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	Entry: PS50330

General information about the entry
Entry name	UIM
Accession number	PS50330
Entry type	MATRIX
Date	MAY-2003 (CREATED); MAY-2003 (DATA UPDATE); MAR-2013 (INFO UPDATE).
PROSITE Documentation	PDOC50330
Associated ProRule	PRU00213
Name and characterization of the entry
Description	Ubiquitin-interacting motif (UIM) repeat profile.
Matrix / Profile	/GENERAL_SPEC: ALPHABET='ACDEFGHIKLMNPQRSTVWY'; LENGTH=20; /DISJOINT: DEFINITION=PROTECT; N1=1; N2=20; /NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.2009; R2=0.00802289; TEXT='-LogE'; /CUT_OFF: LEVEL=0; SCORE=909; N_SCORE=8.5; MODE=1; TEXT='!'; /CUT_OFF: LEVEL=-1; SCORE=599; N_SCORE=6.0; MODE=1; TEXT='?'; /DEFAULT: B1=-128; E1=-128; MI=0; MD=0; IM=0; ID=0; DM=0; DI=0; M0=-15; A C D E F G H I K L M N P Q R S T V W Y /I: B1=0; IM=-76; II=-8; ID=-353; /M: SY='E'; M= -66,-252, 61, 66, -17, -23,-179,-189, -32,-206,-173, 18,-164, 31, 8, 38, 6, -70,-183, -40; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='E'; M=-111,-251, 79, 98, -41,-167,-180, -77,-155, -98, -16, -38,-165, -24,-152,-111,-153, 4,-182, 36; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='D'; M= -93,-252, 103, 77,-212,-166,-179,-189, -40,-206,-174, -23,-165, 17,-151, -4, -58,-192,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='E'; M= 29,-252, 38, 91,-212,-166,-179,-189, -50, -7, -19, -25, 16, 17,-151,-151,-152, -15,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='Q'; M= -80,-252, 67, 61,-212,-166,-179, -4,-153, 18, 65, -15,-165, 73, 33,-151,-152,-192,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='L'; M=-208,-220,-251,-258, 21,-224,-218, 69,-314, 88, 9,-238,-228,-240,-230,-226,-205,-178,-165, 44; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='Q'; M= 51,-252, 2, 49,-212,-166,-179,-189, -27, -44, 29,-138,-165, 91, 22, -44,-152,-192,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='M'; M= 3, -10,-134, -17,-111,-166,-180, -39, 29, 37, 72,-138,-165, 55, 55,-151, -41,-192, 41, 27; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='A'; M= 101,-227,-180,-184,-178,-198,-203,-166,-203,-183,-159,-181,-198,-189,-190,-188,-121, 17,-169,-172; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='I'; M=-176,-237,-152,-156,-191,-180,-190, 94, -50, 70, 62,-155,-179, -16,-167,-166, -18, 13,-175,-175; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='E'; M= 43,-252,-133, 73,-212,-166,-179,-189, -4, -42, 16, -43,-165, 64, 40, -5, -44,-192,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='M'; M= -4,-237,-153, 72,-190,-180,-190, 4,-174, 56, 111,-156,-180, 24,-168,-167,-166, -28,-175, -96; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='S'; M= -51,-241,-145, -40,-196,-175,-186,-179,-166,-196,-168,-149,-174,-158,-162, 113,-161,-188,-178,-176; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='M'; M= -28,-252,-134, 11,-212,-166,-179,-189, 33, 62, 93,-138,-165, 18, 