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We are deeply saddened by the passing of Amos Bairoch (1957–2025), the creator of PROSITE. We wish to dedicate our latest paper, published shortly before his death, to him. He will always be a source of inspiration to us.
Our deepest condolences go out to his family and friends, and to all those who had the privilege of working with him. Rest in peace, Amos. Your work will live on long after you are gone.
Amos Bairoch

PROSITE entry PS50050


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PURL: https://purl.expasy.org/prosite/signature/PS50050

Direct ScanProsite submission
General information about the entry

Entry name [info] TNFR_NGFR_2
Accession [info] PS50050
Entry type [info] MATRIX
Date [info] 01-NOV-1997 CREATED;
26-FEB-2020 DATA UPDATE;
29-MAY-2024 INFO UPDATE.
PROSITE Doc. [info] PDOC00561
Associated ProRule [info] PRU00206

Name and characterization of the entry

Description [info] TNFR/NGFR family cysteine-rich region domain profile.
Matrix / Profile [info] 
/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=41;
/DISJOINT: DEFINITION=PROTECT; N1=5; N2=37;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=-4.9359999; R2=0.0214000; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=538.8750000; R2=4.1875000; PRIORITY=1; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=628; H_SCORE=3169; N_SCORE=8.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=535; H_SCORE=2779; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: D=-20; I=-20; B1=*; E1=0; MI=-105; MD=-105; IM=-105; DM=-105; MM=1; M0=-1;

...
 
