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(-) Description

Title :  THE 2.0 ANG RESOLUTION STRUCTURE OF BLYS, B LYMPHOCYTE STIMULATOR.
 
Authors :  D. A. Oren, Y. Li, Y. Volovik, T. S. Morris, C. Dharia, K. Das, O. Galperina, R. Gentz, E. Arnold
Date :  31 Jan 02  (Deposition) - 20 Mar 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Baff, Tall-1, Thank, Ztnf4, Cytokine, Tnf Superfamily, Jellyroll, Beta-Sandwich (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. A. Oren, Y. Li, Y. Volovik, T. S. Morris, C. Dharia, K. Das, O. Galperina, R. Gentz, E. Arnold
Structural Basis Of Blys Receptor Recognition.
Nat. Struct. Biol. V. 9 288 2002
PubMed-ID: 11862220  |  Reference-DOI: 10.1038/NSB769
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - B LYMPHOCYTE STIMULATOR
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Expression System Vector: PA2
    Expression System Vector Type: BACULOVIRUS
    Fragment: SOLUBLE PORTION (RESIDUES 134-285)
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BLYS, TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 13B

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 29)

Asymmetric Unit (3, 29)
No.NameCountTypeFull Name
1CIT2Ligand/IonCITRIC ACID
2DIO20Ligand/Ion1,4-DIETHYLENE DIOXIDE
3MG7Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 14)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2DIO13Ligand/Ion1,4-DIETHYLENE DIOXIDE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2DIO7Ligand/Ion1,4-DIETHYLENE DIOXIDE
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (29, 29)

Asymmetric Unit (29, 29)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLN A:234 , HOH A:504 , GLN B:234 , MG B:702 , HOH B:1019 , GLN C:234 , HOH C:1017BINDING SITE FOR RESIDUE MG A 701
02AC2SOFTWAREHOH A:504 , HOH A:507 , MG A:701 , HOH B:1019 , HOH B:1020 , HOH C:1017 , HOH C:1018BINDING SITE FOR RESIDUE MG B 702
03AC3SOFTWAREMG D:802 , HOH D:1013 , HOH D:1014 , HOH E:1020 , HOH E:1021 , HOH F:603 , HOH F:608BINDING SITE FOR RESIDUE MG D 801
04AC4SOFTWAREGLN D:234 , MG D:801 , HOH D:1013 , GLN E:234 , HOH E:1020 , GLN F:234 , HOH F:603BINDING SITE FOR RESIDUE MG D 802
05AC5SOFTWAREHOH A:10 , CIT A:889 , HOH F:395 , CIT F:888BINDING SITE FOR RESIDUE MG A 901
06AC6SOFTWARECIT A:889 , ARG F:214 , LYS F:252 , HOH F:395 , CIT F:888BINDING SITE FOR RESIDUE MG F 902
07AC7SOFTWAREHOH A:10 , ARG A:214 , LYS A:252 , CIT A:889 , CIT F:888BINDING SITE FOR RESIDUE MG A 903
08AC8SOFTWAREHOH A:4 , HOH A:44 , ARG A:214 , LYS A:252 , CIT A:889 , MG A:901 , MG A:903 , ARG F:214 , LYS F:216 , HIS F:218 , PHE F:220 , GLU F:223 , GLU F:254 , HOH F:344 , MG F:902BINDING SITE FOR RESIDUE CIT F 888
09AC9SOFTWAREHOH A:2 , ARG A:214 , LYS A:216 , HIS A:218 , PHE A:220 , GLU A:223 , GLU A:254 , HOH A:389 , MG A:901 , MG A:903 , ARG F:214 , LYS F:252 , HOH F:349 , CIT F:888 , MG F:902BINDING SITE FOR RESIDUE CIT A 889
10BC1SOFTWARELYS A:160 , PHE A:165 , ASN A:183 , GLN A:260BINDING SITE FOR RESIDUE DIO A 1001
11BC2SOFTWAREGLN A:234 , SER A:244 , TYR A:246 , SER B:244 , TYR B:246 , TYR C:246BINDING SITE FOR RESIDUE DIO A 1002
12BC3SOFTWARELEU A:282 , PHE B:194 , PHE C:194 , LEU C:282BINDING SITE FOR RESIDUE DIO C 1003
13BC4SOFTWAREHOH A:509 , HOH A:510 , HOH A:511 , HOH C:1020BINDING SITE FOR RESIDUE DIO A 1004
14BC5SOFTWAREILE B:158 , PHE B:165 , ASN B:183BINDING SITE FOR RESIDUE DIO B 1005
15BC6SOFTWAREGLY C:209 , LEU C:211 , ARG C:231 , CYS C:232 , PRO C:264BINDING SITE FOR RESIDUE DIO C 1006
16BC7SOFTWAREPHE C:165 , ASN C:183 , LYS C:184 , GLN C:260BINDING SITE FOR RESIDUE DIO C 1007
17BC8SOFTWARETYR C:192 , LYS C:252 , HOH C:1022 , HIS E:218BINDING SITE FOR RESIDUE DIO C 1008
18BC9SOFTWAREPHE D:165 , ASN D:183 , GLN D:260BINDING SITE FOR RESIDUE DIO D 1009
19CC1SOFTWAREPHE D:194 , PHE E:194 , LEU E:282 , LEU F:282BINDING SITE FOR RESIDUE DIO E 1010
20CC2SOFTWAREPHE E:165 , ASN E:183 , LYS E:184 , GLN E:260BINDING SITE FOR RESIDUE DIO E 1011
21CC3SOFTWARETYR D:246 , SER E:244 , TYR E:246 , TYR F:246BINDING SITE FOR RESIDUE DIO D 1012
22CC4SOFTWAREPHE F:165 , ASN F:183 , LYS F:184BINDING SITE FOR RESIDUE DIO F 1013
23CC5SOFTWAREALA C:268 , GLN C:269 , ILE C:270BINDING SITE FOR RESIDUE DIO C 1014
24CC6SOFTWARETHR A:157 , ALA A:268 , GLN A:269 , ILE A:270BINDING SITE FOR RESIDUE DIO A 1015
25CC7SOFTWAREHIS C:218 , TYR E:192 , LYS E:252 , HOH F:371BINDING SITE FOR RESIDUE DIO C 1016
26CC8SOFTWARELYS A:215 , LYS A:216 , VAL A:217 , GLY A:256 , GLU A:258BINDING SITE FOR RESIDUE DIO A 1017
27CC9SOFTWAREGLY B:209 , ARG B:231 , PRO B:264BINDING SITE FOR RESIDUE DIO B 1018
28DC1SOFTWARETHR E:157 , ALA E:268 , GLN E:269 , ILE E:270BINDING SITE FOR RESIDUE DIO E 1019
29DC2SOFTWAREPRO D:237 , HOH D:1015 , HOH E:1023 , HOH F:423 , HOH F:609BINDING SITE FOR RESIDUE DIO F 1020

