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Conserved domains on  [gi|401817602|ref|YP_006590044|]
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major tail protein [Cronobacter phage phiES15]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Phage_tail_3 pfam08813
Phage tail tube protein, TTP; This is a family of phage tail tube proteins. A few members have ...
 52-210 3.38e-51

Phage tail tube protein, TTP; This is a family of phage tail tube proteins. A few members have an associated bacterial Ig-like domain, pfam02368, at their C-terminus.


:

Pssm-ID: 370135  Cd Length: 165  Bit Score: 166.84  E-value: 3.38e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602   52 SGWPLINYLAARVSDVTDNDVTIGIIDSSDENFFPKGNGIGSLRKITAWTLIPQITELSQSGGDQQYIQIQFLEDDRQRN 131
Cdd:pfam08813   1 SGWAKLNDRVVRVGAGTATTFTLEGIDTTDTQVFPAGSGTGSVTKVSTWVEIPQVTDVATSGGEQQFYTVQFLEDDREKQ 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 401817602  132 LATYKAAKTQTITLAHDSSLPIYEVLKKADRRGDTLPLKMYVPKATETrYWSGTPSFDPQPQTAVNTVETVQVSFAVKS 210
Cdd:pfam08813  81 IPTYKSAVSITLTFAYDPDLPFYAALKSADDRKQVVVLRATLPNGDEL-LYGAYISFNKTPSVSVNEAMTVTVTISLRG 158
Big_2 pfam02368
Bacterial Ig-like domain (group 2); This family consists of bacterial domains with an Ig-like ...
 232-283 9.80e-09

Bacterial Ig-like domain (group 2); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in bacterial and phage surface proteins such as intimins.


:

Pssm-ID: 396788 [Multi-domain]  Cd Length: 77  Bit Score: 51.63  E-value: 9.80e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 401817602  232 TGVTLDNKTLSLAPGGKAQLKANVTPDNATNKSVEWSSSDEAVASVDGSGNV 283
Cdd:pfam02368   1 TSVTVSPTSVTVLVGATQQLTVYVTPSNASDKKVTWTSSNGSVATVSQTGLV 52
PDZ_canonical super family cl49608
canonical PDZ domain; Canonical PDZ (PSD-95 (Postsynaptic density protein 95), Dlg (Discs ...
 8-58 4.58e-03

canonical PDZ domain; Canonical PDZ (PSD-95 (Postsynaptic density protein 95), Dlg (Discs large protein), and ZO-1 (Zonula occludens-1)) domain. PDZ domains usually bind to short specific peptide sequences located at the C-terminal end of their partner proteins known as PDZ binding motifs. These domains can also interact with internal peptide motifs and certain lipids, and can take part in a head-to-tail oligomerization with other PDZ domains. The PDZ superfamily includes canonical PDZ domains as well as those with circular permutations and domain swapping mediated by beta-strands. The canonical PDZ domain contains six beta-strands A-F and two alpha-helices (alpha-helix 1 and 2), arranged in the order: beta-strands A, B, C, alpha-helix 1, beta-strands D, E, alpha-helix 2 and beta-strand F.


The actual alignment was detected with superfamily member cd06741:

Pssm-ID: 483948 [Multi-domain]  Cd Length: 84  Bit Score: 35.70  E-value: 4.58e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 401817602   8 GSTIQVGSEFGDEIEVTAVSnaKGAVftcAEGHGLKTGDEVLITSGWPLIN 58
Cdd:cd06741   15 GLMIRGGAEYGLGIYVTGVD--PGSV---AENAGLKVGDQILEVNGRSFLD 60
 
Name Accession Description Interval E-value
Phage_tail_3 pfam08813
Phage tail tube protein, TTP; This is a family of phage tail tube proteins. A few members have ...
 52-210 3.38e-51

Phage tail tube protein, TTP; This is a family of phage tail tube proteins. A few members have an associated bacterial Ig-like domain, pfam02368, at their C-terminus.


