Query psy9555
Match_columns 138
No_of_seqs 129 out of 816
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 22:38:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9555.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9555hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03028 Dynein_heavy: Dynein 100.0 1.1E-28 2.5E-33 222.0 7.9 111 12-138 467-579 (707)
2 PF11585 Stomoxyn: Insect anti 46.1 24 0.00053 21.1 2.4 25 26-50 5-29 (42)
3 PF05377 FlaC_arch: Flagella a 36.5 1.1E+02 0.0023 19.8 4.4 28 21-48 5-32 (55)
4 PF15487 FAM220: FAM220 family 30.9 38 0.00083 28.5 2.2 37 97-133 136-176 (278)
5 PF02885 Glycos_trans_3N: Glyc 30.7 57 0.0012 20.8 2.6 20 67-86 15-34 (66)
6 PF05524 PEP-utilisers_N: PEP- 23.5 2.3E+02 0.005 19.8 4.9 31 20-50 32-62 (123)
7 PF13979 SopA_C: SopA-like cat 23.0 1.5E+02 0.0032 23.4 4.0 49 36-89 124-172 (172)
8 KOG3091|consensus 22.0 1.6E+02 0.0034 27.0 4.5 31 15-45 465-495 (508)
9 PF08083 PROCN: PROCN (NUC071) 21.1 3.9E+02 0.0084 23.8 6.6 22 24-46 198-220 (408)
10 KOG2656|consensus 20.3 2.3E+02 0.0049 25.4 5.0 74 20-106 229-305 (445)
11 PF12491 ApoB100_C: Apolipopro 20.1 1.9E+02 0.0041 18.9 3.4 31 20-50 27-57 (58)
No 1
>PF03028 Dynein_heavy: Dynein heavy chain and region D6 of dynein motor; InterPro: IPR004273 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits, intermediate size subunits and small subunits (see IPR001372 from INTERPRO). This family represents the C-terminal region of dynein heavy chain. The dynein heavy chain also exhibits ATPase activity and microtubule binding ability and acts as a motor for the movement of organelles and vesicles along microtubules. ; GO: 0003777 microtubule motor activity, 0007018 microtubule-based movement, 0030286 dynein complex; PDB: 3VKG_A 3VKH_C 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=99.95 E-value=1.1e-28 Score=222.00 Aligned_cols=111 Identities=28% Similarity=0.656 Sum_probs=80.1
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHHcHHHHHHhhcCcccccccccccccchhhhhcchhHHHHHHhhHcCCCcchhhhc
Q psy9555 12 GALLPMNIFLRQEIDRIQRVILEVRKTLTDLKLAIDGTITGNKFSSLICPSIQSIVMSQGLKSSLDAMYDARIPEKWQKI 91 (138)
Q Consensus 12 ~~~~pl~~fl~qEi~r~n~Ll~~Ir~sL~~L~~ai~G~~~~~~~~~~~~~~~~~~~ms~~l~~~~~~l~~~~VP~~W~~~ 91 (138)
+..+|+++|+.||++++|+||+.||++|++|+++++|.+ +||+++++++++|+.|+||..|.+.
T Consensus 467 ~~~~Pl~~fl~qE~~~~~~LL~~I~~sL~~L~~~lkG~~----------------~~t~~l~~l~~~L~~~~VP~~W~~~ 530 (707)
T PF03028_consen 467 NSNDPLNRFLEQEIERFNKLLQIIRQSLQELQKALKGEI----------------KMTNELEALAQSLLKGQVPKSWLRY 530 (707)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------------------------HHHHHHHHHHHHTS--GGG--S
T ss_pred ccCCceeeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccc----------------cccHHHHHHHHHHHhCCCChhHHhc
Confidence 578999999999999999999999999999999999999 9999999999999999999999998
Q ss_pred ccCC-cCHHHHHHHHHHHHHHHHHHHhC-CCCCeEecCCcccccccccC
Q psy9555 92 SWES-ATLGFWYTELLERDIQFRRWYQH-GRPNVFWMTTRVTQNTYSSN 138 (138)
Q Consensus 92 s~~s-~~L~~Wi~dL~~R~~~l~~W~~~-g~p~~~WLsgff~P~~FLta 138 (138)
+||+ +++++|++||.+|++|+++|... |.|.+|||||||+|++||||
T Consensus 531 ~~~s~~~l~~Wl~dL~~Rv~~l~~w~~~~~~p~~~wLs~ff~P~aFLtA 579 (707)
T PF03028_consen 531 SYPSPKPLSSWLQDLIKRVEQLQRWASNSGQPKSFWLSGFFNPQAFLTA 579 (707)
T ss_dssp ---SS--HHHHHHHHHHHHHHHHHHHH-------B-GGGSS-HHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHhccCCceEEecccccChHHHHHH
Confidence 8997 79999999999999999999999 99999999999999999997
No 2
>PF11585 Stomoxyn: Insect antimicrobial peptide, stomoxyn; InterPro: IPR021037 Stomoxyn is an insect antimicrobial peptide localised in the gut epithelium, which functions in killing a range of microorganisms, parasites and some viruses. In water, stomoxyn has a flexible random coil in structure, while in trifluoroethanol it adopts a stable helical structure. Structural similarities to the antimicrobial peptide cecropin A from Hyalophora cecropia suggest that it may function in a similar manner by disrupting the bacterial membrane []. ; PDB: 1ZRX_A.