                A   B   C   D   E   F   G   H   I   K   L   M   N   P   Q   R   S   T   V   W   Y   Z
/I:         B1=0; BI=-105; BD=-105;
/M: SY='P';  M= -4, -2,-25, -1,  3,-23,-13,-11,-19, -2,-21,-15, -1, 13, -2, -4,  3,  4,-17,-30,-19, -1;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='P';  M= -4, -7,-25, -5,  4,-24,-12, -3,-21,  1,-20,-11, -5,  5,  3,  0, -2, -7,-18,-24,-14,  2;
/M: SY='E';  M= -3,  0,-27,  4, 11,-23,-12, -7,-21, -2,-20,-15, -4, 11, -1, -9, -1, -6,-20,-27,-17,  4;
/M: SY='G';  M= -3,  3,-27,  1, -9,-28, 39,-11,-34, -9,-29,-19, 10,-17,-10,-10,  4,-12,-27,-26,-25, -9;
/I:         II=-7; MI=-8; IM=-8; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='Y';  M=-11, -7,-23, -9,  1,  0,-21,  2,-12, -8, -7, -3, -6,-16, -1, -6, -4,  1,-12,-14,  4,  0;
/M: SY='Y';  M=-19,-22,-25,-26,-22, 44,-29,  7, -2,-17,  2,  0,-18,-29,-20,-13,-18,-10, -7, 16, 52,-22;
/M: SY='C';  M= -6, -8,  5,-12, -8,-14,-19,-11,-13,-12,-10, -8, -4,-18, -5,-10,  1,  3, -9,-27,-11, -7;
/M: SY='D';  M= -5, 10,-21, 11,  3,-21,-12, -1,-21, -3,-18,-15,  7,-11, -1, -4,  3, -1,-17,-29,-11,  0;
/M: SY='S';  M= -4, -3,-23, -3,  1,-18, -8, -4,-17, -4,-14,-10, -2,-12,  0, -5,  2,  0,-13,-24, -9, -1;
/I:         MD=-22;
/M: SY='W';  M= -2, -5,-20, -6, -3,-13, -6, -8,-15, -2,-15,-11, -3,-10, -3, -5, -1, -3,-13,  1, -6, -3; D=-4;
/I:         MD=-22;
/M: SY='N';  M=  0,  6,-14,  2, -1,-15,  1,  3,-15, -4,-17,-11, 13, -8, -2, -4,  7,  0,-14,-23,-11, -2; D=-4;
/I:         MD=-22;
/M: SY='H';  M= -3, -4,-13, -5,  0, -5, -9,  6, -8, -3, -6, -2, -2, -7,  3, -1, -2, -3, -8, -7,  2,  1; D=-4;
/I:         II=-4; MI=0; IM=0; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='C';  M=  0,-10,  9,-12, -9, -4,-14, -9, -6,-12, -3, -4, -8,-15,-10,-10, -1,  1,  0,-19, -7, -9; D=-4;
/I:         DM=-22;
/M: SY='D';  M= -9,  5,-27,  7,  7,-23, -4, -5,-26,  2,-24,-16,  6, -5,  2,  2,  2, -5,-23,-27,-16,  3;
/M: SY='Q';  M= -5, -7,-24, -9,  1,-15,-19,  0,-10, -1,-10, -4, -4,-11,  2,  0, -3, -4,-10,-24, -7,  0;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/I:         MD=-15;
/M: SY='R';  M= -4, -7,-16, -8, -3, -8,-16, -2, -6, -1, -4, -2, -5,-14, -2,  3, -5, -2, -3,-17, -3, -4; D=-6;
/I:         I=-6; MI=-20; MD=-20; IM=-20; DM=-20;
/M: SY='P';  M= -4, -6,-21, -4,  1,-17,-12, -7,-12, -3,-14, -9, -4, 14,  1, -1,  0, -3,-14,-21,-14, -1; D=-6;
/I:         DM=-15;
/M: SY='C';  M=-12,-19, 78,-26,-25,-17,-28,-14,-27,-25,-18,-16,-18,-36,-22,-24,-13,-13,-14,-28,-17,-24;
/M: SY='T';  M= -4, -4,-19, -7, -4,-15,-15, -9,-16,  2,-16, -9,  0,-13,  0,  8,  9, 14, -9,-26, -9, -3;
/I:         II=-6; MI=-8; IM=-8; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='R';  M= -8, -6,-25, -8, -3,-16,-18, -2,-11,  0,-12, -5, -2, -6,  0,  1, -4, -3,-11,-24, -8, -3;
/M: SY='C';  M=-10,-20,120,-30,-30,-20,-30,-30,-30,-30,-20,-20,-20,-40,-30,-30,-10,-10,-10,-50,-30,-30;
/M: SY='E';  M= -7,  3,-27,  5,  9,-24,-10, -6,-22,  0,-21,-15,  3,  5,  2, -4,  1, -3,-21,-29,-18,  4;
/I:         MD=-15;
/M: SY='P';  M= -6, -7,-28, -5, -1,-21,-11,-10,-16, -5,-17,-11, -5, 19, -6, -9, -4, -6,-17,-27,-18, -5; D=-4;
/I:         MD=-15;
/M: SY='G';  M= -3,  0,-26, -1, -7,-24, 31,-11,-29,-10,-24,-16,  5,-17,-10,-11,  1,-11,-23,-23,-21, -9; D=-4;
/I:         MD=-15;
/M: SY='Q';  M= -9, -5,-22, -6,  0, -7,-12,  0,-13, -8, -6, -2, -4,-16,  1, -7, -4, -2,-13,-20, -2,  0; D=-4;
/I:         II=-7; MI=0; IM=0; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M:         M= -6, -9,-20, -9, -3, -8, -7, -7,-10, -4,-10, -6, -7,-16, -6,  0, -4, -6, -5,-17, -4, -5; D=-4;
/I:         DM=-15;
/M: SY='V';  M= -4,-18,-11,-18, -8, -8,-23,-19,  5,-13,  3,  3,-18,-18,-14,-14, -9, -4, 11,-27,-11,-11;
/M: SY='V';  M= -2,-12,-20,-15, -8,-11,-21,-14,  0, -3, -2,  2,-10,-18, -5, -5, -5,  1,  4,-24, -8, -7;
/M: SY='Q';  M= -2, -4,-23, -7,  3,-20,-15, -5,-16,  7,-16, -6, -1,-13, 10,  7,  2, -3,-13,-24,-11,  6;
/M: SY='P';  M= -8, -2,-28,  1,  2,-20,-14, -9,-16, -5,-16,-12, -3, 12, -5, -9, -4, -6,-17,-28,-16, -3;
/M: SY='C';  M= -4,-16, 73,-23,-23,-22,-10,-22,-29,-24,-21,-18,-14,-32,-24,-24, -6,-11,-13,-41,-27,-24;
/M: SY='T';  M= -1,  0,-17, -4, -5,-17,-12,-15,-14, -7,-15,-12,  2, -6, -6, -9, 12, 23, -8,-30,-14, -6;
/M: SY='R';  M=  1, -3,-24, -3,  2,-22, -7, -9,-20,  1,-18,-12, -2, -6,  0,  3,  2, -3,-15,-24,-16,  0;
/I:         MD=-20;
/M: SY='T';  M= -5,  4,-19,  1,  1,-17,-14, -8,-15, -1,-17,-11,  6, -9,  0, -4,  7, 12,-12,-26,-11,  1; D=-6;
/I:         II=-7; MI=-8; IM=-8; MD=-15; DM=-15; I=0,0,-15,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0;
/M: SY='S';  M= -2,  0,-21, -2,  1,-23, -4, -5,-22,  1,-21,-12,  4,-13,  7,  5,  9,  5,-17,-28,-14,  3;
/M: SY='D';  M=-12, 34,-26, 37, 11,-30, -8,  3,-29,  1,-28,-23, 26, -8,  1, -5,  4, -5,-27,-37,-19,  6;
/M: SY='T';  M=  7, -7,-13,-14,-11,-12,-17,-19, -7, -8, -9, -8, -5,-11,-11, -7, 11, 25,  4,-28,-13,-12;
/M: SY='V';  M= -6,-16,-20,-16,-10,-11,-27,-15, 10, -9,  1,  3,-16,-18,-10,-11, -9, -3, 16,-27, -9,-11;
/M: SY='C';  M= -9,-19,115,-29,-29,-20,-29,-29,-29,-29,-20,-20,-18,-39,-29,-29, -9,-10,-10,-49,-30,-29;
/I:         E1=0; IE=-105; DE=-105;
» more

Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2025_04 which contains 573'661 sequence entries.


Total number of hits 166 in 82 different sequences
Number of true positive hits 165 in 81 different sequences
Number of 'unknown' hits 0
Number of false positive hits 1
Number of false negative sequences 19
Number of 'partial' sequences 0
Precision (true positives / (true positives + false positives)) 99.40 %
Recall (true positives / (true positives + false negatives)) 89.67 %

Comments [info]

Taxonomic range [info] Eukaryotes, Eukaryotic viruses
Maximum number of repetitions [info] 4
Matrix type [info] protein_domain
Scaling database [info] reversed
Author [info] K_Hofmann
Feature key [info] REPEAT
Feature description [info] TNFR-Cys
Version [info] 6

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences		 81 sequences 

A53R_VACCW  (P24756), A53_VACCC   (P21071), ACCR1_ARATH (Q9S7D9), 

ACR4L_ARATH (Q9LX29), CD27_HUMAN  (P26842), CD27_MOUSE  (P41272), 
CKI4_ORYSJ  (Q75J39), CRI4_MAIZE  (O24585), CRMB_CAMPM  (P68636), 
CRMB_CAMPS  (P68637), CRMB_CWPXG  (O73559), CRMB_MONPV  (P0DTN0), 
CRMB_VAR67  (P0DSV7), CRMB_VARV   (P0DSV8), TNF6B_HUMAN (O95407), 
TNR11_HUMAN (Q9Y6Q6), TNR11_MOUSE (O35305), TNR14_HUMAN (Q92956), 
TNR14_MOUSE (Q80WM9), TNR16_CHICK (P18519), TNR16_HUMAN (P08138), 
TNR16_MOUSE (Q9Z0W1), TNR16_RAT   (P07174), TNR19_HUMAN (Q9NS68), 
TNR19_MOUSE (Q9JLL3), TNR1A_BOVIN (O19131), TNR1A_HUMAN (P19438), 
TNR1A_MOUSE (P25118), TNR1A_PIG   (P50555), TNR1A_RAT   (P22934), 
TNR1B_HUMAN (P20333), TNR1B_MOUSE (P25119), TNR1B_RAT   (Q80WY6), 
TNR21_HUMAN (O75509), TNR21_MOUSE (Q9EPU5), TNR21_RAT   (D3ZF92), 
TNR22_MOUSE (Q9ER62), TNR23_MOUSE (Q9ER63), TNR25_HUMAN (Q93038), 
TNR26_MOUSE (P83626), TNR27_HUMAN (Q9HAV5), TNR27_MOUSE (Q8BX35), 
TNR3_HUMAN  (P36941), TNR3_MOUSE  (P50284), TNR4_HUMAN  (P43489), 
TNR4_MOUSE  (P47741), TNR4_RAT(P15725), TNR5_BOVIN  (Q28203), 
TNR5_CALJA  (Q3LRP1), TNR5_CANLF  (Q7YRL5), TNR5_HORSE  (Q3ZTK5), 
TNR5_HUMAN  (P25942), TNR5_MOUSE  (P27512), TNR5_PIG(Q8SQ34), 
TNR6_BOVIN  (P51867), TNR6_CERAT  (Q9BDN4), TNR6_HUMAN  (P25445), 
TNR6_MACFA  (Q9TSN4), TNR6_MACMU  (Q9BDP2), TNR6_MACNE  (Q9BDN0), 
TNR6_MOUSE  (P25446), TNR6_PIG(O77736), TNR6_RAT(Q63199), 
TNR8_HUMAN  (P28908), TNR8_MOUSE  (Q60846), TNR8_RAT(P97525), 
TNR9_HUMAN  (Q07011), TR10A_HUMAN (O00220), TR10B_HUMAN (O14763), 
TR10B_MOUSE (Q9QZM4), TR10C_HUMAN (O14798), TR10D_HUMAN (Q9UBN6), 
TR11B_BOVIN (A5D7R1), TR11B_HUMAN (O00300), TR11B_MOUSE (O08712), 
TR11B_RAT   (O08727), UL144_HCMVM (F5HAM0), UL144_HCMVO (Q68396), 
VT2_MYXVL   (P29825), VT2_RFVKA   (P25943), WGN_DROME   (Q9VWS4)
» more

