Family Search for PF06074 (DUF935)

PF06074 hits 17 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

P44225 Mu-like prophage FluMu protein gp29 from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
HI1501 H. influenzae predicted coding region HI1501 from Haemophilus influenzae Rd KW20
Aligns to 4:517 / 520 (98.8%), covers 100.0% of PF06074, 667.3 bits

• Functional annotation of conserved hypothetical proteins from Haemophilus influenzae Rd KW20
  Shahbaaz, PloS one 2013
  • “...phage gp27 241. HP HI1500 950367 P44224 Mu-like prophageFluMu protein gp28 242. HP HI1501 950368 P44225 Mu-like prophageFluMu protein gp29 243. HP HI1502 950369 P44226 F protein, phage head morphogenesis, SPP1 gp7 family domain protein 244. HP HI1505 950373 P44227 Mu-like prophageFluMu major head subunit 245....”
• Genomic and proteomic characterization of SuMu, a Mu-like bacteriophage infecting Haemophilus parasuis
  Zehr, BMC genomics 2012
  • “...portal protein (gp29), protease (gp32), major head protein (gp34), Mu F protein (gp30), homologs 10 (P44225), 13 (NP_873073), 15 (P44227), and 17 (ZP_00157240), respectively, are involved in bacteriophage morphogenesis [ 10 ]. Two proteins were similar to proteins in the NCBI database which were putatively associated...”
  • “...influenzae Rd KW20 Mu-like prophage FluMu (Myoviridae). Click here for file Additional file 8 P9.mzML P44225 , gp29, DUF935, portal protein, H. influenzae Rd KW20 Mu-like prophage FluMu (Myoviridae). Click here for file Additional file 9 P10.mzML P44236 , gp42, putative tape measure protein, H. influenzae...”
• Molecular and biological analysis of eight genetic islands that distinguish Neisseria meningitidis from the closely related pathogen Neisseria gonorrhoeae
  Klee, Infection and immunity 2000
  • “...28/44 25/43 P03763 C64126 P05515 M64097 E64126 X97918 P44225 P44226 Q01261 P45255 I64126 P44227 P44230 P44231 AB000833 P44233 AB009866 P08557 A64127 P08558...”
• Haemophilus influenzae responds to glucocorticoids used in asthma therapy by modulation of biofilm formation and antibiotic resistance
  Earl, EMBO molecular medicine 2015
  • “...protein, MutT HI0999 Y 2 Ribonuclease P, RnpA HI1275 Y 1 Tellurite resistance protein, TehB HI1501 N 1 Hypothetical protein HI1605 Y 1 Hypothetical protein a None of these gene disruptions affect bacterial growth in complex media and minimal media. b Possibility of Tn5 insertion affecting...”
  • “...in stress response (such as HI0999 and HI1275 ), in genes encoding hypothetical protein ( HI1501 ) and in genes encoding regulatory proteins including RpoE ( HI0628 ). Other insertions werefound in genes that have been implicated in adaptation of H.influenzae to infection of the murine...”
• Functional annotation of conserved hypothetical proteins from Haemophilus influenzae Rd KW20
  Shahbaaz, PloS one 2013
  • “...P44223 Mu-like phage gp27 241. HP HI1500 950367 P44224 Mu-like prophageFluMu protein gp28 242. HP HI1501 950368 P44225 Mu-like prophageFluMu protein gp29 243. HP HI1502 950369 P44226 F protein, phage head morphogenesis, SPP1 gp7 family domain protein 244. HP HI1505 950373 P44227 Mu-like prophageFluMu major head...”
• Mu-like Prophage in serogroup B Neisseria meningitidis coding for surface-exposed antigens
  Masignani, Infection and immunity 2001
  • “...NMA1855 NMA1854 NMA1304 NMA1305 NMA1306 NMA1307 NMA1852 NMA1313 HI1501 HI1502 NMA1851 NMA1850 NMA1314 NMA1315 MuG Mul HI1503 HI1504 NMA1849 NMA1848 NMA1316 Not...”
• Molecular and biological analysis of eight genetic islands that distinguish Neisseria meningitidis from the closely related pathogen Neisseria gonorrhoeae
  Klee, Infection and immunity 2000
  • “...protein HU-beta muE16 E16 homolog HI1488 Gene 25 HI1501 HI1502 MuG (virion morphogenesis) MuG homolog HI1568 MuI homolog HI1504 HI1505 HI1508 HI1509 Sheath...”

