Query psy5556
Match_columns 115
No_of_seqs 5 out of 7
Neff 1.6
Searched_HMMs 46136
Date Fri Aug 16 20:32:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5556.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5556hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02524 dot_icm_DotB Dot/Icm 20.0 69 0.0015 26.3 1.7 14 102-115 133-146 (358)
2 COG2804 PulE Type II secretory 16.5 83 0.0018 28.2 1.5 13 103-115 258-270 (500)
3 TIGR02538 type_IV_pilB type IV 16.3 93 0.002 26.9 1.7 14 102-115 315-328 (564)
4 COG2805 PilT Tfp pilus assembl 16.3 90 0.002 27.2 1.6 14 102-115 124-137 (353)
5 PRK15196 secreted effector pro 15.6 1.9E+02 0.0042 24.0 3.3 30 6-35 153-182 (350)
6 cd01129 PulE-GspE PulE/GspE Th 14.7 1.2E+02 0.0026 23.5 1.8 14 102-115 79-92 (264)
7 PRK10436 hypothetical protein; 13.6 1.2E+02 0.0026 26.0 1.7 14 102-115 217-230 (462)
8 TIGR02533 type_II_gspE general 12.6 1.3E+02 0.0029 25.7 1.7 14 102-115 241-254 (486)
9 TIGR01420 pilT_fam pilus retra 12.5 1.4E+02 0.0031 23.7 1.7 14 102-115 121-134 (343)
10 PF00437 T2SE: Type II/IV secr 11.9 1.3E+02 0.0029 22.2 1.3 14 102-115 126-139 (270)
No 1
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=19.99 E-value=69 Score=26.28 Aligned_cols=14 Identities=43% Similarity=0.726 Sum_probs=12.7
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
..|+|.++|||.+|
T Consensus 133 ~~glilI~GpTGSG 146 (358)
T TIGR02524 133 QEGIVFITGATGSG 146 (358)
T ss_pred cCCEEEEECCCCCC
Confidence 57999999999987
No 2
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=16.51 E-value=83 Score=28.20 Aligned_cols=13 Identities=54% Similarity=1.025 Sum_probs=11.7
Q ss_pred cceeeeecCCCCC
Q psy5556 103 RGLVAFTGPTQAG 115 (115)
Q Consensus 103 ~g~~~~~~~~~~~ 115 (115)
.|++-|||||.+|
T Consensus 258 ~GliLvTGPTGSG 270 (500)
T COG2804 258 QGLILVTGPTGSG 270 (500)
T ss_pred CeEEEEeCCCCCC
Confidence 6899999999987
No 3
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=16.29 E-value=93 Score=26.86 Aligned_cols=14 Identities=50% Similarity=0.933 Sum_probs=12.5
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
.+|+|.|+|||.+|
T Consensus 315 ~~Glilv~G~tGSG 328 (564)
T TIGR02538 315 PQGMVLVTGPTGSG 328 (564)
T ss_pred cCCeEEEECCCCCC
Confidence 57999999999987
No 4
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=16.26 E-value=90 Score=27.24 Aligned_cols=14 Identities=57% Similarity=1.030 Sum_probs=12.3
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
-+|+|-+||||.+|
T Consensus 124 ~~GLILVTGpTGSG 137 (353)
T COG2805 124 PRGLILVTGPTGSG 137 (353)
T ss_pred CCceEEEeCCCCCc
Confidence 37999999999987
No 5
>PRK15196 secreted effector protein PipB2; Provisional
Probab=15.60 E-value=1.9e+02 Score=23.95 Aligned_cols=30 Identities=23% Similarity=0.235 Sum_probs=11.7
Q ss_pred CceecCCCCCCcccccCCCCcceecccCCc
Q psy5556 6 GLRNCNTGGLGLRNCNTGGLGLRNCNTGGL 35 (115)
Q Consensus 6 ~lr~c~t~g~~lr~cttsG~~Lr~C~tsG~ 35 (115)
-|+...-++--|+-++-++.-|..+.-++-
T Consensus 153 ~L~ga~L~ga~L~~a~L~gadLs~a~L~~a 182 (350)
T PRK15196 153 NLKGAVLTGANLTAENLCDADLSGANLEGA 182 (350)
T ss_pred cccCCccCCCcCCCCCCCCCCcCcCccccc
Confidence 333333333344444444433333333333
No 6
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=14.69 E-value=1.2e+02 Score=23.50 Aligned_cols=14 Identities=43% Similarity=0.904 Sum_probs=12.1
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
.+|.|.|+|||.+|
T Consensus 79 ~~GlilisG~tGSG 92 (264)
T cd01129 79 PHGIILVTGPTGSG 92 (264)
T ss_pred CCCEEEEECCCCCc
Confidence 46889999999987
No 7
>PRK10436 hypothetical protein; Provisional
Probab=13.58 E-value=1.2e+02 Score=26.03 Aligned_cols=14 Identities=50% Similarity=0.954 Sum_probs=12.6
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
.+|+|.|+|||.+|
T Consensus 217 ~~GliLvtGpTGSG 230 (462)
T PRK10436 217 PQGLILVTGPTGSG 230 (462)
T ss_pred cCCeEEEECCCCCC
Confidence 67999999999987
No 8
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=12.59 E-value=1.3e+02 Score=25.67 Aligned_cols=14 Identities=43% Similarity=0.904 Sum_probs=12.1
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
.+|.|.|+|||.+|
T Consensus 241 ~~GlilitGptGSG 254 (486)
T TIGR02533 241 PHGIILVTGPTGSG 254 (486)
T ss_pred CCCEEEEEcCCCCC
Confidence 46889999999987
No 9
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=12.49 E-value=1.4e+02 Score=23.74 Aligned_cols=14 Identities=57% Similarity=1.030 Sum_probs=12.3
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
.+|.+.|+|||.+|
T Consensus 121 ~~g~ili~G~tGSG 134 (343)
T TIGR01420 121 PRGLILVTGPTGSG 134 (343)
T ss_pred cCcEEEEECCCCCC
Confidence 36899999999987
No 10
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=11.93 E-value=1.3e+02 Score=22.16 Aligned_cols=14 Identities=43% Similarity=0.833 Sum_probs=11.6
Q ss_pred ccceeeeecCCCCC
Q psy5556 102 TRGLVAFTGPTQAG 115 (115)
Q Consensus 102 t~g~~~~~~~~~~~ 115 (115)
.++.|.|+|||.+|
T Consensus 126 ~~~~ili~G~tGSG 139 (270)
T PF00437_consen 126 GRGNILISGPTGSG 139 (270)
T ss_dssp TTEEEEEEESTTSS
T ss_pred cceEEEEECCCccc
Confidence 46889999999886
Done!