:126
23Phe K:153 -Pro K:154
24Glu L:35 -Pro L:36

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 4)

Asymmetric Unit (1, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_070924C409YTGFB3_HUMANDisease (LDS5)398122984C/F/I/LC109Y

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_070924C409YTGFB3_HUMANDisease (LDS5)398122984C/FC109Y

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (1, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_070924C409YTGFB3_HUMANDisease (LDS5)398122984I/LC109Y

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

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TGF_BETA_1PS00250 TGF-beta family signature.TGFB3_HUMAN333-348
 
 
 
  4C:33-48
F:33-48
I:33-48
L:33-48
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TGF_BETA_1PS00250 TGF-beta family signature.TGFB3_HUMAN333-348
 
 
 
  2C:33-48
F:33-48
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TGF_BETA_1PS00250 TGF-beta family signature.TGFB3_HUMAN333-348
 
 
 
  2-
-
I:33-48
L:33-48

(-) Exons   (3, 12)

Asymmetric Unit (3, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002386821ENSE00000808431chr14:76448092-764468851208TGFB3_HUMAN1-1181180--
1.2ENST000002386822ENSE00000808430chr14:76438061-76437898164TGFB3_HUMAN118-172550--
1.3ENST000002386823ENSE00000808429chr14:76437598-76437469130TGFB3_HUMAN173-216440--
1.4ENST000002386824ENSE00000808428chr14:76432038-76431931108TGFB3_HUMAN216-252370--
1.5ENST000002386825ENSE00000808427chr14:76429830-76429659172TGFB3_HUMAN252-309584C:1-9
F:1-9
I:1-9
L:1-9
9
9
9
9
1.6ENST000002386826ENSE00000808426chr14:76427419-76427266154TGFB3_HUMAN309-360524C:9-60
F:9-60
I:9-60
L:9-60
52
52
52
52
1.7ENST000002386827ENSE00000999517chr14:76425688-764244421247TGFB3_HUMAN361-412524C:61-112
F:61-112
I:61-112
L:61-112
52
52
52
52

(-) 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:215
                                                                                                                                                                                                                                                       
               SCOP domains d3eo1a1 A:1-107 automated matches                                                                          d3eo1a2 A:108-215 automated matches                                                                          SCOP domains
               CATH domains 3eo1A01 A:1-109 Immunoglobulins                                                                              3eo1A02 A:110-213 Immunoglobulins                                                                       -- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeeeeeee....eeeeee......eeeeee..ee.......eeeeeeeeeeeeee...hhhhh.eeeeee......ee....eeee........eee...hhhhhh....eeeeeeeee.....eeeeee.........eeee.........eeeeeeee.hhhhhh....eeeeee..........ee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eo1 A   1 ETVLTQSPGTLSLSPGERATLSCRASQSLGSSYLAWYQQKPGQAPRLLIYGASSRAPGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYADSPITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     

Chain B from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3eo1B01 B:1-120 Immunoglobulins                                                                                         3eo1B02 B:121-220 Immunoglobulins                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee...eee.....eeeeeee.........eeeeee.....eeeeeeee....eeee.hhhh..eeeeee....eeeeee........eeeeeeee.......eeee....eeee.........eeee......eeeeeeee.......ee...........eee...ee.....ee..eeeeee..........eeeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3eo1 B   1 QVQLVQSGAEVKKPGSSVKVSCKASGYTFSSNVISWVRQAPGQGLEWMGGVIPIVDIANYAQRFKGRVTITADESTSTTYMELSSLRSEDTAVYYCASTLGLVLDAMDYWGQGTLVTVSSASTKGPSVFPLAPCSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVES 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   ||  144       154       164       174       184       194       204       214      
                                                                                                                                                               134|                                                                                 
                                                                                                                                                                139                                                                                 