SO_0667 conserved hypothetical protein from Shewanella oneidensis MR-1
Aligns to 9:532 / 533 (98.3%), covers 99.8% of PF06074, 650.8 bits

• Conserved synteny at the protein family level reveals genes underlying Shewanella species' cold tolerance and predicts their novel phenotypes
  Karpinets, Functional & integrative genomics 2010
  • “...benthica and S. woodyi 5, 68 a DNA_circ_N; GP46; Phage_Mu_Gp45; Phage_Mu_P; DUF935; Phage_Mu_F; DUF1320; DUF1018 SO_0667; SO_0668; SO_2680; SO_2681; SO_2698SO_2701 Prophage loci SO_2667SO_2701 Prophage MuSo2 (Chourey et al. 2006 ; Qiu et al. 2006 ) 105 BATS; Fe_hyd_SSU; Fe_hyd_lg_C; Radical_SAM SO_3920SO3923 Formate dehydrogenase Fdh, periplasmic [FeFe]...”

AII21874.1 portal protein from Pseudomonas phage PaMx73 (see 2 papers)
Aligns to 3:521 / 528 (98.3%), covers 99.8% of PF06074, 626.8 bits

PORTL_BPMU / Q9T1W5 Portal protein; Gene product 29; gp29; Gene product H; gpH; Head-tail connector from Escherichia phage Mu (Bacteriophage Mu) (see 2 papers)
NP_050633 portal protein from Escherichia phage Mu
Aligns to 3:507 / 512 (98.6%), covers 99.8% of PF06074, 613.4 bits

• function: Forms the portal vertex of the capsid. This portal plays critical roles in head assembly, genome packaging, neck/tail attachment, and genome ejection. The portal protein multimerizes as a single ring-shaped homododecamer arranged around a central channel. Binds to the terminase subunits to form the packaging machine. Acts as a linker between the capsid and tail. Required for attachment of the neck proteins to the capsid.
  subunit: Homododecamer (Probable). Part of the immature prohead complex. Might interact with viral I protease; this interaction gives rise to an early 25S initiator complex (Probable). The scaffolding protein Z and the capsid protein T should then be added to this initiator complex to yield the immature prohead (Probable). Host GroEL and GroES are also essential for the correct assembly of viral head and tail.
• Complete sequence and evolutionary genomic analysis of the Pseudomonas aeruginosa transposable bacteriophage D3112
  Wang, Journal of bacteriology 2004
  • “...NP_439651; predicted coding region (Haemophilus influenza Rd) NP_050633; phage Mu gp29 protein (E. coli) NP_312998; hypothetical protein, similar to Mu gp30...”

NMB1095 hypothetical protein from Neisseria meningitidis MC58
Q9JZE2 Mu-like prophage FluMu protein gp29 from Neisseria meningitidis serogroup B (strain MC58)
Aligns to 2:519 / 522 (99.2%), covers 98.5% of PF06074, 609.0 bits

• Mu-like Prophage in serogroup B Neisseria meningitidis coding for surface-exposed antigens
  Masignani, Infection and immunity 2001
  • “...101 115 112 88 65 168 196 540 NMB1095 NMB1096 1111048-1112612 1112602-1113894 522 431 gp29 gp30 NMB1097 NMB1098 NMB1099 NMB1100 NMB1101 1114006-114417...”
  • “...proteins (Fig. 1; Table 1). This region spans ORFs NMB1095 to NMB1115. With the exception of ORFs NMB1099, which codes for the IS1655 Tnp transposase, and...”
• Towards New Drug Targets? Function Prediction of Putative Proteins of Neisseria meningitidis MC58 and Their Virulence Characterization
  Shahbaaz, Omics : a journal of integrative biology 2015
  • “...26. 27. 28. 29. 30. 31. 32. Q7DDP4 Q9JZL2 Q9JZE3 Q9JZE2 Q9JZD8 Q9JZD6 Q9JYB9 Q9JZE1 Q9JZD7 Q9JZC7 Q9JZC6 33. 34. Q9JYK2 Q9JYD6 35. Q9K0X0 36. P67259 37. 38. 39....”
  • “...Q9JXH2 Q9JXK9 Q9K028 Q7DDQ9 Q7DDH4 Q9K0X7 Q9K0V2 Q9JYC7 Q9JZE2 Q9JY28 Q9JY27 Q9JRY6 Q9K0R9 Q9K0P1 Q9K0S5 Q9K0S2 Q9JYT4 Q9JXV0 VICMpred* 1.31 1.35 0.75 1.52 1.62...”