Pssm-ID: 370135  Cd Length: 165  Bit Score: 166.84  E-value: 3.38e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602   52 SGWPLINYLAARVSDVTDNDVTIGIIDSSDENFFPKGNGIGSLRKITAWTLIPQITELSQSGGDQQYIQIQFLEDDRQRN 131
Cdd:pfam08813   1 SGWAKLNDRVVRVGAGTATTFTLEGIDTTDTQVFPAGSGTGSVTKVSTWVEIPQVTDVATSGGEQQFYTVQFLEDDREKQ 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 401817602  132 LATYKAAKTQTITLAHDSSLPIYEVLKKADRRGDTLPLKMYVPKATETrYWSGTPSFDPQPQTAVNTVETVQVSFAVKS 210
Cdd:pfam08813  81 IPTYKSAVSITLTFAYDPDLPFYAALKSADDRKQVVVLRATLPNGDEL-LYGAYISFNKTPSVSVNEAMTVTVTISLRG 158
Big_2 pfam02368
Bacterial Ig-like domain (group 2); This family consists of bacterial domains with an Ig-like ...
 232-283 9.80e-09

Bacterial Ig-like domain (group 2); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in bacterial and phage surface proteins such as intimins.


Pssm-ID: 396788 [Multi-domain]  Cd Length: 77  Bit Score: 51.63  E-value: 9.80e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 401817602  232 TGVTLDNKTLSLAPGGKAQLKANVTPDNATNKSVEWSSSDEAVASVDGSGNV 283
Cdd:pfam02368   1 TSVTVSPTSVTVLVGATQQLTVYVTPSNASDKKVTWTSSNGSVATVSQTGLV 52
YjdB COG5492
Uncharacterized conserved protein YjdB, contains Ig-like domain [General function prediction ...
 20-317 1.12e-07

Uncharacterized conserved protein YjdB, contains Ig-like domain [General function prediction only];


Pssm-ID: 444243 [Multi-domain]  Cd Length: 613  Bit Score: 53.16  E-value: 1.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602  20 EIEVTAVSNAKGAVFTCAEGHGLKTGDEVLITSGWPLINYLAARVSDVTDNDVTIGIIDSSDENFFPKGNGIGSLRKITA 99
Cdd:COG5492  135 AASTGSGSVTAAVAVGSVGVASAGTSVTTTVATATSASLVSTLVVTSVGLTTASGSLNTVVVTSVVGNGATDASTASAVV 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602 100 WTLIPQITELSQSGGDQQYIQIQFLEDDRQRNLATYKAAKTQTITLAHDSSLPIYEVLKKADRRGDTLPLKMYVPKATET 179
Cdd:COG5492  215 AAVTAVTSAGSLTSAASVTTAGDDGTGVVATTVTTTISTSSSTTLTVTGATSSASTLGSGSTTSTNTVTAGVGDTGVSVA 294

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602 180 RYWSGTPSFDPQPQTAVNTVETVQVSFAVKSMDMAFYKDQDASNPkPDPVAVTGVTLDNKTLSLAPGGKAQLKANVTPDN 259
Cdd:COG5492  295 VASSSAATTSAVVGTLSSSGGGGGVVTAAATTGVTVVTASSVATT-VDVVPVTGVTLNPTSVTLAVGQTLTLTATVTPAN 373

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 401817602 260 ATNKSVEWSSSDEAVASVDGSGNVtaaaDAAADATATITATTTDGGFTATCEVTITAA 317
Cdd:COG5492  374 ATNKNVTWSSSDPSVATVDSNGLV----TAVAAGTATITATTKDGGKTATCTVTVTAA 427
BID_2 smart00635
Bacterial Ig-like domain 2;
230-278 1.08e-04

Bacterial Ig-like domain 2;


Pssm-ID: 214752 [Multi-domain]  Cd Length: 81  Bit Score: 40.07  E-value: 1.08e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 401817602   230 AVTGVTLDNKTLSLAPGGKAQLKANVTPDNAT-NKSVEWSSSDEAVASVD 278
Cdd:smart00635   1 VVTSVTVTPTTASVKKGLTLQLTATVTPSSAGvTGKVTWTSSNPSVATVV 50
PDZ2_FL-whirlin cd06741
PDZ domain 2 of the full-length isoform of whirlin and related domains; PDZ (PSD-95 ...
 8-58 4.58e-03