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:232 -A:245
2B:232 -B:245
3C:232 -C:245
4D:232 -D:245
5E:232 -E:245
6F:232 -F:245

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1KXG)

(-) PROSITE Motifs  (1, 6)

Asymmetric Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNF_2PS50049 TNF family profile.TN13B_HUMAN148-284
 
 
 
 
 		  6A:148-284
B:148-284
C:148-284
D:148-284
E:148-284
F:148-284
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNF_2PS50049 TNF family profile.TN13B_HUMAN148-284
 
 
 
 
 		  3A:148-284
B:148-284
C:148-284
-
-
-
Biological Unit 2 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TNF_2PS50049 TNF family profile.TN13B_HUMAN148-284
 
 
 
 
 		  3-
-
-
D:148-284
E:148-284
F:148-284

(-) Exons   (5, 30)

Asymmetric Unit (5, 30)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.2bENST000003758872bENSE00001811977chr13:108922066-108922582517TN13B_HUMAN1-1131130--
1.2eENST000003758872eENSE00000686291chr13:108922688-10892277285TN13B_HUMAN114-142296A:142-142
B:142-142
C:142-142
D:142-142
E:142-142
F:142-142		1
1
1
1
1
1
1.3ENST000003758873ENSE00000854068chr13:108939151-10893920757TN13B_HUMAN142-161206A:142-161
B:142-161
C:142-161
D:142-161
E:142-161
F:142-161		20
20
20
20
20
20
1.5aENST000003758875aENSE00000854071chr13:108955601-108955713113TN13B_HUMAN161-198386A:161-198
B:161-198
C:161-198
D:161-198
E:161-198
F:161-198		38
38
38
38
38
38
1.5cENST000003758875cENSE00000854073chr13:108955802-108955952151TN13B_HUMAN199-249516A:199-249
B:199-249
C:199-249
D:199-249
E:199-249
F:199-249		51
51
51
51
51
51
1.6cENST000003758876cENSE00001925016chr13:108959174-108959385212TN13B_HUMAN249-285376A:249-285
B:249-285
C:249-285
D:249-285
E:249-285
F:249-285		37
37
37
37
37
37