NMY233_1071 DUF935 domain-containing protein from Neisseria meningitidis NM233
Aligns to 2:519 / 522 (99.2%), covers 98.5% of PF06074, 606.6 bits

• Whole genome sequencing to investigate the emergence of clonal complex 23 Neisseria meningitidis serogroup Y disease in the United States
  Krauland, PloS one 2012
  • “...NMY220_1241 NMY233_1228 conserved hypothetical protein 0.0936 0.3545 NMY220_0390 NMY233_0372 shikimate 5-dehydrogenase (AroE) 0.0951 0.2212 NMY220_1068 NMY233_1071 putative lipoprotein 0.0299 0.3518 NMY220_1433 NMY233_1411 ornithine carbamoyltransferase 0.0936 0.3545 NMY220_0390 NMY233_0372 shikimate 5-dehydrogenase (AroE) 0.0266 0.3293 NMY220_0388 NMY233_0370 lipopolysaccharide ABC transporter,ATP-binding protein 0.0921 0.3260 NMY220_0548 NMY233_0521 PilV 0.0921 0.3260...”

NMA1314 hypothetical protein NMA1314 from Neisseria meningitidis Z2491
Aligns to 2:519 / 522 (99.2%), covers 98.5% of PF06074, 605.3 bits

• Mu-like Prophage in serogroup B Neisseria meningitidis coding for surface-exposed antigens
  Masignani, Infection and immunity 2001
  • “...NMA1306 NMA1307 NMA1852 NMA1313 HI1501 HI1502 NMA1851 NMA1850 NMA1314 NMA1315 MuG Mul HI1503 HI1504 NMA1849 NMA1848 NMA1316 Not annotated gp35 gp36 HI1506...”

SO2680, SO_2680 conserved hypothetical protein from Shewanella oneidensis MR-1
Aligns to 3:519 / 521 (99.2%), covers 99.6% of PF06074, 605.0 bits

• Conserved synteny at the protein family level reveals genes underlying Shewanella species' cold tolerance and predicts their novel phenotypes
  Karpinets, Functional & integrative genomics 2010
  • “...S. woodyi 5, 68 a DNA_circ_N; GP46; Phage_Mu_Gp45; Phage_Mu_P; DUF935; Phage_Mu_F; DUF1320; DUF1018 SO_0667; SO_0668; SO_2680; SO_2681; SO_2698SO_2701 Prophage loci SO_2667SO_2701 Prophage MuSo2 (Chourey et al. 2006 ; Qiu et al. 2006 ) 105 BATS; Fe_hyd_SSU; Fe_hyd_lg_C; Radical_SAM SO_3920SO3923 Formate dehydrogenase Fdh, periplasmic [FeFe] hydrogenase HydAB,...”
• Empirical evaluation of a new method for calculating signal-to-noise ratio for microarray data analysis
  He, Applied and environmental microbiology 2008
  • “...previously described (12). Briefly, four genes (SO1679, SO1744, SO2680, and SO0848) were selected from the Shewanella oneidensis MR-1 genome. For each gene, 1...”
• Use of microarrays with different probe sizes for monitoring gene expression
  He, Applied and environmental microbiology 2005
  • “...synthesized oligonucleotide targets of four loci (SO1679, SO1744, SO2680, and SO0848) were used for hybridization. Five picograms of PCR target per locus was...”
  • “...PCR targets generated from four loci (SO1679, SO1744, SO2680, and SO0848). The results showed that three loci (SO1744, SO2680, and SO0848) could be detected...”
• Empirical establishment of oligonucleotide probe design criteria
  He, Applied and environmental microbiology 2005
  • “...PRIMEGENS (33) based on four genes (SO1679, SO1744, SO2680, and SO0848) from the Shewanella oneidensis MR-1 genome. The mismatch (MM) probes were generated with...”

