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	Entry: PS51247

General information about the entry
Entry name	NIKD
Accession number	PS51247
Entry type	MATRIX
Date	AUG-2006 (CREATED); AUG-2006 (DATA UPDATE); MAR-2013 (INFO UPDATE).
PROSITE Documentation	PDOC51237
Name and characterization of the entry
Description	Nickel import ATP-binding protein nikD.
Matrix / Profile	/GENERAL_SPEC: ALPHABET='ABCDEFGHIKLMNPQRSTVWYZ'; LENGTH=52; /DISJOINT: DEFINITION=PROTECT; N1=6; N2=47; /NORMALIZATION: MODE=1; FUNCTION=LINEAR; R1=1.6773194; R2=0.0113544; TEXT='-LogE'; /CUT_OFF: LEVEL=0; SCORE=99999; N_SCORE=9999.0; MODE=1; TEXT='!'; /CUT_OFF: LEVEL=-1; SCORE=1614; N_SCORE=20.0; MODE=1; TEXT='?'; /CUT_OFF: LEVEL=-2; SCORE=425; N_SCORE=6.5; MODE=1; TEXT='??'; /DEFAULT: M0=-8; D=-50; I=-50; B1=-1000; E1=-1000; 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='M'; M=-10,-20,-20,-30,-20, 0,-20, 0, 20,-10, 20, 60,-20,-20, 0,-10,-20,-10, 10,-20, 0,-10; /M: SY='G'; M= 0,-10,-30,-10,-20,-30, 70,-20,-40,-20,-30,-20, 0,-20,-20,-20, 0,-20,-30,-20,-30,-20; /M: SY='V'; M= 0,-30,-10,-30,-30, 0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10, 0, 50,-30,-10,-30; /M: SY='V'; M= 0,-30,-10,-30,-30, 0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10, 0, 50,-30,-10,-30; /M: SY='A'; M= 50,-10,-10,-20,-10,-20, 0,-20,-10,-10,-10,-10,-10,-10,-10,-20, 10, 0, 0,-20,-20,-10; /M: SY='R'; M=-20,-10,-30,-10, 0,-20,-20, 0,-30, 30,-20,-10, 0,-20, 10, 70,-10,-10,-20,-20,-10, 0; /M: SY='C'; M=-10,-25, 47,-30,-25, -4,-30,-25, -4,-30, 17, 1,-25,-35,-25,-25,-20,-10, 0,-34,-14,-25; /M: SY='A'; M= 50,-10,-10,-20,-10,-20, 0,-20,-10,-10,-10,-10,-10,-10,-10,-20, 10, 0, 0,-20,-20,-10; /M: SY='D'; M=-20, 50,-30, 70, 20,-40,-10, 0,-40, 0,-30,-30, 20,-10, 0,-10, 0,-10,-30,-40,-20, 10; /M: SY='D'; M=-15, 26,-30, 37, 20,-40,-15, 5,-31, 5,-25,-16, 10,-10, 28, 0, 0,-10,-30,-31,-15, 24; /M: SY='V'; M= 0,-30,-10,-30,-30, 0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10, 0, 50,-30,-10,-30; /M: SY='A'; M= 50,-10,-10,-20,-10,-20, 0,-20,-10,-10,-10,-10,-10,-10,-10,-20, 10, 0, 0,-20,-20,-10; /M: SY='V'; M= 0,-30,-10,-30,-30, 0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10, 0, 50,-30,-10,-30; /M: SY='M'; M=-10,-20,-20,-30,-20, 0,-20, 0, 20,-10, 20, 60,-20,-20, 0,-10,-20,-10, 10,-20, 0,-10; /M: SY='E'; M= 0, 5,-19, 9, 28,-25, -9, -5,-25, 0,-25,-20, 5, -5, 9, -5, 21, 6,-19,-35,-20, 19; /M: SY='D'; M= 13, 21,-20, 27, 6,-31, -5, -9,-26, -5,-20,-20, 