PDZ domain 2 of the full-length isoform of whirlin and related domains; PDZ (PSD-95 (Postsynaptic density protein 95), Dlg (Discs large protein), and ZO-1 (Zonula occludens-1)) domain 2 of the full-length isoform of whirlin and related domains. Whirlin is an essential protein for developmental pathways in photoreceptor cells of the retina and hair cells of the inner ear. The full-length whirlin isoform has two harmonin N-like domains, three PDZ domains, a proline-rich region, and a PDZ-binding motif. Whirlin isoforms may form different complexes at the periciliary membrane complex (PMC) in photoreceptors, and the stereociliary tip and base in inner ear hair cells. It interacts with ADGRV1 and usherin at the PMC; with SANS and RpgrORF15 at the connecting cilium in photoreceptors; with EPS8, MYO15A, p55, and CASK proteins at the stereociliary tip of inner ear hair cells; and with ADGRV1, usherin, and PDZD7 at the stereociliary base in inner ear hair cells. Mutations in the gene encoding whirlin (WHRN; also known as USH2D and DFNB31), have been found to cause either USH2 subtype (USH2D) or autosomal recessive non-syndromic deafness type 31 (DFNB31). Whirlin is the key protein in the USH2 complex (whirlin, usherin and GPR98) which recruits other USH2 causative proteins at the periciliary membrane in photoreceptors and the ankle link of the stereocilia in hair cells. Whirlin's interaction with espin, another stereociliary protein, may be important for the architecture of the USH2 complex. PDZ domains usually bind in a sequence-specific manner to short peptide sequences located at the C-terminal end of their partner proteins (known as PDZ binding motifs). The PDZ superfamily includes canonical PDZ domains as well as those with circular permutations and domain swapping mediated by beta-strands. This whirlin family PDZ2 domain is a canonical PDZ domain containing six beta-strands A-F and two alpha-helices (alpha-helix 1 and 2), arranged in the order: beta-strands A, B, C, alpha-helix 1, beta-strands D, E, alpha-helix 2 and beta-strand F.


Pssm-ID: 467223 [Multi-domain]  Cd Length: 84  Bit Score: 35.70  E-value: 4.58e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 401817602   8 GSTIQVGSEFGDEIEVTAVSnaKGAVftcAEGHGLKTGDEVLITSGWPLIN 58
Cdd:cd06741   15 GLMIRGGAEYGLGIYVTGVD--PGSV---AENAGLKVGDQILEVNGRSFLD 60
 
Name Accession Description Interval E-value
Phage_tail_3 pfam08813
Phage tail tube protein, TTP; This is a family of phage tail tube proteins. A few members have ...
 52-210 3.38e-51

Phage tail tube protein, TTP; This is a family of phage tail tube proteins. A few members have an associated bacterial Ig-like domain, pfam02368, at their C-terminus.


Pssm-ID: 370135  Cd Length: 165  Bit Score: 166.84  E-value: 3.38e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602   52 SGWPLINYLAARVSDVTDNDVTIGIIDSSDENFFPKGNGIGSLRKITAWTLIPQITELSQSGGDQQYIQIQFLEDDRQRN 131
Cdd:pfam08813   1 SGWAKLNDRVVRVGAGTATTFTLEGIDTTDTQVFPAGSGTGSVTKVSTWVEIPQVTDVATSGGEQQFYTVQFLEDDREKQ 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 401817602  132 LATYKAAKTQTITLAHDSSLPIYEVLKKADRRGDTLPLKMYVPKATETrYWSGTPSFDPQPQTAVNTVETVQVSFAVKS 210
Cdd:pfam08813  81 IPTYKSAVSITLTFAYDPDLPFYAALKSADDRKQVVVLRATLPNGDEL-LYGAYISFNKTPSVSVNEAMTVTVTISLRG 158
Big_2 pfam02368
Bacterial Ig-like domain (group 2); This family consists of bacterial domains with an Ig-like ...
 232-283 9.80e-09

Bacterial Ig-like domain (group 2); This family consists of bacterial domains with an Ig-like fold. Members of this family are found in bacterial and phage surface proteins such as intimins.


Pssm-ID: 396788 [Multi-domain]  Cd Length: 77  Bit Score: 51.63  E-value: 9.80e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 401817602  232 TGVTLDNKTLSLAPGGKAQLKANVTPDNATNKSVEWSSSDEAVASVDGSGNV 283
Cdd:pfam02368   1 TSVTVSPTSVTVLVGATQQLTVYVTPSNASDKKVTWTSSNGSVATVSQTGLV 52
YjdB COG5492
Uncharacterized conserved protein YjdB, contains Ig-like domain [General function prediction ...
 20-317 1.12e-07

Uncharacterized conserved protein YjdB, contains Ig-like domain [General function prediction only];


