PROSITE entry PS50958

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General information about the entry

Entry name [info]	SMB_2
Accession [info]	PS50958
Entry type [info]	MATRIX
Date [info]	01-JUN-2004 CREATED; 10-MAY-2017 DATA UPDATE; 27-MAR-2024 INFO UPDATE.
PROSITE Doc. [info]	PDOC00453
Associated ProRule [info]	PRU00350

Name and characterization of the entry

Description [info]

Somatomedin B (SMB) domain profile.

Matrix / Profile [info]

/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=43;
/DISJOINT: DEFINITION=PROTECT; N1=1; N2=43;
/NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=2.7050011; R2=0.0046693; TEXT='NScore';
/NORMALIZATION: MODE=-1; FUNCTION=LINEAR; R1=1596.1196289; R2=4.5231690; PRIORITY=1; TEXT='Heuristic 5.0%';
/CUT_OFF: LEVEL=0; SCORE=813; H_SCORE=5273; N_SCORE=6.5; MODE=1; TEXT='!';
/CUT_OFF: LEVEL=-1; SCORE=813; H_SCORE=5273; N_SCORE=6.5; MODE=1; TEXT='?';
/DEFAULT: M0=-9; D=-50; I=-50; B1=-100; E1=-100; MI=-105; MD=-105; IM=-105; DM=-105;

...