Probab=46.09 E-value=24 Score=21.11 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHcHHHHHHhhcCcc
Q psy9555 26 DRIQRVILEVRKTLTDLKLAIDGTI 50 (138)
Q Consensus 26 ~r~n~Ll~~Ir~sL~~L~~ai~G~~ 50 (138)
.+||++++.|+.++.+...+-+...
T Consensus 5 k~fn~~ikkikhtisetahvakd~a 29 (42)
T PF11585_consen 5 KHFNRFIKKIKHTISETAHVAKDTA 29 (42)
T ss_dssp HHHHHHHHHHHHHHHHHHTHHHHTT
T ss_pred HHHHHHHHHHHhhhHHHHHhhhhhh
Confidence 5899999999999998876655443
No 3
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=36.49 E-value=1.1e+02 Score=19.77 Aligned_cols=28 Identities=25% Similarity=0.425 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHcHHHHHHhhcC
Q psy9555 21 LRQEIDRIQRVILEVRKTLTDLKLAIDG 48 (138)
Q Consensus 21 l~qEi~r~n~Ll~~Ir~sL~~L~~ai~G 48 (138)
|..|+.++..-+..+|+..++|++.+.+
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i~~~ve~ 32 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEISESVEK 32 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777777888887777777664
No 4
>PF15487 FAM220: FAM220 family
Probab=30.85 E-value=38 Score=28.54 Aligned_cols=37 Identities=16% Similarity=0.468 Sum_probs=30.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCC----CeEecCCccccc
Q psy9555 97 TLGFWYTELLERDIQFRRWYQHGRP----NVFWMTTRVTQN 133 (138)
Q Consensus 97 ~L~~Wi~dL~~R~~~l~~W~~~g~p----~~~WLsgff~P~ 133 (138)
-+..|+..=.+-++-++.|+.+|.+ .-||+|+|-..|
T Consensus 136 ~~~dWL~r~~~~~~~lr~w~~~gen~v~fa~FWlS~lp~~q 176 (278)
T PF15487_consen 136 LVSDWLERTPRATDSLRGWCHKGENFVRFAHFWLSELPDHQ 176 (278)
T ss_pred HHHHHhcccchhHHHHHHHHhcCCcchhhhhhhhccCCccc
Confidence 5677887777778889999999987 469999986654
No 5
>PF02885 Glycos_trans_3N: Glycosyl transferase family, helical bundle domain Prosite entry for Thymidine and pyrimidine-nucleoside phosphorylases; InterPro: IPR017459 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. The glycosyl transferase family includes anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase (2.4.2.2 from EC) catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism. This N-terminal domain is found in various family 3 glycosyl transferases, including anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism.; PDB: 2DSJ_B 2ELC_B 2BPQ_A 1ZVW_B 3QR9_B 1V8G_B 2WK5_C 2J0F_C 2WK6_B 1UOU_A ....
Probab=30.70 E-value=57 Score=20.82 Aligned_cols=20 Identities=20% Similarity=0.479 Sum_probs=15.7
Q ss_pred hcchhHHHHHHhhHcCCCcc
Q psy9555 67 VMSQGLKSSLDAMYDARIPE 86 (138)
Q Consensus 67 ~ms~~l~~~~~~l~~~~VP~ 86 (138)
.-.++.+.+++.+.+|++|+
T Consensus 15 Ls~~e~~~~~~~i~~g~~s~ 34 (66)
T PF02885_consen 15 LSREEAKAAFDAILDGEVSD 34 (66)
T ss_dssp --HHHHHHHHHHHHTTSS-H
T ss_pred CCHHHHHHHHHHHHcCCCCH
Confidence 66789999999999999886
No 6
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=23.55 E-value=2.3e+02 Score=19.81 Aligned_cols=31 Identities=19% Similarity=0.398 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHcHHHHHHhhcCcc
Q psy9555 20 FLRQEIDRIQRVILEVRKTLTDLKLAIDGTI 50 (138)
Q Consensus 20 fl~qEi~r~n~Ll~~Ir~sL~~L~~ai~G~~ 50 (138)
=...|+.|+.+-+...+..|.++.....+..
