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metschnikowiaceae cah: functional enrichment (loss)

One-sided hypergeometric test per term; Benjamini-Hochberg FDR within each scope, level and vocabulary. Candidates are the loss candidates: gene families present in the OUT group and absent from the IN group. Universe: proteome. Background clustered: True (74857 sequences in 21615 clusters, mmseqs easy-cluster --min-seq-id 0.3 -c 0.8). Family level: one unit per candidate family and per background cluster.

Sources: Pfam: 2026-01-27-Pfam38.2; InterPro entries: 110.0; GO: releases/2026-07-26; analysis generated 2026-10-12T18:21:36. Source tables: studies/fungi/metschnikowiaceae_cah/analysis/enrichment/outputs/loss/proteome_clustered. Full record: PROVENANCE. Run report: report.html.

Caveats

Summary figure

Enrichment summary figure for metschnikowiaceae_cah (loss)

Annotation coverage

Fraction of proteins with at least one term per vocabulary. Universe = all proteins of the species; candidates = the candidate set.

SpeciesSetProteinsPfamPfam clanInterProGOAny
Candalbiuniverse604084.2%65.5%88.1%82.9%90.2%
Candalbicandidates1566.7%53.3%73.3%60.0%73.3%
Candtropuniverse622681.9%64.7%85.9%76.9%86.3%
Candtropcandidates1566.7%53.3%73.3%60.0%73.3%
Loddelonuniverse577982.1%64.8%86.1%77.5%86.6%
Loddeloncandidates850.0%37.5%75.0%50.0%75.0%
Meyeguiluniverse591985.5%68.6%89.1%80.3%89.4%
Meyeguilcandidates955.6%44.4%66.7%33.3%66.7%
Debahansuniverse628483.2%65.2%86.6%78.1%86.8%
Debahanscandidates1450.0%35.7%64.3%50.0%64.3%
Schestipuniverse579787.4%69.0%90.8%82.2%91.1%
Schestipcandidates1656.2%43.8%75.0%37.5%75.0%
Spatpassuniverse597383.9%66.2%87.4%78.4%87.7%
Spatpasscandidates1656.2%50.0%68.8%50.0%68.8%
Diutrugouniverse581181.2%64.5%84.9%75.5%85.2%
Diutrugocandidates887.5%62.5%100.0%62.5%100.0%
Komaphafuniverse507587.7%68.1%90.6%82.5%90.9%
Komaphafcandidates1776.5%58.8%76.5%52.9%76.5%
Ogatparauniverse531988.8%71.1%91.9%84.1%92.2%
Ogatparacandidates1979.0%63.2%79.0%52.6%84.2%
Kuracapsuniverse602784.6%67.4%88.0%79.2%88.3%
Kuracapscandidates1573.3%40.0%80.0%53.3%80.0%
Pichkudruniverse514686.7%68.2%90.4%81.9%90.7%
Pichkudrcandidates1566.7%40.0%73.3%26.7%73.3%
Pachtannuniverse564385.8%67.1%88.9%80.3%89.3%
Pachtanncandidates1566.7%46.7%73.3%40.0%73.3%
ALL_OUTuniverse7503984.7%66.9%88.3%79.9%88.8%
ALL_OUTcandidates18265.9%48.9%74.7%48.4%75.3%

Tests summary

Per vocabulary: terms with FDR < 0.05 / terms tested. Protein level counts proteins; family level counts candidate families and background clusters.