6,-10, -5,-15, 5, -5,-16,-31,-20, 0; /M: SY='G'; M= 0,-10,-30,-10,-20,-30, 70,-20,-40,-20,-30,-20, 0,-20,-20,-20, 0,-20,-30,-20,-30,-20; /M: SY='R'; M=-15, -5,-30, -5, 5,-25,-20, -5,-30, 40,-25,-10, 0,-15, 10, 49,-10,-10,-20,-20,-10, 5; /M: SY='I'; M=-10,-30,-30,-40,-30, 0,-40,-30, 50,-30, 20, 20,-20,-20,-20,-30,-20,-10, 30,-20, 0,-30; /M: SY='V'; M= 0,-30,-10,-30,-30, 0,-30,-30, 30,-20, 10, 10,-30,-30,-30,-20,-10, 0, 50,-30,-10,-30; /M: SY='E'; M=-10, 10,-30, 20, 60,-30,-20, 0,-30, 10,-20,-20, 0, 0, 20, 0, 0,-10,-30,-30,-20, 40; /M: SY='C'; M=-10, -9, 41,-14, -4,-31,-25, -9,-25, -9,-20, -9, -9,-24, 17, -9, -5,-10,-20,-34,-19, 7; /M: SY='G'; M= -5, -5,-30, -5, -1,-35, 27, -6,-31, -6,-25,-10, 0,-15, 18, -6, 0,-15,-30,-20,-20, 9; /M: SY='P'; M=-15, 17,-35, 32, 10,-35,-15, -9,-31, -5,-30,-25, 1, 38, -5,-15, -5,-10,-30,-35,-25, 0; /M: SY='V'; M= 24,-20,-10,-25,-20, -9,-16,-25, 11,-15, 0, 0,-20,-20,-20,-20, 0, 0, 26,-25,-15,-20; /M: SY='H'; M=-15, 5,-30, 10, 31,-25,-20, 47,-30, 0,-20,-10, 5, -9, 15, 0, -5,-15,-30,-30, -1, 21; /M: SY='E'; M= -5, 5,-19, 4, 23,-19,-20,-10,-19, 0,-15,-15, 0, -5, 4, -5, 10, 21,-14,-30,-15, 14; /M: SY='L'; M=-10,-30,-20,-30,-20, 10,-30,-20, 20,-30, 50, 20,-30,-30,-20,-20,-30,-10, 10,-20, 0,-20; /M: SY='F'; M=-20,-30,-20,-40,-30, 80,-30,-20, 0,-30, 10, 0,-20,-30,-40,-20,-20,-10, 0, 10, 30,-30; /M: SY='N'; M=-10, 21,-25, 10, 9,-29, -9, 10,-20, 5,-25,-10, 31,-15, 28, 5, 5, -5,-30,-31,-15, 19; /M: SY='R'; M= 17,-10,-19,-15, -5,-20, -9,-10,-19, 9,-15,-10, -5,-15, 0, 23, 0, -5, -9,-20,-15, -5; /M: SY='P'; M=-10,-20,-40,-10, 0,-30,-20,-20,-20,-10,-30,-20,-20, 90,-10,-20,-10,-10,-30,-30,-30,-10; /M: SY='K'; M= 19, -5,-20, -9, 0,-25,-10,-15,-20, 21,-20,-10, -5,-10, 0, 6, 0, -5,-10,-20,-15, 0; /M: SY='H'; M= -6, 0,-20, 0, 0,-20,-10, 48,-25,-10,-25, -9, 10,-15, 5, -5, 14, -1,-20,-35, 1, 0; /M: SY='A'; M= 50,-10,-10,-20,-10,-20, 0,-20,-10,-10,-10,-10,-10,-10,-10,-20, 10, 0, 0,-20,-20,-10; /M: SY='V'; M= 0,-16,-10,-20,-20, -5,-25,-25, 11,-15, 0, 0,-16,-20,-20,-15, 4, 24, 26,-30,-10,-20; /M: SY='T'; M= 24, -5,-10,-15,-10,-15,-10,-20,-10,-10,-10,-10, -5,-10,-10,-15, 15, 26, 0,-25,-15,-10; /M: SY='R'; M=-20,-10,-30,-10, 0,-20,-20, 0,-30, 30,-20,-10, 0,-20, 10, 70,-10,-10,-20,-20,-10, 0; /M: SY='T'; M= 5, 0,-10, -5, -5,-15, -9,-15,-15,-10,-20,-15, 5,-10, -5,-10, 31, 34, -5,-35,-15, -5; /M: SY='L'; M=-10,-30,-20,-30,-20, 10,-30,-20, 20,-30, 50, 20,-30,-30,-20,-20,-30,-10, 10,-20, 