(-) 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:144
 aligned with TN13B_HUMAN | Q9Y275 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:144
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    
          TN13B_HUMAN   142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
               SCOP domains d1kxga_ A: Soluble part of TALL-1, sTALL-1 (BAFF)                                                                                                SCOP domains
               CATH domains 1kxgA00 A:142-285  [code=2.60.120.40, no name defined]                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee......eee..eee..eeeeeee...eeee..eeee...eeeeeeeeeee.....eeeeeeeee..........eeeeeeeeee.......eeeeeeeeeee....eeeeee......ee......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------TNF_2  PDB: A:148-284 UniProt: 148-284                                                                                                   - PROSITE
           Transcript 1 (1) 1------------------Exon 1.5a  PDB: A:161-198             Exon 1.5c  PDB: A:199-249 UniProt: 199-249         ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) Exon 1.3            ---------------------------------------------------------------------------------------Exon 1.6c  PDB: A:249-285             Transcript 1 (2)
                 1kxg A 142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    


Chain B from PDB  Type:PROTEIN  Length:144
 aligned with TN13B_HUMAN | Q9Y275 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:144
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    
          TN13B_HUMAN   142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
               SCOP domains d1kxgb_ B: Soluble part of TALL-1, sTALL-1 (BAFF)                                                                                                SCOP domains
               CATH domains 1kxgB00 B:142-285  [code=2.60.120.40, no name defined]                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee......eee..eee..eeeeeee...eeee..eeee...eeeeeeeeeee......eeeeeeee..........eeeeeeeee........eeeeeeeeeee....eeeeee..............eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------TNF_2  PDB: B:148-284 UniProt: 148-284                                                                                                   - PROSITE
           Transcript 1 (1) 1------------------Exon 1.5a  PDB: B:161-198             Exon 1.5c  PDB: B:199-249 UniProt: 199-249         ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) Exon 1.3            ---------------------------------------------------------------------------------------Exon 1.6c  PDB: B:249-285             Transcript 1 (2)
                 1kxg B 142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    


Chain C from PDB  Type:PROTEIN  Length:144
 aligned with TN13B_HUMAN | Q9Y275 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:144
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    
          TN13B_HUMAN   142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
               SCOP domains d1kxgc_ C: Soluble part of TALL-1, sTALL-1 (BAFF)                                                                                                SCOP domains
               CATH domains 1kxgC00 C:142-285  [code=2.60.120.40, no name defined]                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee......eee..eee..eeeeeee...eeee..eeee...eeeeeeeeeee.....eeeeeeeee..........eeeeeeeeee.......eeeeeeeeeee....eeeeee..............eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------TNF_2  PDB: C:148-284 UniProt: 148-284                                                                                                   - PROSITE
           Transcript 1 (1) 1------------------Exon 1.5a  PDB: C:161-198             Exon 1.5c  PDB: C:199-249 UniProt: 199-249         ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) Exon 1.3            ---------------------------------------------------------------------------------------Exon 1.6c  PDB: C:249-285             Transcript 1 (2)
                 1kxg C 142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    


Chain D from PDB  Type:PROTEIN  Length:144
 aligned with TN13B_HUMAN | Q9Y275 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:144
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    
          TN13B_HUMAN   142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
               SCOP domains d1kxgd_ D: Soluble part of TALL-1, sTALL-1 (BAFF)                                                                                                SCOP domains
               CATH domains 1kxgD00 D:142-285  [code=2.60.120.40, no name defined]                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee......eee..eee..eeeeeee...eeee..eeee...eeeeeeeeeee......eeeeeeee..........eeeeeeeee........eeeeeeeeeee....eeeeee..............eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------TNF_2  PDB: D:148-284 UniProt: 148-284                                                                                                   - PROSITE
           Transcript 1 (1) 1------------------Exon 1.5a  PDB: D:161-198             Exon 1.5c  PDB: D:199-249 UniProt: 199-249         ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) Exon 1.3            ---------------------------------------------------------------------------------------Exon 1.6c  PDB: D:249-285             Transcript 1 (2)
                 1kxg D 142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    