ScopeLevelCand. unitsPfam sig / testedPfam clan sig / testedInterPro sig / testedGO sig / tested
whole_setfamily1026 / 11603 / 31515 / 22622 / 4097
whole_setprotein18213 / 40998 / 47432 / 856143 / 6985
Candalbifamily140 / 1680 / 1820 / 4890 / 2836
Candalbiprotein150 / 2490 / 2040 / 6720 / 2967
Candtropfamily140 / 1820 / 1830 / 5070 / 2468
Candtropprotein150 / 2551 / 1940 / 6661 / 2611
Debahansfamily140 / 1731 / 1820 / 4940 / 2523
Debahansprotein140 / 2401 / 2040 / 6460 / 2649
Diutrugofamily70 / 1530 / 1820 / 4510 / 1895
Diutrugoprotein80 / 2240 / 2050 / 5950 / 2035
Komaphaffamily160 / 1360 / 1720 / 4260 / 2421
Komaphafprotein170 / 1810 / 1860 / 5300 / 2522
Kuracapsfamily150 / 1670 / 1860 / 4790 / 2471
Kuracapsprotein150 / 2370 / 2010 / 6220 / 2583
Loddelonfamily70 / 1680 / 1800 / 4780 / 2385
Loddelonprotein80 / 2250 / 2000 / 6010 / 2496
Meyeguilfamily90 / 1750 / 1780 / 5080 / 2480
Meyeguilprotein90 / 2260 / 1900 / 6280 / 2576
Ogatparafamily190 / 1500 / 1800 / 4610 / 2456
Ogatparaprotein190 / 2030 / 1920 / 5820 / 2574
Pachtannfamily150 / 1670 / 1760 / 4710 / 2079
Pachtannprotein150 / 2271 / 1900 / 6060 / 2230
Pichkudrfamily150 / 1431 / 1750 / 4180 / 2015
Pichkudrprotein150 / 2021 / 1910 / 5430 / 2138
Schestipfamily150 / 1631 / 1820 / 4840 / 2495
Schestipprotein160 / 2391 / 2030 / 6470 / 2640
Spatpassfamily150 / 1710 / 1830 / 4970 / 2476
Spatpassprotein160 / 2240 / 1960 / 6171 / 2582

Top 25 Pfam terms (whole set, family level)

25 rows shown, ordered by FDR then p-value; 6 have FDR < 0.05 (bold).

TermNamek / N cand.n / M bgFoldFDR (BH)
PF11001AFUB_07903_YDR124W_hel: YDR124W-like, helical bundle domain11 / 7311 / 13892190.3014.45e-23
PF29444KH_FAR1_2nd: FAR1 C-terminal domain8 / 7310 / 13892152.2416.76e-15
PF29445PH_FAR1: FAR1 PH domain8 / 7310 / 13892152.2416.76e-15
PF29452FAR1_N: FAR1 N-terminal domain7 / 7319 / 1389270.1111.14e-09
PF02148zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein4 / 739 / 1389284.5782.01e-05
PF12550GCR1_C: Transcriptional activator of glycolytic enzymes4 / 7324 / 1389231.7170.001
PF01753zf-MYND: MYND finger2 / 736 / 1389263.4340.058
PF23187UBX7_N: UBX7 N-terminal domain2 / 736 / 1389263.4340.058
PF30147SSP1: Sporulation-specific protein 12 / 737 / 1389254.3720.072
PF00443UCH: Ubiquitin carboxyl-terminal hydrolase3 / 7339 / 1389214.6390.129
PF01569PAP2: PAP2 superfamily2 / 7311 / 1389234.60.153
PF00789UBX: UBX domain2 / 7314 / 1389227.1860.230
PF00856SET: SET domain2 / 7325 / 1389215.2240.674
PF28255CIP1_helical: CIP1 helical domain1 / 735 / 1389238.061.000
PF01588tRNA_bind: Putative tRNA binding domain1 / 736 / 1389231.7171.000
PF031712OG-FeII_Oxy: 2OG-Fe(II) oxygenase superfamily1 / 736 / 1389231.7171.000
PF07962Swi3: Replication Fork Protection Component Swi31 / 736 / 1389231.7171.000
PF08320PIG-X: PIG-X / PBN11 / 736 / 1389231.7171.000
PF08585RMI1_N_C: RMI1, N-terminal OB-fold domain1 / 736 / 1389231.7171.000
PF10403BHD_1: Rad4 beta-hairpin domain 11 / 736 / 1389231.7171.000
PF12927DUF3835: Domain of unknown function (DUF3835)1 / 736 / 1389231.7171.000
PF29059AIM39_C: AIM39 C-terminal domain1 / 736 / 1389231.7171.000
PF29704YDL186W: Uncharacterised protein YDL186W1 / 736 / 1389231.7171.000
PF07954DUF1689: Protein of unknown function (DUF1689)1 / 737 / 1389227.1861.000
PF10404BHD_2: Rad4 beta-hairpin domain 21 / 737 / 1389227.1861.000