0,-20; /M: SY='V'; M= -5,-30,-15,-30,-25, 5,-30,-25, 25,-25, 29, 15,-30,-30,-25,-20,-19, -5, 31,-25, -5,-25; /M: SY='H'; M= -4, 0,-19, 0, 0,-20, -9, 42,-25,-10,-25,-10, 10,-15, 5, -5, 16, 1,-19,-35, -1, 0; /M: SY='A'; M= 50,-10,-10,-20,-10,-20, 0,-20,-10,-10,-10,-10,-10,-10,-10,-20, 10, 0, 0,-20,-20,-10; /M: SY='H'; M=-20, 0,-30, 0, 0,-20,-20,100,-30,-10,-20, 0, 10,-20, 10, 0,-10,-20,-30,-30, 20, 0; /M: SY='Q'; M=-10,-16,-25,-16, -1,-14,-25, -6, 1,-11, 17, 10,-16,-20, 18, -6,-16,-10, -9,-20, -5, 9; /M: SY='A'; M= 26,-19,-10,-25,-19,-10,-14,-25, 9,-15, 0, 0,-19,-19,-19,-20, 0, 0, 24,-25,-15,-19; /M: SY='L'; M=-10,-30,-20,-30,-20, 10,-30,-20, 20,-30, 50, 20,-30,-30,-20,-20,-30,-10, 10,-20, 0,-20; /M: SY='C'; M=-15,-20, 41,-25,-25, 6,-30, -4,-14,-19, -9, -9,-20,-35,-19,-19,-15,-10,-10, -8, 28,-25; /M: SY='G'; M= -9,-10,-30,-10,-10,-25, 27,-10,-35, 4,-25,-15, 0,-20, -6, 23, -5,-15,-25,-20,-20,-10; /M: SY='M'; M= 0,-10,-15,-16,-10, -9,-10, -5, 1,-10, -4, 22, -6,-15, 0,-10, 9, 4, 0,-29, -9, -5; /M: SY='E'; M=-10, 5,-30, 10, 41,-35,-20, 5,-25, 10,-20,-10, 0, -5, 39, 5, 0,-10,-30,-25,-15, 40; /M: SY='P'; M=-10,-25,-29,-20,-10, -9,-25,-20, 1,-20, 12, 1,-25, 27,-15,-20,-20,-10, -9,-25,-14,-15; /I: E1=0; IE=-105; DE=-105;
Post-processing
PROMOTED_BY: PS50893;
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: 16 hits in 16 different sequences Number of hits on proteins that are known to belong to the set under consideration: 16 hits in 16 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): 0 hits in 0 different sequences Number of known missed hits: 0 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)): 100.00 % Recall (true hits / (true hits + false negatives)): 100.00 %
Comments
MATRIX_TYPE: protein_domain Scaling database: UniProtKB/Swiss-Prot: reversed Matrix author: V_Lesaux Taxonomic range: Prokaryotes (Bacteria) Maximum known number of repetitions of the pattern in a single protein: 1 VERSION: 1
Cross-references
UniProtKB/Swiss-Prot	True positive hits: NIKD_BRUA2 (Q2YL70), NIKD_BRUAB (Q578S8), NIKD_BRUME (Q8YCN8), NIKD_BRUSU (Q8FVM9), NIKD_ECO57 (Q8X5U1), NIKD_ECOL5 (Q0TBX9), NIKD_ECOL6 (Q8FCN0), NIKD_ECOLI (P33593), NIKD_ECOUT (Q1R5D9), NIKD_PSEPK (Q88HL1), NIKD_RHORT (Q2RS21), NIKD_SHIBS (Q31VE7), NIKD_SHIDS (Q32AQ2), NIKD_SHIF8 (Q0SZJ4), NIKD_SHIFL (Q83J78), NIKD_SHISS (Q3YW49) 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

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