Chain E from PDB  Type:PROTEIN  Length:144
 aligned with TN13B_HUMAN | Q9Y275 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:144
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    
          TN13B_HUMAN   142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
               SCOP domains d1kxge_ E: Soluble part of TALL-1, sTALL-1 (BAFF)                                                                                                SCOP domains
               CATH domains 1kxgE00 E:142-285  [code=2.60.120.40, no name defined]                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee......eee..eee..eeeeeee...eeee..eeee...eeeeeeeeeee......eeeeeeee..........eeeeeeeee........eeeeeeeeeee....eeeeee......ee......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------TNF_2  PDB: E:148-284 UniProt: 148-284                                                                                                   - PROSITE
           Transcript 1 (1) 1------------------Exon 1.5a  PDB: E:161-198             Exon 1.5c  PDB: E:199-249 UniProt: 199-249         ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) Exon 1.3            ---------------------------------------------------------------------------------------Exon 1.6c  PDB: E:249-285             Transcript 1 (2)
                 1kxg E 142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    


Chain F from PDB  Type:PROTEIN  Length:144
 aligned with TN13B_HUMAN | Q9Y275 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:144
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281    
          TN13B_HUMAN   142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
               SCOP domains d1kxgf_ F: Soluble part of TALL-1, sTALL-1 (BAFF)                                                                                                SCOP domains
               CATH domains 1kxgF00 F:142-285  [code=2.60.120.40, no name defined]                                                                                           CATH domains
           Pfam domains (1) --------------------------TNF-1kxgF01 F:168-284                                                                                                - Pfam domains (1)
           Pfam domains (2) --------------------------TNF-1kxgF02 F:168-284                                                                                                - Pfam domains (2)
           Pfam domains (3) --------------------------TNF-1kxgF03 F:168-284                                                                                                - Pfam domains (3)
           Pfam domains (4) --------------------------TNF-1kxgF04 F:168-284                                                                                                - Pfam domains (4)
           Pfam domains (5) --------------------------TNF-1kxgF05 F:168-284                                                                                                - Pfam domains (5)
           Pfam domains (6) --------------------------TNF-1kxgF06 F:168-284                                                                                                - Pfam domains (6)
         Sec.struct. author ....eeeeee......eee..eee..eeeeeee...eeee..eeee...eeeeeeeeeee......eeeeeeee..........eeeeeeeee........eeeeeeeeeee....eeeeee......ee......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------TNF_2  PDB: F:148-284 UniProt: 148-284                                                                                                   - PROSITE
           Transcript 1 (1) 1------------------Exon 1.5a  PDB: F:161-198             Exon 1.5c  PDB: F:199-249 UniProt: 199-249         ------------------------------------ Transcript 1 (1)
           Transcript 1 (2) Exon 1.3            ---------------------------------------------------------------------------------------Exon 1.6c  PDB: F:249-285             Transcript 1 (2)
                 1kxg F 142 VTQDCLQLIADSETPTIQKGSYTFVPWLLSFKRGSALEEKENKILVKETGYFFIYGQVLYTDKTYAMGHLIQRKKVHVFGDELSLVTLFRCIQNMPETLPNNSCYSAGIAKLEEGDELQLAIPRENAQISLDGDVTFFGALKLL 285
                                   151       161       171       181       191       201       211       221       231       241       251       261       271       281
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 6)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)
(-)
Architecture: Sandwich (5577)
(-)
Topology: Jelly Rolls (1293)
(-)
Homologous Superfamily: [code=2.60.120.40, no name defined] (56)
(-)
Human (Homo sapiens) (38)
1a1kxgA00A:142-285
1b1kxgB00B:142-285
1c1kxgC00C:142-285
1d1kxgD00D:142-285
1e1kxgE00E:142-285
1f1kxgF00F:142-285

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: C1q_TNF (45)
(-)
Family: TNF (37)
(-)
Homo sapiens (Human) (26)
1aTNF-1kxgF01F:168-284
1bTNF-1kxgF02F:168-284
1cTNF-1kxgF03F:168-284
1dTNF-1kxgF04F:168-284
1eTNF-1kxgF05F:168-284
1fTNF-1kxgF06F:168-284

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (TN13B_HUMAN | Q9Y275)
molecular function
    GO:0005125    cytokine activity    Functions to control the survival, growth, differentiation and effector function of tissues and cells.
    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:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
    GO:0005164    tumor necrosis factor receptor binding    Interacting selectively and non-covalently with the tumor necrosis factor receptor.
biological process
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    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:0030890    positive regulation of B cell proliferation    Any process that activates or increases the rate or extent of B cell proliferation.
    GO:0008284    positive regulation of cell proliferation    Any process that activates or increases the rate or extent of cell proliferation.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0033209    tumor necrosis factor-mediated signaling pathway    A series of molecular signals initiated by the binding of a tumor necrosis factor to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        TN13B_HUMAN | Q9Y275: 1jh5 1kd7 1oqd 1oqe 1osg 3v56 4v46 4zch

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1KXG)