Top 25 InterPro terms (whole set, family level)

25 rows shown, ordered by FDR then p-value; 15 have FDR < 0.05 (bold).

TermNamek / N cand.n / M bgFoldFDR (BH)
IPR021264Family:Subtelomeric hrmA-associated cluster protein AFUB_079030/YDR124W-like11 / 8111 / 15006185.2596.32e-23
IPR047092Domain:Subtelomeric hrmA-associated cluster protein AFUB_079030/YDR124W-like, helical bundle domain11 / 8111 / 15006185.2596.32e-23
IPR063245Domain:FAR1, PH domain8 / 8110 / 15006148.2071.27e-14
IPR063947Domain:FAR1, vWA-like domain8 / 8110 / 15006148.2071.27e-14
IPR063968Domain:FAR1, N-terminal domain7 / 8119 / 1500668.2532.22e-09
IPR001607Domain:Zinc finger, UBP-type4 / 819 / 1500682.3373.67e-05
IPR050587Family:GNT1/Glycosyltransferase 84 / 8110 / 1500674.1045.22e-05
IPR052146Family:High-osmolarity-induced transcription4 / 8118 / 1500641.1696.43e-04
IPR022210Domain:Transcription activator GCR1-like domain4 / 8124 / 1500630.8770.002
IPR050869Family:Histone-lysine N-methyltransferase3 / 8110 / 1500655.5780.004
IPR046341Homologous_superfamily:SET domain superfamily4 / 8140 / 1500618.5260.013
IPR028889Domain:Ubiquitin specific protease USP, catalytic domain4 / 8141 / 1500618.0740.013
IPR013083Homologous_superfamily:Zinc finger, RING/FYVE/PHD-type8 / 81262 / 150065.6570.014
IPR050185Family:Ubiquitin carboxyl-terminal hydrolase3 / 8117 / 1500632.6930.016
IPR038765Homologous_superfamily:Papain-like cysteine peptidase superfamily5 / 8191 / 1500610.1790.020
IPR002893Domain:Zinc finger, MYND-type2 / 817 / 1500652.9310.075
IPR043216Family:Phosphatidic acid phosphatases-like2 / 817 / 1500652.9310.075
IPR063784Domain:Sporulation-specific protein 1, conserved domain2 / 817 / 1500652.9310.075
IPR001214Domain:SET domain3 / 8132 / 1500617.3680.080
IPR001841Domain:Zinc finger, RING-type5 / 81135 / 150066.8610.092
IPR001394Domain:Peptidase C19, ubiquitin carboxyl-terminal hydrolase3 / 8139 / 1500614.2510.130
IPR029044Homologous_superfamily:Nucleotide-diphospho-sugar transferases4 / 8195 / 150067.80.178
IPR000326Domain:Phosphatidic acid phosphatase type 2/haloperoxidase2 / 8114 / 1500626.4660.237
IPR001012Domain:UBX domain2 / 8114 / 1500626.4660.237
IPR036938Homologous_superfamily:Phosphatidic acid phosphatase type 2/haloperoxidase superfamily2 / 8116 / 1500623.1570.297

Top 15 GO terms (whole set, family level) — secondary, computational evidence (IEA/IBA) included

15 rows shown, ordered by FDR then p-value; 2 have FDR < 0.05 (bold).