Chain C from PDB  Type:PROTEIN  Length:112
 aligned with TGFB3_HUMAN | P10600 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:112
                                   310       320       330       340       350       360       370       380       390       400       410  
          TGFB3_HUMAN   301 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 412
               SCOP domains d3eo1c_ C: TGF-beta3                                                                                             SCOP domains
               CATH domains 3eo1C00 C:1-112 Cystine-knot cytokines                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhh.......eee...eehhhhhh...eee..ee...eee..........hhhhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee....eeeeeeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------Y--- SAPs(SNPs)
                    PROSITE --------------------------------TGF_BETA_1      ---------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5 ---------------------------------------------------Exon 1.7  PDB: C:61-112 UniProt: 361-412             Transcript 1 (1)
           Transcript 1 (2) --------Exon 1.6  PDB: C:9-60 UniProt: 309-360              ---------------------------------------------------- Transcript 1 (2)
                 3eo1 C   1 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 112
                                    10        20        30        40        50        60        70        80        90       100       110  

Chain D from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains d3eo1d1 D:1-107 automated matches                                                                          d3eo1d2 D:108-215 automated matches                                                                          SCOP domains
               CATH domains 3eo1D01 D:1-109 Immunoglobulins                                                                              3eo1D02 D:110-213 Immunoglobulins                                                                       -- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee...........eeeee..........eeeeee......eeee.............ee..ee..eeeeee...hhhhh.eeeeee......ee...ee............ee.............eeeee........eeee............eeee...........eeeeee.hhhhhh...eeeeeeee.......eeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eo1 D   1 ETVLTQSPGTLSLSPGERATLSCRASQSLGSSYLAWYQQKPGQAPRLLIYGASSRAPGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYADSPITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     

Chain E from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3eo1E01 E:1-120 Immunoglobulins                                                                                         3eo1E02 E:121-220 Immunoglobulins                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee...eee.....eeeeeee.........eeeeee.....eeeeeeee....eeee.hhhh............eeeeee........eeeeeee..........ee....eeee........eeeee........eeeeeeeee.....ee...........ee..........eeeeeeee.hhhhh........eee....eee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3eo1 E   1 QVQLVQSGAEVKKPGSSVKVSCKASGYTFSSNVISWVRQAPGQGLEWMGGVIPIVDIANYAQRFKGRVTITADESTSTTYMELSSLRSEDTAVYYCASTLGLVLDAMDYWGQGTLVTVSSASTKGPSVFPLAPCSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVES 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   ||  144       154       164       174       184       194       204       214      
                                                                                                                                                               134|                                                                                 
                                                                                                                                                                139                                                                                 

Chain F from PDB  Type:PROTEIN  Length:112
 aligned with TGFB3_HUMAN | P10600 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:112
                                   310       320       330       340       350       360       370       380       390       400       410  
          TGFB3_HUMAN   301 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 412
               SCOP domains d3eo1f_ F: TGF-beta3                                                                                             SCOP domains
               CATH domains 3eo1F00 F:1-112 Cystine-knot cytokines                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhh.......eee..eeehhhhhh........eee..eee..........hhhhhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------Y--- SAPs(SNPs)
                    PROSITE --------------------------------TGF_BETA_1      ---------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5 ---------------------------------------------------Exon 1.7  PDB: F:61-112 UniProt: 361-412             Transcript 1 (1)
           Transcript 1 (2) --------Exon 1.6  PDB: F:9-60 UniProt: 309-360              ---------------------------------------------------- Transcript 1 (2)
                 3eo1 F   1 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 112
                                    10        20        30        40        50        60        70        80        90       100       110  