                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='E';  M= -4, 10,-26, 15, 19,-28,-14,  8,-28,  8,-21,-15,  4,-10,  7,  6, -2, -9,-22,-28,-13, 12;
/M: SY='Q';  M= -2,-13,-25,-13,  2,-20,-23,-12,  0, -8, -4,  0,-13, -5,  9,-10, -7, -7, -3,-24,-12,  4;
/M: SY='G';  M= -5, -2,-27, -5, -3,-21, 11,-13,-27, -2,-26,-18,  3,-16, -6, -6,  1, -5,-24, -5,-14, -4;
/M: SY='S';  M=  4, -1,-12, -4, -2,-18, -7,-11,-19, -5,-24,-16,  6,-11, -1, -1, 29, 24, -9,-35,-16, -2;
/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:         I=-12; MI=0; MD=-25; IM=0; DM=-25;
/M: SY='K';  M= -7,  2,-26,  3,  5,-27,-18,  5,-23, 19,-22, -9,  0,-14,  9, 15, -6, -9,-16,-24, -8,  6;
/M: SY='G';  M= -7, -5,-30, -3,-11,-17, 28,-17,-32,-10,-25,-18, -2, -6,-16,-14, -5,-15,-25,-20,-19,-13;
/M: SY='R';  M= -8, -9,-28,-10, -3,-22, -7, -6,-29, 21,-21,-11, -1,-18,  4, 44, -6,-10,-19,-20,-14, -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='F';  M= -8,-16,-22,-21,-20, 20,  5,-15,-16,-20,-10,-10, -8,-22,-23,-17, -2, -3,-11, -7,  7,-20;
/M: SY='E';  M= -3,  7,-25, 14, 37,-26,-18, -6,-21,  3,-16,-16, -3, -6,  8, -6,  0, -8,-17,-30,-19, 22;
/I:         I=-12; MI=0; MD=-25; IM=0; DM=-25;
/M: SY='S';  M=  1,-10,-23,-12, -7,-20,  1,-14,-18, -8,-14,-10, -6, -3, -4, -4,  2,  1,-15,-25,-17, -7;
/M: SY='F';  M=-18,-20,-23,-24,-22, 42,-29,-15,  4,-25, 11,  1,-17,-26,-27,-19,-19,-10,  0, -1, 22,-23;
/M: SY='S';  M= -4,  6,-19,  5, -1,-22, -3, -7,-24,  0,-25,-18, 12,-14, -1,  8, 16,  9,-17,-33,-17, -2;
/I:         I=-13; MD=-27;
/M: SY='R';  M= -5, -9,-14, -9, -8,-10, -5,-10, -6,  4, -8, -3, -7,-13, -6,  9, -5, -5,  2,-14, -8, -8; D=-13;
/I:         I=-13; MI=-27; MD=-27; IM=-27; DM=-27;
/M: SY='H';  M=-13,  7,-23,  9, -2,-13, -8, 10,-19, -3,-11, -9,  7,-17, -3,  2, -7, -9,-18,-19,  1, -4; D=-13;
/I:         I=-13; DM=-27;
/M: SY='H';  M=  0, -1,-19, -2,  3,-19, -2,  9,-21, -1,-18,-10,  2,-11,  0, -4,  6,  1,-16,-24, -9,  1; D=-13;
/I:         I=-13; DM=-27;
/M: SY='N';  M= -8,  0,-21, -8, -6,-12,-19, -9, -3, -6, -1, -2,  6,-18, -1, -5, -3,  5, -8,-27, -9, -4;
/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='R';  M= -8, -3,-25, -9, -5, -4,-16, 11,-17,  1,-15, -7,  6,-20,  3, 12, -5, -8,-18,-15,  6, -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='D';  M=-15, 43,-26, 56, 15,-35, -8,  0,-35, -1,-30,-28, 23,-11,  0, -9,  6, -5,-27,-40,-20,  8;
/M: SY='E';  M=  3, -1,-23,  2,  9,-16,-17, -3,-14, -3,-12,-10, -7,-13,  4, -9, -2, -6,-11,-17,  0,  6;
/M: SY='A';  M=  8,  2,-19, -4, -7, -7,-10,-10,-13, -7, -8,-10,  4,-17,-10, -6, -1, -5,-10,-22,-11, -8;
/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='K';  M=-10, -2,-24,  0,  2,-18,-19, -7,-17, 11,-18, -8, -2,-16,  8, 10, -2, -5,-11,-24, -9,  5;
/M: SY='D';  M=-13,  4,-26, 11,  8,-16,-19,  6,-18, -2,-10,-10, -2,-16,  0,  1, -6, -8,-14,-24, -1,  3;
/M: SY='Y';  M=-15, -6,-25, -6, -8,  2,-23,  3,-12, -2, -4, -4, -7,-21, -7,  2,-11, -4,-11,-11, 15, -9;
/M: SY='G';  M= -4, -3,-29, -1,-11,-29, 42,-12,-32,-13,-24,-11,  0,-18, -7,-15, -2,-17,-26,-22,-24, -9;
/I:         I=-14; MI=0; MD=-29; IM=0; DM=-29;
/M: SY='D';  M=-13, 35,-25, 41, 20,-31, -8,  1,-31,  1,-28,-25, 25,-11,  4, -6,  7, -4,-28,-38,-20, 12;
/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='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=-11,-20,-30,-22,-13, -1,-25,-20, -4, -8, -4, -4,-18,  3,-14,-11,-15, -6, -8, -2, -3,-14;
/M: SY='D';  M=-19, 49,-29, 64, 17,-37, -9,  1,-37,  0,-30,-29, 25,-11,  0, -9,  1, -9,-30,-40,-20,  9;
/M: SY='Y';  M=-20,-25,-25,-29,-25, 53,-30,  2,  0,-19,  5,  0,-20,-30,-24,-15,-20,-10, -5, 21, 57,-25;
/M: SY='E';  M= -9,  8,-25, 12, 22,-28,-16, -3,-26, 11,-22,-15,  4, -8, 16,  9,  5,  0,-22,-29,-15, 18;
/M: SY='S';  M= -1,  7,-21, 11, 11,-25, -9, -6,-26,  3,-24,-19,  6,-11,  4,  8, 13,  2,-18,-32,-18,  7;
/M: SY='V';  M=  1,-16,-16,-21,-12,  3,-24,-21,  6,-16,  4,  0,-15,-19,-17,-16, -3,  8, 11,-22, -6,-14;
/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:         I=-11; MI=0; MD=-23; IM=0; DM=-23;
/M: SY='G';  M=  2,-13,-20,-14,-14,-15,  5, -7, -7,-14,-11, -5, -9, -5,-13,-15, -4, -9, -3,-20,-13,-15; D=-11;
/I:         I=-11; DM=-23;
/M: SY='E';  M= -9,  5,-25, 11, 38,-25,-16,  1,-24, 11,-16,-13,  0, -3, 20,  9, -1, -8,-24,-22,-14, 28; D=-11;
/I:         I=-11; DM=-23;
/M: SY='P';  M= -3,-15,-19,-13, -9,-14,-18,-17, -1, -4,-11, -5,-14, 11,-11, -9, -3, -2,  5,-25,-15,-11; D=-11;
/I:         I=-11; DM=-23;
/M: SY='T';  M= -1,  5,  1,  3,  0,-20,-13,-14,-21,-10,-21,-18,  3,-13, -6,-12, 19, 21,-10,-37,-18, -3;
/I:         E1=0; IE=-105; DE=-105;

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Numerical results [info]

Numerical results for UniProtKB/Swiss-Prot release 2024_02 which contains 571'282 sequence entries.