TermNamek / N cand.n / M bgFoldFDR (BH)GO evidenceFamilies with non-IEA
GO:0060963biological_process:positive regulation of ribosomal protein gene transcription by RNA polymerase II4 / 4221 / 1253356.8390.003has_non_IEA1
GO:0060962biological_process:regulation of ribosomal protein gene transcription by RNA polymerase II4 / 4238 / 1253331.4110.015has_non_IEA1
GO:0016579biological_process:protein deubiquitination4 / 4266 / 1253318.0850.092IEA_only0
GO:0016705molecular_function:oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen4 / 4280 / 1253314.920.147IEA_only0
GO:0005686cellular_component:U2 snRNP3 / 4235 / 1253325.5780.168has_non_IEA1
GO:0070646biological_process:protein modification by small protein removal4 / 4292 / 1253312.9740.168IEA_only0
GO:0008195molecular_function:phosphatidate phosphatase activity2 / 4211 / 1253354.2550.315IEA_only0
GO:0004843molecular_function:cysteine-type deubiquitinase activity3 / 4250 / 1253317.9040.315IEA_only0
GO:0101005molecular_function:deubiquitinase activity3 / 4254 / 1253316.5780.351IEA_only0
GO:0042577molecular_function:lipid phosphatase activity2 / 4214 / 1253342.6290.398IEA_only0
GO:0000245biological_process:spliceosomal complex assembly2 / 4220 / 1253329.840.747IEA_only0
GO:0019783molecular_function:ubiquitin-like protein peptidase activity3 / 4279 / 1253311.3320.792IEA_only0
GO:0008234molecular_function:cysteine-type peptidase activity3 / 4291 / 125339.8381.000IEA_only0
GO:0005684cellular_component:U2-type spliceosomal complex3 / 4297 / 125339.2291.000has_non_IEA1
GO:0003700molecular_function:DNA-binding transcription factor activity9 / 42984 / 125332.7291.000has_non_IEA1

Actin cytoskeleton controls

Known actin-related families and how many of their proteins pass each filter. Protein ID columns are left out.

controlpfam_idsdesc_regexOUT_universeOUT_in_matrixOUT_pass_outgroup_rulecandidatesnear_miss_in1near_miss_in2n_Candalbin_Candtropn_Loddelonn_Meyeguiln_Debahansn_Schestipn_Spatpassn_Diutrugon_Komaphafn_Ogatparan_Kuracapsn_Pichkudrn_Pachtannn_Candaurin_Candhaemn_Candpseun_Candduobn_Clavlusin_Sunginten_Metsbicun_Metsaffn_Austsaop
Arp2/3 ARPC2 (P34-Arc)PF040451313130001111111111111111111111
Arp2/3 ARPC3 (P21-Arc)PF040621313130001111111111111011111111
Arp2/3 ARPC4PF058561313130001111111111111111111101
Arp2/3 ARPC5 (P16-Arc)PF046991313130001111111111111111111111
Arp2/3 ARPC1 (description only)arp2/3 complex.*(41|p41|subunit 1)|ARPC10000000000000000000000000010
Arp2 / Arp3 (description only)actin-related protein (2|3)\b|\bARP[23]\b8888880007777667787757656765456
WAVE complex NCKAP1PF097350000000000000000000000000000
WAVE complex CYFIP (FragX_IP)PF059940000000000000000000000000000
WAVE complex ABIPF07815|PF275940000000000000000000000000000
SCAR/WAVE (SCAR_helical)PF275690000000000000000000000000000
WASP family (WH1)PF005681313130001111111111111111111111
WH2 motif (WASP, WAVE, others)PF022052222220002330221220221222213112
Formin FH2PF021812626260002222222222222222222222
Formin Drf_GBD / Drf_FH3 / Drf_DADPF06371|PF06367|PF063452323220002122222221212222222222
Ena/VASP (VASP_tetra)PF087760000000000000000000000000000
Coronin (description only)coronin9990001000101111111111101110
Cortactin (HS1_rep)PF022180000000000000000000000000000
Myosin 2 tail (Myosin_tail_1)PF015760000000000000000000000000000
Myosin head (all myosins)PF000634040400003333333333343333333233

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