Chain G from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains d3eo1g1 G:1-107 automated matches                                                                          d3eo1g2 G:108-215 automated matches                                                                          SCOP domains
               CATH domains 3eo1G01 G:1-109 Immunoglobulins                                                                              3eo1G02 G:110-213 Immunoglobulins                                                                       -- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeeeeeee....eeeeee......eeeeee..ee.......eeeeeeeeeeeeee...hhhhh.eeeeee......ee....eeee........eee...hhhhhh....eeeeeeeee.....eeeeee.........eeee.........eeeeeeee.hhhhhh....eeeeee..........ee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eo1 G   1 ETVLTQSPGTLSLSPGERATLSCRASQSLGSSYLAWYQQKPGQAPRLLIYGASSRAPGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYADSPITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     

Chain H from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3eo1H01 H:1-120 Immunoglobulins                                                                                         3eo1H02 H:121-220 Immunoglobulins                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee...eee.....eeeeeee.........eeeeee.....eeeeeeee....eeee.hhhh..eeeeee....eeeeee........eeeeeeee.......eeee....eeee.........eeee......eeeeeeee.......ee...........eee...ee.....ee..eeeeee..........eeeee....eeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3eo1 H   1 QVQLVQSGAEVKKPGSSVKVSCKASGYTFSSNVISWVRQAPGQGLEWMGGVIPIVDIANYAQRFKGRVTITADESTSTTYMELSSLRSEDTAVYYCASTLGLVLDAMDYWGQGTLVTVSSASTKGPSVFPLAPCSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVES 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   ||  144       154       164       174       184       194       204       214      
                                                                                                                                                               134|                                                                                 
                                                                                                                                                                139                                                                                 

Chain I from PDB  Type:PROTEIN  Length:112
 aligned with TGFB3_HUMAN | P10600 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:112
                                   310       320       330       340       350       360       370       380       390       400       410  
          TGFB3_HUMAN   301 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 412
               SCOP domains d3eo1i_ I: TGF-beta3                                                                                             SCOP domains
               CATH domains 3eo1I00 I:1-112 Cystine-knot cytokines                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhh.......eee...eehhhhhh...eee..ee...eee..........hhhhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee....eeeeeeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------Y--- SAPs(SNPs)
                    PROSITE --------------------------------TGF_BETA_1      ---------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5 ---------------------------------------------------Exon 1.7  PDB: I:61-112 UniProt: 361-412             Transcript 1 (1)
           Transcript 1 (2) --------Exon 1.6  PDB: I:9-60 UniProt: 309-360              ---------------------------------------------------- Transcript 1 (2)
                 3eo1 I   1 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 112
                                    10        20        30        40        50        60        70        80        90       100       110  

Chain J from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains d3eo1j1 J:1-107 automated matches                                                                          d3eo1j2 J:108-215 automated matches                                                                          SCOP domains
               CATH domains 3eo1J01 J:1-109 Immunoglobulins                                                                              3eo1J02 J:110-213 Immunoglobulins                                                                       -- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee...........eeeee..........eeeeee......eeee.............ee..ee..eeeeee...hhhhh.eeeeee......ee...ee............ee.............eeeee........eeee............eeee...........eeeeee.hhhhhh...eeeeeeee.......eeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3eo1 J   1 ETVLTQSPGTLSLSPGERATLSCRASQSLGSSYLAWYQQKPGQAPRLLIYGASSRAPGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYADSPITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     

Chain K from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3eo1K01 K:1-120 Immunoglobulins                                                                                         3eo1K02 K:121-220 Immunoglobulins                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee...eee.....eeeeeee.........eeeeee.....eeeeeeee....eeee.hhhh............eeeeee........eeeeeee..........ee....eeee........eeeee........eeeeeeeee.....ee...........ee..........eeeeeeee.hhhhh........eee....eee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3eo1 K   1 QVQLVQSGAEVKKPGSSVKVSCKASGYTFSSNVISWVRQAPGQGLEWMGGVIPIVDIANYAQRFKGRVTITADESTSTTYMELSSLRSEDTAVYYCASTLGLVLDAMDYWGQGTLVTVSSASTKGPSVFPLAPCSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVES 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   ||  144       154       164       174       184       194       204       214      
                                                                                                                                                               134|                                                                                 
                                                                                                                                                                139                                                                                 