42,-151, -54, -12,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='E'; M= -10,-252, -34, 65,-113, -33, -28, -20, 40, -27, -33, -37,-165, 65, 23, -10, -52, -62,-183,-178; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='E'; M= -40,-252, 61, 96,-212, -23,-179, -72,-153, -92, -39, 30,-165, -4,-151, -42, 10, -46,-183, -73; /I: MI=-423; MD=-343; IM=-76; II=-8; ID=-356; DM=-43; DI=-230; DD=-21; /M: SY='E'; M= 31, -93, -40, 48, 14, -48, -26, -39, -5, -30, 34, 12, -20, 39,-151, 9, -8, -17,-183, -3; /I: MI=-419; MD=-340; IM=-76; II=-8; ID=-355; DM=-43; DI=-228; DD=-21; /M: SY='E'; M= -9,-250, -20, 74,-209, 8,-177,-187, -9,-203, -56, 47, -4, 18, 29, 10, -21, -38,-180,-175; /I: MI=-419; MD=-340; IM=-76; II=-8; ID=-355; DM=-43; DI=-228; DD=-21; /M: SY='M'; M= -2,-250, 9, 56, -63, -40, -7,-186, 29, -28, 58, 6, 5, 35, 7, -4, -24,-189,-180, -38; /I: MI=-419; MD=-340; IM=-76; II=-8; ID=-355; DM=-43; DI=-228; DD=-21; /M: SY='R'; M= -9,-249, 29, 19, -50, 12, -35, -30, -9, -82,-170, -22, 13, 0, 63, 24, -32, -13, 19,-175; /I: E1=0; MI=-419; II=-8; DI=-189;
Numerical results
UniProtKB/Swiss-Prot release number: 2013_05, total number of sequence entries in that release: 540052. Total number of hits in UniProtKB/Swiss-Prot: 201 hits in 124 different sequences Number of hits on proteins that are known to belong to the set under consideration: 198 hits in 121 different sequences Number of hits on proteins that could potentially belong to the set under consideration: 0 hits in 0 different sequences Number of false hits (on unrelated proteins): 3 hits in 3 different sequences Number of known missed hits: 33 Number of partial sequences which belong to the set under consideration, but which are not hit by the pattern or profile because they are partial (fragment) sequences: 0 Precision (true hits / (true hits + false positives)): 98.51 % Recall (true hits / (true hits + false negatives)): 85.71 %
Comments
MATRIX_TYPE: protein_domain Scaling database: UniProtKB/Swiss-Prot: reversed Matrix author: K_Hofmann Taxonomic range: Eukaryotes Maximum known number of repetitions of the pattern in a single protein: 3 FT_KEY: REPEAT FT_DESC: UIM VERSION: 1
Cross-references
UniProtKB/Swiss-Prot	True positive hits: AKIB1_DANRE (Q1L8G6), AKIB1_HUMAN (Q9P2G1), AKIB1_MOUSE (Q6ZPS6), AN13A_HUMAN (Q8IZ07), AN13A_MOUSE (Q80UP5), AN13B_HUMAN (Q86YJ7), AN13B_MOUSE (Q5F259), AN13D_HUMAN (Q6ZTN6), AN13D_MOUSE (Q6PD24), ASB2_MOUSE (Q8K0L0), ATX3L_HUMAN (Q9H3M9), ATX3_CAEBR (Q60XN1), ATX3_CHICK (Q9W689), ATX3_HUMAN (P54252), ATX3_MOUSE (Q9CVD2), ATX3_RAT (O35815), DA1_ARATH (P0C7Q8), DAR1_ARATH (Q8W4F0), DAR6_ARATH (Q9FJX8), DNJB2_HUMAN (P25686), DNJB2_MOUSE (Q9QYI5), ENT1_SCHPO (O74423), ENT1_YEAST (Q12518), ENT2_YEAST (Q05785), EP15R_MOUSE (Q60902), EPN1_HUMAN (Q9Y6I3), EPN1_MOUSE (Q80VP1), EPN1_RAT (O88339), EPN2_HUMAN (O95208), EPN2_MOUSE (Q8CHU3), EPN2_RAT (Q9Z1Z3), EPN3_HUMAN (Q9H201), EPN3_MOUSE (Q91W69), EPN3_RAT (Q4V882), EPS15_HUMAN (P42566), EPS15_MOUSE (P42567), HGS_BOVIN (Q0V8S0), HGS_HUMAN (O14964), HGS_MOUSE (Q99LI8), HGS_RAT (Q9JJ50), HRS_DROME (Q960X8), HSE1_ASHGO (Q75DS3), HSE1_CANAL (Q5A895), HSE1_CANGA (Q6FN49), HSE1_CHAGB (Q2GT05), HSE1_CRYNB (P0CR79), HSE1_CRYNJ (P0CR78), HSE1_DEBHA (Q6BNP6), HSE1_KLULA (Q6CVA8), HSE1_MAGO7 (A4RF61), HSE1_NEUCR (Q7S6J4), HSE1_PICST (A3LXQ8), HSE1_SCHPO (O74749), HSE1_YARLI (Q6C2N2), HSE1_YEAST (P38753), MAT1_HUMAN (P51948), MAT1_MOUSE (P51949), MAT1_XENLA (P51951), POF10_SCHPO (Q9P7W4), PSMD4_ARATH (P55034), PSMD4_BOVIN (Q58DA0), PSMD4_DICDI (Q553E0), PSMD4_DROME (P55035), PSMD4_HUMAN (P55036), PSMD4_MOUSE (O35226), PSMD4_SCHMA (O17453), RAD13_SCHPO (P28706), RN166_CHICK (Q5F3B2), RN166_XENLA (Q3KPU8), RPN10_SCHPO (O94444), RPN10_YEAST (P38886), SPP41_YEAST (P38904), STAM1_CAEEL (O01498), STAM1_HUMAN (Q92783), STAM1_MOUSE (P70297), STAM2_CHICK (O93436), STAM2_HUMAN (O75886), STAM2_MOUSE (O88811), STAM2_RAT (Q5XHY7), UBP25_HUMAN (Q9UHP3), UBP25_MOUSE (P57080), UBP37_BOVIN (F1N5V1), UBP37_CANFA (E2RK09), UBP37_CHICK (E1C213), UBP37_DANRE (E7F6T8), UBP37_HUMAN (Q86T82), UBP37_MOUSE (Q8C0R0), UBP37_PIG (F1SRY5), UBXN7_DICDI (Q55BU7), UFO1_YEAST (Q04511), UIMC1_HUMAN (Q96RL1), UIMC1_MOUSE (Q5U5Q9), UIMC1_PIG (A0P8Z5), UIMC1_RAT (Q5PQK4), UIMC1_XENTR (A0JM80), UPL1_ARATH (Q8GY23), UPL2_ARATH (Q8H0T4), VPS27_ASHGO (Q755J9), VPS27_ASPCL (A1CEK1), VPS27_ASPFU (Q4WHN8), VPS27_ASPNC (A2QWA2), VPS27_ASPTN (Q0CJV3), VPS27_CANAL (Q5ABD9), VPS27_CANGA (Q6FQJ1), VPS27_CHAGB (Q2GS33), VPS27_CRYNB (P0CS27), VPS27_CRYNJ (P0CS26), VPS27_DEBHA (Q6BSD6), VPS27_EMENI (Q5BBK9), VPS27_KLULA (Q6CL17), VPS27_MAGO7 (A4QTV1), VPS27_NEOFI (A1DFP5), VPS27_NEUCR (Q7RZJ2), VPS27_PHANO (Q0U4Z8), VPS27_PICST (A3LX75), VPS27_SCHPO (O13821), VPS27_YARLI (Q6CFT4), VPS27_YEAST (P40343), ZFN2B_HUMAN (Q8WV99), ZFN2B_MOUSE (Q91X58), ZFN2B_RAT (Q4KLG9) False negative hits (sequences which belong to the set under consideration, but which have not been picked up by the pattern or profile): ASB2_BOVIN (Q3SX45), ASB2_RAT (Q5U2S6), ATX3H_ARATH (Q9M391), ATX3_CAEEL (O17850), ATX3_ORYSJ (Q8LQ36), DAR2_ARATH (Q0WSN2), DAR7_ARATH (Q9FJX9), HSE1_ASPCL (A1CEK6), HSE1_ASPFU (Q4WHP5), HSE1_ASPNC (A2QW93), HSE1_ASPTN (Q0CJU8), HSE1_COCIM (Q1E878), HSE1_EMENI (Q5BBL4), HSE1_NEOFI (A1DFN5), HSE1_PHANO (Q0U6X7), HSE1_USTMA (Q4P5J4), HUWE1_HUMAN (Q7Z6Z7), HUWE1_MOUSE (Q7TMY8), IGBP1_HUMAN (P78318), IGBP1_MOUSE (Q61249), IGBP1_RAT (O08836), PIPSL_HUMAN (A2A3N6), RBNS5_HUMAN (Q9H1K0), RBNS5_MOUSE (Q80Y56), RN166_HUMAN (Q96A37), RN166_MOUSE (Q3U9F6), RN166_RAT (Q6J1I7), UBP28_CHICK (Q5ZID5), UBP28_HUMAN (Q96RU2), UBP28_MOUSE (Q5I043), UBP28_RAT (D3ZJ96), VPS27_USTMA (Q4P7Q1), Y3893_DICDI (Q54QG5) False positive hits (sequences which do not belong to the set under consideration): MPH1_ASPNC (A2Q8R2), MPH1_ASPTN (Q0CWI2), MPH1_NEOFI (A1D4V5) 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]	1O06; 1P9C; 1P9D; 1Q0V; 1Q0W; 1UEL; 1YX4; 1YX5; 1YX6; 2D3G; 2KDE; 2KDF; 2KDI; 2KLZ; 2RR9; 3A1Q;

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