NMA1851 conserved hypothetical protein from Neisseria meningitidis Z2491
Aligns to 15:518 / 519 (97.1%), covers 96.5% of PF06074, 601.8 bits

• Mu-like Prophage in serogroup B Neisseria meningitidis coding for surface-exposed antigens
  Masignani, Infection and immunity 2001
  • “...NMA1304 NMA1305 NMA1306 NMA1307 NMA1852 NMA1313 HI1501 HI1502 NMA1851 NMA1850 NMA1314 NMA1315 MuG Mul HI1503 HI1504 NMA1849 NMA1848 NMA1316 Not annotated gp35...”

ECs4970 hypothetical protein from Escherichia coli O157:H7 str. Sakai
Aligns to 2:504 / 508 (99.0%), covers 94.8% of PF06074, 556.0 bits

• Whole-Transcriptome Analysis of Verocytotoxigenic Escherichia coli O157:H7 (Sakai) Suggests Plant-Species-Specific Metabolic Responses on Exposure to Spinach and Lettuce Extracts
  Crozier, Frontiers in microbiology 2016
  • “...Four of these were differentially expressed in spinach leaf lysates or lettuce CWPSs: ECs1375, ECs2713, ECs4970 and ECs4976, ranging between threefold repressed and sevenfold induced. It is possible that some of these genes play a distinct role in plant colonization that has not yet been investigated....”
  • “...-92.50 ECs4491 M23 peptidase domain protein, Shigella boydii CDC 308394 (98) NS -19.12 NS 10.08 ECs4970 x x Galactidol-1-phosphatol dehydrogenase, Citrobacter rodentium (94) NS NS NS 4.87 ECs4976 x x Galactidol-1-phosphatol dehydrogenase, Citrobacter rodentium (92) NS NS NS 7.13 ECs5165 Biofilm stress and motility protein A,...”
• Gene expression induced in Escherichia coli O157:H7 upon exposure to model apple juice
  Bergholz, Applied and environmental microbiology 2009
  • “...Protein synthesis ECs3077 ECs3398 ECs3460 ECs3503 ECs4968 ECs4969 ECs4970 ECs4977 ECs4982 ECs5147 ECs5350 rplY trmJ yfiA O157 O157 O157 O157 O157 O157 miaA slt...”
  • “...ECs0967 ECs1110 ECs1758 ECs3058 ECs3503 ECs3911 ECs4588 ECs4968 ECs4969 ECs4970 ECs4977 ECs4982 O157 ybaY ybiY yljA O157 O157 yeiC O157 ygiN ler O157 O157 O157...”

CV2139, NP_901809 conserved hypothetical protein from Chromobacterium violaceum ATCC 12472
Aligns to 16:487 / 488 (96.7%), covers 93.4% of PF06074, 487.3 bits

• Identification, distribution, and expression of novel genes in 10 clinical isolates of nontypeable Haemophilus influenzae
  Shen, Infection and immunity 2005
  • “...ATCC 12472 C. violaceum ATCC 12472 H. influenzae R2866 NP_815563 NP_471055 NP_901809 43, 59 25, 44 52, 71 1 1 2 1 NP_901810 ZP_00156724 59, 76 98, 99 1 4...”
• Cloning and sequencing of a genomic island found in the Brazilian purpuric fever clone of Haemophilus influenzae biogroup aegyptius
  McGillivary, Infection and immunity 2005
  • “...Plu3443, unnamed protein DRA0094, conserved hypothetical CV2139, conserved hypothetical HD1557, bacteriophage Mu GP30-like No significant homology HD1558,...”
  • “...to conserved hypothetical proteins found in C. violaceum (CV2139), S. enterica serovar Typhi CT18 (STY1616), and P. luminescens TT01 (Plu3441). The remaining...”