Chain L from PDB  Type:PROTEIN  Length:112
 aligned with TGFB3_HUMAN | P10600 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:112
                                   310       320       330       340       350       360       370       380       390       400       410  
          TGFB3_HUMAN   301 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 412
               SCOP domains d3eo1l_ L: TGF-beta3                                                                                             SCOP domains
               CATH domains 3eo1L00 L:1-112 Cystine-knot cytokines                                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhh.......eee..eeehhhhhh........eee..eee..........hhhhhhhhhhhhhhhhhh...eeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------Y--- SAPs(SNPs)
                    PROSITE --------------------------------TGF_BETA_1      ---------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.5 ---------------------------------------------------Exon 1.7  PDB: L:61-112 UniProt: 361-412             Transcript 1 (1)
           Transcript 1 (2) --------Exon 1.6  PDB: L:9-60 UniProt: 309-360              ---------------------------------------------------- Transcript 1 (2)
                 3eo1 L   1 ALDTNYCFRNLEENCCVRPLYIDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHSTVLGLYNTLNPEASASPCCVPQDLEPLTILYYVGRTPKVEQLSNMVVKSCKCS 112
                                    10        20        30        40        50        60        70        80        90       100       110  

   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  (3, 12)

Asymmetric Unit

(-) CATH Domains  (2, 20)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)
2a3eo1A02A:110-213
2b3eo1G02G:110-213
2c3eo1J02J:110-213
2d3eo1A01A:1-109
2e3eo1D01D:1-109
2f3eo1G01G:1-109
2g3eo1J01J:1-109
2h3eo1B02B:121-220
2i3eo1E02E:121-220
2j3eo1H02H:121-220
2k3eo1K02K:121-220
2l3eo1B01B:1-120
2m3eo1E01E:1-120
2n3eo1H01H:1-120
2o3eo1K01K:1-120
2p3eo1D02D:110-213

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3EO1)

(-) Gene Ontology  (88, 90)

