Query psy2931
Match_columns 95
No_of_seqs 107 out of 137
Neff 3.8
Searched_HMMs 46136
Date Fri Aug 16 21:16:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2931.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2931hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04889 Cwf_Cwc_15: Cwf15/Cwc 100.0 9.9E-34 2.2E-38 218.6 7.3 75 1-75 1-75 (244)
2 KOG3228|consensus 100.0 3.1E-31 6.6E-36 203.7 5.4 69 1-69 1-69 (226)
3 KOG1168|consensus 47.1 16 0.00036 30.7 2.4 35 57-91 278-312 (385)
4 KOG4715|consensus 25.6 66 0.0014 27.4 2.7 26 51-76 232-257 (410)
5 KOG1029|consensus 18.0 30 0.00064 32.7 -0.9 17 32-48 186-202 (1118)
6 PF09439 SRPRB: Signal recogni 13.4 40 0.00086 25.3 -1.1 17 27-43 48-64 (181)
7 PF11273 DUF3073: Protein of u 12.3 1.1E+02 0.0023 20.0 0.8 19 40-64 15-33 (65)
8 cd06411 PB1_p51 The PB1 domain 12.0 1.4E+02 0.003 20.0 1.3 16 34-49 32-47 (78)
9 PF14105 DUF4278: Domain of un 9.6 1.9E+02 0.004 17.3 1.2 16 30-45 39-54 (57)
10 PF10872 DUF2740: Protein of u 9.6 3.3E+02 0.0071 16.7 2.2 9 58-66 30-38 (48)
No 1
>PF04889 Cwf_Cwc_15: Cwf15/Cwc15 cell cycle control protein; InterPro: IPR006973 This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=100.00 E-value=9.9e-34 Score=218.64 Aligned_cols=75 Identities=72% Similarity=1.052 Sum_probs=73.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccccccccccccCCCCCceeeeecCCCCChhHhhHHHHHHHHHHHHHHHHHHhh
Q psy2931 1 MTTAARPTFEPARGGQGRGEKDLSAISKQYSSRDLPGHTKLKYREHGQGTNEELRSRDFRKELEEREREKDKTAR 75 (95)
Q Consensus 1 MTTAHRPT~~pA~G~~~~g~~~~~~~s~~~ssRdLP~HtkLK~Rq~gQ~~~~e~~~rDLr~ELe~~E~~~~~kkr 75 (95)
|||||||||+||+|+.++|+++++++|.|||+||||+||+||||++||++.+++..+|||+||+++|++++.++.
T Consensus 1 MTTAHRPT~~pA~G~~~~~~~~~~~~S~~~ssRdLPsHTkLK~Rq~gq~~~~e~~~rdlr~eLe~~E~~~~~kk~ 75 (244)
T PF04889_consen 1 MTTAHRPTFEPARGGEGQGGNDLSVPSKQYSSRDLPSHTKLKYRQDGQGTEEELRKRDLRAELEEAEREHFAKKN 75 (244)
T ss_pred CCCccCCCcccccCCcccCCccccccccccccccCCcCCeeeeecCCCCcchhHHHHHHHHHHHHHHHHHHhhcc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999994
No 2
>KOG3228|consensus
Probab=99.97 E-value=3.1e-31 Score=203.68 Aligned_cols=69 Identities=81% Similarity=1.232 Sum_probs=68.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccccccccccccCCCCCceeeeecCCCCChhHhhHHHHHHHHHHHHHH
Q psy2931 1 MTTAARPTFEPARGGQGRGEKDLSAISKQYSSRDLPGHTKLKYREHGQGTNEELRSRDFRKELEERERE 69 (95)
Q Consensus 1 MTTAHRPT~~pA~G~~~~g~~~~~~~s~~~ssRdLP~HtkLK~Rq~gQ~~~~e~~~rDLr~ELe~~E~~ 69 (95)
|||||||||+||+|+...|+.+++++|+|||+||||+||+|||||.||++.+|+..+|||+|||++|+.
T Consensus 1 MTTAhRPtf~parGg~~~g~~~ls~ls~qysSRdlP~HTklKyRq~~Q~teee~rk~dlR~eleerER~ 69 (226)
T KOG3228|consen 1 MTTAHRPTFEPARGGSARGETDLSILSKQYSSRDLPGHTKLKYRQTGQGTEEELRKRDLRRELEERERA 69 (226)
T ss_pred CCcccCCccCcccCccccCCCCcccccchhhhccCCcccccchhhcccccHHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999993
No 3
>KOG1168|consensus
Probab=47.07 E-value=16 Score=30.67 Aligned_cols=35 Identities=20% Similarity=0.069 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCccchhhccccc
Q psy2931 57 RDFRKELEEREREKDKTARIRAPESHANRKQKKGK 91 (95)
Q Consensus 57 rDLr~ELe~~E~~~~~kkr~~~~~~~~~~~~~~~~ 91 (95)
--|.+=||++|.++++|..+.+-.+.-+...||.|
T Consensus 278 PILqaWLEeAE~a~keK~~~pd~~~l~~~~ekKRK 312 (385)
T KOG1168|consen 278 PILQAWLEEAEAAMKEKDTKPDINELLPGGEKKRK 312 (385)
T ss_pred HHHHHHHHHHHHHHHhhccCCchhhccCccccccc
Confidence 35899999999999999998877777776666655
No 4
>KOG4715|consensus
Probab=25.61 E-value=66 Score=27.42 Aligned_cols=26 Identities=19% Similarity=0.250 Sum_probs=21.5
Q ss_pred hhHhhHHHHHHHHHHHHHHHHHHhhh
Q psy2931 51 NEELRSRDFRKELEEREREKDKTARI 76 (95)
Q Consensus 51 ~~e~~~rDLr~ELe~~E~~~~~kkr~ 76 (95)
.--+.-+.|.+||+..|.+|.+||+.
