Comparing GFF3302 FitnessBrowser__psRCH2:GFF3302 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 20 (the maximum) hits to proteins with known functional sites (download)
3n2oB X-ray crystal structure of arginine decarboxylase complexed with arginine from vibrio vulnificus (see paper)
47% identity, 97% coverage: 20:635/637 of query aligns to 5:627/629 of 3n2oB
3n2oA X-ray crystal structure of arginine decarboxylase complexed with arginine from vibrio vulnificus (see paper)
47% identity, 97% coverage: 20:635/637 of query aligns to 6:628/630 of 3n2oA
3nzqA Crystal structure of biosynthetic arginine decarboxylase adc (spea) from escherichia coli, northeast structural genomics consortium target er600 (see paper)
45% identity, 96% coverage: 23:635/637 of query aligns to 6:622/628 of 3nzqA
Q9SI64 Arginine decarboxylase 1, chloroplastic; ADC 1; ADC-O; ARGDC 1; AtADC1; EC 4.1.1.19 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
37% identity, 93% coverage: 9:598/637 of query aligns to 29:616/702 of Q9SI64
3nzpB Crystal structure of the biosynthetic arginine decarboxylase spea from campylobacter jejuni, northeast structural genomics consortium target br53 (see paper)
32% identity, 96% coverage: 23:635/637 of query aligns to 4:578/591 of 3nzpB
Sites not aligning to the query:
6n2aA Meso-diaminopimelate decarboxylase from arabidopsis thaliana (isoform 1)
23% identity, 45% coverage: 107:392/637 of query aligns to 60:319/422 of 6n2aA
Sites not aligning to the query:
Q9X1K5 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)
30% identity, 24% coverage: 219:373/637 of query aligns to 147:277/386 of Q9X1K5
Sites not aligning to the query:
2yxxA Crystal structure analysis of diaminopimelate decarboxylate (lysa)
30% identity, 24% coverage: 219:373/637 of query aligns to 146:276/385 of 2yxxA
Sites not aligning to the query:
1tufA Crystal structure of diaminopimelate decarboxylase from m. Jannaschi (see paper)
25% identity, 43% coverage: 98:371/637 of query aligns to 57:314/434 of 1tufA
Sites not aligning to the query:
1twiA Crystal structure of diaminopimelate decarboxylase from m. Jannaschii in co-complex with l-lysine (see paper)
25% identity, 43% coverage: 98:371/637 of query aligns to 57:314/434 of 1twiA
Sites not aligning to the query:
Q58497 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii) (see paper)
25% identity, 43% coverage: 98:371/637 of query aligns to 61:318/438 of Q58497
Sites not aligning to the query:
3c5qA Crystal structure of diaminopimelate decarboxylase (i148l mutant) from helicobacter pylori complexed with l-lysine
26% identity, 31% coverage: 176:373/637 of query aligns to 104:286/394 of 3c5qA
Sites not aligning to the query:
B4XMC6 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Helicobacter pylori (Campylobacter pylori) (see paper)
26% identity, 29% coverage: 176:359/637 of query aligns to 106:275/405 of B4XMC6
Sites not aligning to the query:
4xg1B Psychromonas ingrahamii diaminopimelate decarboxylase with llp
28% identity, 41% coverage: 100:359/637 of query aligns to 48:289/418 of 4xg1B
Sites not aligning to the query:
7kh2D Structure of n-citrylornithine decarboxylase bound with plp (see paper)
24% identity, 37% coverage: 132:369/637 of query aligns to 83:311/415 of 7kh2D
Sites not aligning to the query:
1hkvA Mycobacterium diaminopimelate dicarboxylase (lysa) (see paper)
24% identity, 46% coverage: 70:363/637 of query aligns to 40:319/446 of 1hkvA
Sites not aligning to the query:
P9WIU7 Diaminopimelate decarboxylase; DAP decarboxylase; DAPDC; EC 4.1.1.20 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
24% identity, 46% coverage: 70:363/637 of query aligns to 41:320/447 of P9WIU7
Sites not aligning to the query:
5x7nA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
24% identity, 38% coverage: 129:368/637 of query aligns to 89:323/442 of 5x7nA
Sites not aligning to the query:
5x7mA Crystal structure of meso-diaminopimelate decarboxylase (dapdc) from corynebacterium glutamicum (see paper)
24% identity, 38% coverage: 129:368/637 of query aligns to 89:323/443 of 5x7mA
Sites not aligning to the query:
7ru7A Crystal structure of btrk, a decarboxylase involved in butirosin biosynthesis
25% identity, 38% coverage: 129:372/637 of query aligns to 65:298/412 of 7ru7A
Sites not aligning to the query:
>GFF3302 FitnessBrowser__psRCH2:GFF3302
MPVRRTRKDDGSQWTAADSRSIYGIRHWGAGYFAISDEGNVEVRPQGPSGEPIEFNGLIE
QLREAGLSLPLLVRFPGILQDRVRRLTGAFDANIERMEYAGKYTALYPIKVNQQEAVVEN
IIATQNVSIGLEAGSKPELMAVLALAPKGGTIVCNGYKDREFIRLALMGQKLGHKVFIVI
EKESEVGLVIEEANELKLTPQVGLRVRLSSLASSKWADTGGERSKFGLSAAQLLSVIERF
RAAEMDQGIRLLHFHMGSQIANLADYRQGFREAIRYYAELRALNLPVDYIDVGGGLGVDY
DGTHSRNASSINYDIDEYAGTVVGMLKEFCEAQGLPHPNIFSESGRAMTAHHAVLVMQVT
DVERHNDELPVIENYDELPEIVQSLADLLGPTDPEMVTETYWRATHYMSESSAQYASGKL
TLAQKALAEQSYFAICRRLYNQLKARQRSHRAVLDELNDKLADKYICNFSVFQSLPDTWA
IDQILPIVPLQRLSEEPVRRAVLQDLTCDSDGKIKHYVDEQSIESSMPVHEVAPGEEYFL
GVFLVGAYQEILGDMHNLFGDTDSVNVYQREDGSYYHAGIETHDTIEDMLRYVHLSPEEL
MTYYRDKVASAKLSAKERTQYIDALRLGLTRSSYLTP
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SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.
Lawrence Berkeley National Laboratory