Asymmetric Unit(hide GO term definitions)
Chain C,F,I,L   (TGFB3_HUMAN | P10600)
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:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    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:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
    GO:0050431    transforming growth factor beta binding    Interacting selectively and non-covalently with TGF-beta, transforming growth factor beta, a multifunctional peptide that controls proliferation, differentiation and other functions in many cell types.
    GO:0005160    transforming growth factor beta receptor binding    Interacting selectively and non-covalently with the transforming growth factor beta receptor.
    GO:0034713    type I transforming growth factor beta receptor binding    Interacting selectively and non-covalently with a type I transforming growth factor beta receptor.
    GO:0005114    type II transforming growth factor beta receptor binding    Interacting selectively and non-covalently with a type II transforming growth factor beta receptor.
    GO:0034714    type III transforming growth factor beta receptor binding    Interacting selectively and non-covalently with a type III transforming growth factor beta receptor.
biological process
    GO:0007184    SMAD protein import into nucleus    The directed movement of a SMAD proteins from the cytoplasm into the nucleus. Pathway-restricted SMAD proteins and common-partner SMAD proteins are involved in the transforming growth factor beta receptor signaling pathways.
    GO:0060395    SMAD protein signal transduction    The cascade of processes by which a signal interacts with a receptor, causing a change in the activity of a SMAD protein, and ultimately effecting a change in the functioning of the cell.
    GO:0000187    activation of MAPK activity    The initiation of the activity of the inactive enzyme MAP kinase (MAPK).
    GO:0007568    aging    A developmental process that is a deterioration and loss of function over time. Aging includes loss of functions such as resistance to disease, homeostasis, and fertility, as well as wear and tear. Aging includes cellular senescence, but is more inclusive. May precede death and may succeed developmental maturation (GO:0021700).
    GO:0016049    cell growth    The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present.
    GO:0045216    cell-cell junction organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a cell-cell junction. A cell-cell junction is a specialized region of connection between two cells.
    GO:0070483    detection of hypoxia    The series of events in which a stimulus indicating lowered oxygen tension is received by a cell and converted into a molecular signal. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
    GO:0048565    digestive tract development    The process whose specific outcome is the progression of the digestive tract over time, from its formation to the mature structure. The digestive tract is the anatomical structure through which food passes and is processed.
    GO:0048702    embryonic neurocranium morphogenesis    The process in which the anatomical structures of the neurocranium are generated and organized during the embryonic phase. The neurocranium is the portion of the vertebrate skull surrounding the brain.
    GO:0060325    face morphogenesis    The process in which the anatomical structures of the face are generated and organized. The face is the ventral division of the head.
    GO:0007565    female pregnancy    The set of physiological processes that allow an embryo or foetus to develop within the body of a female animal. It covers the time from fertilization of a female ovum by a male spermatozoon until birth.
    GO:0060364    frontal suture morphogenesis    The process in which the frontal suture is generated and organized.
    GO:0040007    growth    The increase in size or mass of an entire organism, a part of an organism or a cell.
    GO:0001701    in utero embryonic development    The process whose specific outcome is the progression of the embryo in the uterus over time, from formation of the zygote in the oviduct, to birth. An example of this process is found in Mus musculus.
    GO:0048839    inner ear development    The process whose specific outcome is the progression of the inner ear over time, from its formation to the mature structure.
    GO:0048286    lung alveolus development    The process whose specific outcome is the progression of the alveolus over time, from its formation to the mature structure. The alveolus is a sac for holding air in the lungs; formed by the terminal dilation of air passageways.
    GO:0030879    mammary gland development    The process whose specific outcome is the progression of the mammary gland over time, from its formation to the mature structure. The mammary gland is a large compound sebaceous gland that in female mammals is modified to secrete milk. Its development starts with the formation of the mammary line and ends as the mature gland cycles between nursing and weaning stages.
    GO:0008156    negative regulation of DNA replication    Any process that stops, prevents, or reduces the frequency, rate or extent of DNA replication.
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0010936    negative regulation of macrophage cytokine production    Any process that decreases the rate, frequency or extent of macrophage cytokine production. Macrophage cytokine production is the appearance of a chemokine due to biosynthesis or secretion following a cellular stimulus, resulting in an increase in its intracellular or extracellular levels.
    GO:0043524    negative regulation of neuron apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons.
    GO:0030512    negative regulation of transforming growth factor beta receptor signaling pathway    Any process that stops, prevents, or reduces the frequency, rate or extent of any TGF-beta receptor signaling pathway.
    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:0043932    ossification involved in bone remodeling    The formation or growth of bone or of a bony substance, or the conversion of fibrous tissue or of cartilage into bone, involved in response to injury or other physical, physiological or environmental stress stimuli.