T Consensus 232 SL~~HQ~KLEaEL~q~Ee~hq~kKrk 257 (410)
T KOG4715|consen 232 SLMVHQRKLEAELLQIEERHQEKKRK 257 (410)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456788999999999999988874
No 5
>KOG1029|consensus
Probab=18.00 E-value=30 Score=32.69 Aligned_cols=17 Identities=41% Similarity=0.616 Sum_probs=13.3
Q ss_pred ccCCCCCceeeeecCCC
Q psy2931 32 SRDLPGHTKLKYREHGQ 48 (95)
Q Consensus 32 sRdLP~HtkLK~Rq~gQ 48 (95)
-=.+|.|++|||||--.
T Consensus 186 eWAVp~~~klKY~QlFN 202 (1118)
T KOG1029|consen 186 EWAVPQHNKLKYRQLFN 202 (1118)
T ss_pred hccccchhhhHHHHHhh
Confidence 44579999999999643
No 6
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=13.45 E-value=40 Score=25.25 Aligned_cols=17 Identities=35% Similarity=0.708 Sum_probs=13.1
Q ss_pred cccccccCCCCCceeee
Q psy2931 27 SKQYSSRDLPGHTKLKY 43 (95)
Q Consensus 27 s~~~ssRdLP~HtkLK~ 43 (95)
...+.--|+|||.+|.+
T Consensus 48 ~~~~~lvD~PGH~rlr~ 64 (181)
T PF09439_consen 48 GKKLRLVDIPGHPRLRS 64 (181)
T ss_dssp GTCECEEEETT-HCCCH
T ss_pred CCEEEEEECCCcHHHHH
Confidence 45678889999999975
No 7
>PF11273 DUF3073: Protein of unknown function (DUF3073); InterPro: IPR021426 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=12.27 E-value=1.1e+02 Score=20.04 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=13.1
Q ss_pred eeeeecCCCCChhHhhHHHHHHHHH
Q psy2931 40 KLKYREHGQGTNEELRSRDFRKELE 64 (95)
Q Consensus 40 kLK~Rq~gQ~~~~e~~~rDLr~ELe 64 (95)
+|||..|. +...-|.+||-
T Consensus 15 eLKY~sp~------tDl~~LqrEL~ 33 (65)
T PF11273_consen 15 ELKYSSPD------TDLDALQRELS 33 (65)
T ss_pred HhccCCCc------CCHHHHHHHHc
Confidence 58998884 34556777774
No 8
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=12.05 E-value=1.4e+02 Score=20.00 Aligned_cols=16 Identities=25% Similarity=0.491 Sum_probs=13.9
Q ss_pred CCCCCceeeeecCCCC
Q psy2931 34 DLPGHTKLKYREHGQG 49 (95)
Q Consensus 34 dLP~HtkLK~Rq~gQ~ 49 (95)
..|.|++|-||.++.+
T Consensus 32 l~~~~~~LSY~~~~~~ 47 (78)
T cd06411 32 QQAQRGQLSYRAPGED 47 (78)
T ss_pred CChhhcEEEecCCCCC
Confidence 4788999999999876
No 9
>PF14105 DUF4278: Domain of unknown function (DUF4278)
Probab=9.58 E-value=1.9e+02 Score=17.31 Aligned_cols=16 Identities=19% Similarity=0.191 Sum_probs=11.3
Q ss_pred ccccCCCCCceeeeec
Q psy2931 30 YSSRDLPGHTKLKYRE 45 (95)
Q Consensus 30 ~ssRdLP~HtkLK~Rq 45 (95)
.....++.|..|+||-
T Consensus 39 ~~~~~~~~~~~L~YRG 54 (57)
T PF14105_consen 39 HHAPPPQPSHNLTYRG 54 (57)
T ss_pred cccCCCCCCcceEeCC
Confidence 3455566788999994
No 10
>PF10872 DUF2740: Protein of unknown function (DUF2740); InterPro: IPR022626 This entry is represented by Bacteriophage P22, Orf48. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family of proteins with unknown function has a highly conserved sequence. They are found in Enterobacteria and Enterobacteria phages.
Probab=9.55 E-value=3.3e+02 Score=16.70 Aligned_cols=9 Identities=56% Similarity=0.792 Sum_probs=6.3
Q ss_pred HHHHHHHHH
Q psy2931 58 DFRKELEER 66 (95)
Q Consensus 58 DLr~ELe~~ 66 (95)
-||+|||.-
T Consensus 30 rfraelekv 38 (48)
T PF10872_consen 30 RFRAELEKV 38 (48)
T ss_pred hHHHHHHHH
Confidence 388888754
Done!