Total number of hits	60 in 38 different sequences
Number of true positive hits	60 in 38 different sequences
Number of 'unknown' hits	0
Number of false positive hits	0
Number of false negative sequences	0
Number of 'partial' sequences	0

Precision (true positives / (true positives + false positives))	100.00 %
Recall (true positives / (true positives + false negatives))	100.00 %

Comments [info]

Matrix type [info]	protein_domain
Scaling database [info]	reversed
Author [info]	CJA_Sigrist
Taxonomic range [info]	Eukaryotes
Maximum number of repetitions [info]	2
Feature key [info]	DOMAIN
Feature description [info]	SMB
Version [info]	5

Cross-references [info]

UniProtKB/Swiss-Prot
True positive sequences

38 sequences

ENDOU_BOVIN (A6QLQ8), ENDOU_HUMAN (P21128), ENDOU_MOUSE (Q3V188),

ENDOU_PAROL (Q9PTU6), ENPP1_HUMAN (P22413), ENPP1_MOUSE (P06802), 
ENPP1_RAT   (Q924C3), ENPP2_BOVIN (A1A4K5), ENPP2_HUMAN (Q13822), 
ENPP2_MOUSE (Q9R1E6), ENPP2_RAT   (Q64610), ENPP3_BOVIN (P15396), 
ENPP3_HUMAN (O14638), ENPP3_MOUSE (Q6DYE8), ENPP3_PONAB (Q5R5M5), 
ENPP3_RAT   (P97675), PDE1_CROAD  (J3SEZ3), PDE2_CROAD  (J3SBP3), 
PDE_CRODO   (P0DQQ4), PDE_MACLB   (W8E7D1), PDE_NAJAT   (A0A2D0TC04), 
PRG4_HUMAN  (Q92954), PRG4_MOUSE  (Q9JM99), SBSPO_BOVIN (Q32L50), 
SBSPO_HUMAN (Q8IVN8), SBSPO_MOUSE (Q3UPR9), SUSD2_HUMAN (Q9UGT4), 
SUSD2_MOUSE (Q9DBX3), TINAG_BOVIN (Q3SZI1), TINAG_HUMAN (Q9UJW2), 
TINAL_HUMAN (Q9GZM7), TINAL_MOUSE (Q99JR5), TINAL_RAT   (Q9EQT5), 
VTNC_HUMAN  (P04004), VTNC_MOUSE  (P29788), VTNC_PIG(P48819), 
VTNC_RABIT  (P22458), YCF2E_CAEEL (P90850)

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Retrieve an alignment of UniProtKB/Swiss-Prot true positive hits:
[Clustal format, color, condensed view] [Clustal format, color]
[Clustal format, plain text] [Fasta format]
Retrieve the sequence logo from the alignment

PDB
[Detailed view]

79 PDB

1OC0; 1S4G; 1SSU; 2CQW; 2JQ8; 2XR9; 2XRG; 2YS0; 3BT1; 3BT2; 3NKM; 3NKN; 3NKO; 3NKP; 3NKQ; 3NKR; 3WAV; 3WAW; 3WAX; 3WAY; 4B56; 4GTW; 4GTX; 4GTY; 4GTZ; 4K24; 4ZG6; 4ZG7; 4ZG9; 4ZGA; 5DLT; 5DLV; 5DLW; 5GZ4; 5GZ5; 5HRT; 5IJQ; 5IJS; 5INH; 5KXA; 5L0B; 5L0E; 5L0K; 5LIA; 5LQQ; 5M0D; 5M0E; 5M0M; 5M0S; 5M7M; 5MHP; 5OHI; 5OLB; 5S9L; 5S9M; 5S9N; 6C01; 6C02; 6G4G; 6LEH; 6WET; 6WEU; 6WEV; 6WEW; 6WFJ; 6XKD; 6Y5M; 7CBA; 7MFH; 7P0K; 7P4J; 7P4O; 7Z0N; 7Z3K; 7Z3L; 8C3O; 8C3P; 8C4W; 8C7R
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