    GO:0060021    palate development    The biological process whose specific outcome is the progression of the palate from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure. The palate is the partition that separates the nasal and oral cavities.
    GO:0002576    platelet degranulation    The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
    GO:0045740    positive regulation of DNA replication    Any process that activates or increases the frequency, rate or extent of DNA replication.
    GO:0060391    positive regulation of SMAD protein import into nucleus    Any process that increases the rate, frequency or extent of SMAD protein import into the nucleus, i.e. the directed movement of a SMAD proteins from the cytoplasm into the nucleus. Pathway-restricted SMAD proteins and common-partner SMAD proteins are involved in the transforming growth factor beta receptor signaling pathways.
    GO:0043065    positive regulation of apoptotic process    Any process that activates or increases the frequency, rate or extent of cell death by apoptotic process.
    GO:0030501    positive regulation of bone mineralization    Any process that activates or increases the frequency, rate or extent of bone mineralization.
    GO:0051781    positive regulation of cell division    Any process that activates or increases the frequency, rate or extent of cell division.
    GO:0032967    positive regulation of collagen biosynthetic process    Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of collagen, any of a group of fibrous proteins of very high tensile strength that form the main component of connective tissue in animals.
    GO:0010718    positive regulation of epithelial to mesenchymal transition    Any process that increases the rate, frequency, or extent of epithelial to mesenchymal transition. Epithelial to mesenchymal transition is where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell.
    GO:0051491    positive regulation of filopodium assembly    Any process that activates or increases the frequency, rate or extent of the assembly of a filopodium, a thin, stiff protrusion extended by the leading edge of a motile cell such as a crawling fibroblast or amoeba, or an axonal growth cone.
    GO:0010862    positive regulation of pathway-restricted SMAD protein phosphorylation    Any process that increases the rate, frequency or extent of pathway-restricted SMAD protein phosphorylation. Pathway-restricted SMAD proteins and common-partner SMAD proteins are involved in the transforming growth factor beta receptor signaling pathways.
    GO:0050714    positive regulation of protein secretion    Any process that activates or increases the frequency, rate or extent of the controlled release of a protein from a cell.
    GO:0045944    positive regulation of transcription from RNA polymerase II promoter    Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0043408    regulation of MAPK cascade    Any process that modulates the frequency, rate or extent of signal transduction mediated by the MAP kinase (MAPK) cascade.
    GO:0042981    regulation of apoptotic process    Any process that modulates the occurrence or rate of cell death by apoptotic process.
    GO:0042127    regulation of cell proliferation    Any process that modulates the frequency, rate or extent of cell proliferation.
    GO:1905005    regulation of epithelial to mesenchymal transition involved in endocardial cushion formation    Any process that modulates the frequency, rate or extent of epithelial to mesenchymal transition involved in endocardial cushion formation.
    GO:0043627    response to estrogen    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by an estrogen, C18 steroid hormones that can stimulate the development of female sexual characteristics.
    GO:0001666    response to hypoxia    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
    GO:0034616    response to laminar fluid shear stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a laminar fluid shear stress stimulus. Laminar fluid flow is the force acting on an object in a system where the fluid is moving across a solid surface in parallel layers. As an example, laminar shear stress can be seen where blood flows against the luminal side of blood vessel walls.
    GO:0032570    response to progesterone    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a progesterone stimulus.
    GO:0007435    salivary gland morphogenesis    The process in which the anatomical structures of the salivary gland are generated and organized.
    GO:0007179    transforming growth factor beta receptor signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a transforming growth factor beta receptor on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0042704    uterine wall breakdown    The sloughing of the endometrium and blood vessels during menstruation that results from a drop in progesterone levels.
    GO:0042060    wound healing    The series of events that restore integrity to a damaged tissue, following an injury.
cellular component
    GO:0030315    T-tubule    Invagination of the plasma membrane of a muscle cell that extends inward from the cell surface around each myofibril. The ends of T-tubules make contact with the sarcoplasmic reticulum membrane.
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0031012    extracellular matrix    A structure lying external to one or more cells, which provides structural support for cells or tissues.
    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:0043025    neuronal cell body    The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    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.
    GO:0031093    platelet alpha granule lumen    The volume enclosed by the membrane of the platelet alpha granule.
    GO:0030141    secretory granule    A small subcellular vesicle, surrounded by a membrane, that is formed from the Golgi apparatus and contains a highly concentrated protein destined for secretion. Secretory granules move towards the periphery of the cell and upon stimulation, their membranes fuse with the cell membrane, and their protein load is exteriorized. Processing of the contained protein may take place in secretory granules.

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        IGHG4_HUMAN | P018611adq 1bbj 2fl5 4b53 4c54 4c55 4d2n 5hvw 5lg1
        TGFB3_HUMAN | P106001ktz 1tgj 1tgk 2pjy 4um9

(-) Related Entries Specified in the PDB File

3eo0