UniProtKB/Swiss-Prot
False negative sequences		 19 sequences 

ACCR2_ARATH (O80963), C22L_VACCC  (P21106), EDAR_HUMAN  (Q9UNE0), 

EDAR_MOUSE  (Q9R187), EDAR_ORYLA  (Q90VY2), TNR12_HUMAN (Q9NP84), 
TNR12_MOUSE (Q9CR75), TNR17_HUMAN (Q02223), TNR17_MOUSE (O88472), 
TNR18_HUMAN (Q9Y5U5), TNR18_MOUSE (O35714), TNR9_MOUSE  (P20334), 
TR13B_HUMAN (O14836), TR13B_MOUSE (Q9ET35), TR13C_HUMAN (Q96RJ3), 
TR13C_MOUSE (Q9D8D0), TR19L_HUMAN (Q969Z4), TR19L_MACFA (Q9N092), 
TR19L_MOUSE (Q8BX43)
» more

UniProtKB/Swiss-Prot
False positive sequences		 1 sequence 

LAMA5_HUMAN (O15230)


				
	

	

		PDB
[Detailed view]		
		
			100 PDB
			


			pdb_00001d0g; pdb_00001d4v; pdb_00001du3; pdb_00001ext; pdb_00001ft4; pdb_00001jma; pdb_00001ncf; pdb_00001sg1; pdb_00001tnr; pdb_00001za3; pdb_00002aw2; pdb_00002h9g; 
			
				pdb_00002hev; pdb_00002hey; pdb_00002kn1; pdb_00003alq; pdb_00003buk; pdb_00003ij2; pdb_00003k51; pdb_00003me2; pdb_00003me4; pdb_00003mhd; pdb_00003mi8; pdb_00003qbq; 
				pdb_00003qd6; pdb_00003qo4; pdb_00003thm; pdb_00003tje; pdb_00003u3p; pdb_00003u3q; pdb_00003u3s; pdb_00003u3t; pdb_00003u3v; pdb_00003urf; pdb_00003x3f; pdb_00004e4d; 
				pdb_00004fhq; pdb_00004giq; pdb_00004i9x; pdb_00004j6g; pdb_00004kgg; pdb_00004kgq; pdb_00004msv; pdb_00004mxw; pdb_00004n90; pdb_00004od2; pdb_00004rsu; pdb_00004yn0; 
				pdb_00005bnq; pdb_00005cir; pdb_00005dmi; pdb_00005dmj; pdb_00005ihl; pdb_00005l36; pdb_00005t2q; pdb_00005t2r; pdb_00005tl5; pdb_00005tlj; pdb_00005tlk; pdb_00005wi8; 
				pdb_00005wiw; pdb_00005wjf; pdb_00006a3v; pdb_00006a3w; pdb_00006bwv; pdb_00006cpr; pdb_00006cu0; pdb_00006fax; pdb_00006mgp; pdb_00006mhr; pdb_00006mi2; pdb_00006mkz; 
				pdb_00006ng3; pdb_00006ogx; pdb_00006okm; pdb_00006okn; pdb_00006pe8; pdb_00006pe9; pdb_00006t3j; pdb_00006y8k; pdb_00007d4b; pdb_00007kp7; pdb_00007kp8; pdb_00007kpb; 
				pdb_00007kx0; pdb_00007msg; pdb_00007msj; pdb_00007p3i; pdb_00007x9g; pdb_00007yk4; pdb_00007yxu; pdb_00008ag1; pdb_00008dpx; pdb_00008ds5; pdb_00008gye; pdb_00008hlb; 
				pdb_00008oz3; pdb_00008yx1; pdb_00008yx9; pdb_00009cu8
			
			

			» more