Pssm-ID: 444243 [Multi-domain]  Cd Length: 613  Bit Score: 53.16  E-value: 1.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602  20 EIEVTAVSNAKGAVFTCAEGHGLKTGDEVLITSGWPLINYLAARVSDVTDNDVTIGIIDSSDENFFPKGNGIGSLRKITA 99
Cdd:COG5492  135 AASTGSGSVTAAVAVGSVGVASAGTSVTTTVATATSASLVSTLVVTSVGLTTASGSLNTVVVTSVVGNGATDASTASAVV 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602 100 WTLIPQITELSQSGGDQQYIQIQFLEDDRQRNLATYKAAKTQTITLAHDSSLPIYEVLKKADRRGDTLPLKMYVPKATET 179
Cdd:COG5492  215 AAVTAVTSAGSLTSAASVTTAGDDGTGVVATTVTTTISTSSSTTLTVTGATSSASTLGSGSTTSTNTVTAGVGDTGVSVA 294

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 401817602 180 RYWSGTPSFDPQPQTAVNTVETVQVSFAVKSMDMAFYKDQDASNPkPDPVAVTGVTLDNKTLSLAPGGKAQLKANVTPDN 259
Cdd:COG5492  295 VASSSAATTSAVVGTLSSSGGGGGVVTAAATTGVTVVTASSVATT-VDVVPVTGVTLNPTSVTLAVGQTLTLTATVTPAN 373

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 401817602 260 ATNKSVEWSSSDEAVASVDGSGNVtaaaDAAADATATITATTTDGGFTATCEVTITAA 317
Cdd:COG5492  374 ATNKNVTWSSSDPSVATVDSNGLV----TAVAAGTATITATTKDGGKTATCTVTVTAA 427
BID_2 smart00635
Bacterial Ig-like domain 2;
230-278 1.08e-04

Bacterial Ig-like domain 2;


Pssm-ID: 214752 [Multi-domain]  Cd Length: 81  Bit Score: 40.07  E-value: 1.08e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|
gi 401817602   230 AVTGVTLDNKTLSLAPGGKAQLKANVTPDNAT-NKSVEWSSSDEAVASVD 278
Cdd:smart00635   1 VVTSVTVTPTTASVKKGLTLQLTATVTPSSAGvTGKVTWTSSNPSVATVV 50
PDZ2_FL-whirlin cd06741
PDZ domain 2 of the full-length isoform of whirlin and related domains; PDZ (PSD-95 ...
 8-58 4.58e-03

PDZ domain 2 of the full-length isoform of whirlin and related domains; PDZ (PSD-95 (Postsynaptic density protein 95), Dlg (Discs large protein), and ZO-1 (Zonula occludens-1)) domain 2 of the full-length isoform of whirlin and related domains. Whirlin is an essential protein for developmental pathways in photoreceptor cells of the retina and hair cells of the inner ear. The full-length whirlin isoform has two harmonin N-like domains, three PDZ domains, a proline-rich region, and a PDZ-binding motif. Whirlin isoforms may form different complexes at the periciliary membrane complex (PMC) in photoreceptors, and the stereociliary tip and base in inner ear hair cells. It interacts with ADGRV1 and usherin at the PMC; with SANS and RpgrORF15 at the connecting cilium in photoreceptors; with EPS8, MYO15A, p55, and CASK proteins at the stereociliary tip of inner ear hair cells; and with ADGRV1, usherin, and PDZD7 at the stereociliary base in inner ear hair cells. Mutations in the gene encoding whirlin (WHRN; also known as USH2D and DFNB31), have been found to cause either USH2 subtype (USH2D) or autosomal recessive non-syndromic deafness type 31 (DFNB31). Whirlin is the key protein in the USH2 complex (whirlin, usherin and GPR98) which recruits other USH2 causative proteins at the periciliary membrane in photoreceptors and the ankle link of the stereocilia in hair cells. Whirlin's interaction with espin, another stereociliary protein, may be important for the architecture of the USH2 complex. PDZ domains usually bind in a sequence-specific manner to short peptide sequences located at the C-terminal end of their partner proteins (known as PDZ binding motifs). The PDZ superfamily includes canonical PDZ domains as well as those with circular permutations and domain swapping mediated by beta-strands. This whirlin family PDZ2 domain is a canonical PDZ domain containing six beta-strands A-F and two alpha-helices (alpha-helix 1 and 2), arranged in the order: beta-strands A, B, C, alpha-helix 1, beta-strands D, E, alpha-helix 2 and beta-strand F.


Pssm-ID: 467223 [Multi-domain]  Cd Length: 84  Bit Score: 35.70  E-value: 4.58e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 401817602   8 GSTIQVGSEFGDEIEVTAVSnaKGAVftcAEGHGLKTGDEVLITSGWPLIN 58
Cdd:cd06741   15 GLMIRGGAEYGLGIYVTGVD--PGSV---AENAGLKVGDQILEVNGRSFLD 60
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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