plu3441 No description from Photorhabdus luminescens subsp. laumondii TTO1
Aligns to 13:492 / 497 (96.6%), covers 93.4% of PF06074, 485.4 bits

• Cloning and sequencing of a genomic island found in the Brazilian purpuric fever clone of Haemophilus influenzae biogroup aegyptius
  McGillivary, Infection and immunity 2005
  • “...enterica serovar Typhi CT18 (STY1616), and P. luminescens TT01 (Plu3441). The remaining ORFs (21-28) belong to a F3031 genomic region we have called the BPF33...”

STY1616 hypothetical protein from Salmonella enterica subsp. enterica serovar Typhi str. CT18
Aligns to 15:493 / 498 (96.2%), covers 93.4% of PF06074, 459.3 bits

• Cloning and sequencing of a genomic island found in the Brazilian purpuric fever clone of Haemophilus influenzae biogroup aegyptius
  McGillivary, Infection and immunity 2005
  • “...C. violaceum (CV2139), S. enterica serovar Typhi CT18 (STY1616), and P. luminescens TT01 (Plu3441). The remaining ORFs (21-28) belong to a F3031 genomic region...”

BB3631 phage-related conserved hypothetical protein from Bordetella bronchiseptica RB50
Aligns to 48:504 / 511 (89.4%), covers 86.3% of PF06074, 297.2 bits

• Complete genomic sequence of bacteriophage B3, a Mu-like phage of Pseudomonas aeruginosa
  Braid, Journal of bacteriology 2004
  • “...terminase subunitl gp28, VG28_BPMU BorMu gp29-like protein BB3631, CAE35604 Phage Mu gp29, VG29_BPMU DucMu3 gp30-like protein HD1557, AAP96341 Mu F protein...”

CJE0250 hypothetical protein from Campylobacter jejuni RM1221
Aligns to 56:455 / 456 (87.7%), covers 79.3% of PF06074, 134.4 bits

• A DNase encoded by integrated element CJIE1 inhibits natural transformation of Campylobacter jejuni
  Gaasbeek, Journal of bacteriology 2009
  • “...Phage uncharacterized protein, C-terminal domain, putative CJE0250 Hypothetical protein CJE0252 Putative tail-related phage protein CJE0254 Tail protein D,...”

Q7259_00535 DUF935 family protein from Campylobacter jejuni
Aligns to 56:455 / 456 (87.7%), covers 79.3% of PF06074, 133.5 bits

• Whole Genome Sequences, De Novo Assembly, and Annotation of Antibiotic Resistant Campylobacter jejuni Strains S27, S33, and S36 Newly Isolated from Chicken Meat
  He, Microorganisms 2024
  • “...WLF63806 325 Phage major capsid protein Q7259_00530 102269 103939 WLF63809 556 Phage terminase large subunit Q7259_00535 103949 105319 WLF63810 456 DUF935 family protein (Mu phage gp29) Q7259_00540 105321 106559 WLF63811 412 Phage minor head protein Q7259_00545 106685 107059 WLF63812 124 Phage tail protein Q7259_00550 107052 107243...”

Q7260_00295 DUF935 family protein from Campylobacter jejuni
Aligns to 56:455 / 456 (87.7%), covers 79.3% of PF06074, 133.1 bits

• Whole Genome Sequences, De Novo Assembly, and Annotation of Antibiotic Resistant Campylobacter jejuni Strains S27, S33, and S36 Newly Isolated from Chicken Meat
  He, Microorganisms 2024
  • “...tail protein GpU Q7260_00290 61465 60227 WLF67121 412 Phage minor head protein (Mu phage gp30) Q7260_00295 62837 61467 WLF67122 456 DUF935 family protein (Mu phage gp29) Q7260_00300 64517 62847 WLF67916 556 Phage terminase large subunit Q7260_00305 65116 64517 WLF67123 199 DUF1804 family protein (Mu phage gp31)...”

Or search for genetic data about PF06074 in the Fitness Browser