T Consensus 32 ~~~~E~~rl~~Al~~~~~eL~~l~~~~~~~~ 62 (123)
T PF05524_consen 32 DIEAEIERLEQALEKAREELEQLAERAESKL 62 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4468999999999999999999998876554
No 7
>PF13979 SopA_C: SopA-like catalytic domain; PDB: 3NB2_B 3NAW_B 3SQV_B 2QZA_B 3SY2_B 2QYU_A.
Probab=23.00 E-value=1.5e+02 Score=23.37 Aligned_cols=49 Identities=27% Similarity=0.469 Sum_probs=40.3
Q ss_pred HHcHHHHHHhhcCcccccccccccccchhhhhcchhHHHHHHhhHcCCCcchhh
Q psy9555 36 RKTLTDLKLAIDGTITGNKFSSLICPSIQSIVMSQGLKSSLDAMYDARIPEKWQ 89 (138)
Q Consensus 36 r~sL~~L~~ai~G~~~~~~~~~~~~~~~~~~~ms~~l~~~~~~l~~~~VP~~W~ 89 (138)
..++.+-+..+-|.. +.| -|-+|+.+.|.+--+.-+...+..-.|..|.
T Consensus 124 ~~~~~~w~~rLlg~~--~~f---tCTa~L~~~M~~~a~~~f~~vl~~i~P~aW~ 172 (172)
T PF13979_consen 124 SQTFDDWKNRLLGLN--NAF---TCTAILSDIMIEHAKKHFPDVLSSILPPAWR 172 (172)
T ss_dssp HHHHHHHHHHHCTTT--CSC---STCHHHHHHHHHHHHHHSHHHHCCCS-GGG-
T ss_pred HHHHHHHHHHHcCCC--CCc---ccHHHHHHHHHHHHHHhhhHHHHhhCCcccC
Confidence 566777778888854 555 6999999999999999999999999999995
No 8
>KOG3091|consensus
Probab=21.96 E-value=1.6e+02 Score=26.97 Aligned_cols=31 Identities=19% Similarity=0.323 Sum_probs=25.7
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHcHHHHHHh
Q psy9555 15 LPMNIFLRQEIDRIQRVILEVRKTLTDLKLA 45 (138)
Q Consensus 15 ~pl~~fl~qEi~r~n~Ll~~Ir~sL~~L~~a 45 (138)
.-+..++.+|-+++++|+..++.+++++++.
T Consensus 465 ~e~~e~lt~~~e~l~~Lv~Ilk~d~edi~~~ 495 (508)
T KOG3091|consen 465 IEMKEHLTQEQEALTKLVNILKGDQEDIKHQ 495 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 3455689999999999999999999999743
No 9
>PF08083 PROCN: PROCN (NUC071) domain; InterPro: IPR012592 The PROCN domain is the central domain in pre-mRNA splicing factors of PRO8 family [].; GO: 0000398 nuclear mRNA splicing, via spliceosome, 0005681 spliceosomal complex
Probab=21.08 E-value=3.9e+02 Score=23.81 Aligned_cols=22 Identities=36% Similarity=0.483 Sum_probs=15.7
Q ss_pred HHHHHH-HHHHHHHHcHHHHHHhh
Q psy9555 24 EIDRIQ-RVILEVRKTLTDLKLAI 46 (138)
Q Consensus 24 Ei~r~n-~Ll~~Ir~sL~~L~~ai 46 (138)
-|-||. +++..||. +.+|+.++
T Consensus 198 giYRYKYk~m~QIr~-cKdlKhli 220 (408)
T PF08083_consen 198 GIYRYKYKVMRQIRM-CKDLKHLI 220 (408)
T ss_pred hhhhHHHHHHHHHHH-HHHHHHHH
Confidence 345555 78888876 78888777
No 10
>KOG2656|consensus
Probab=20.27 E-value=2.3e+02 Score=25.42 Aligned_cols=74 Identities=23% Similarity=0.283 Sum_probs=47.0
Q ss_pred HHHHHHHHHH---HHHHHHHHcHHHHHHhhcCcccccccccccccchhhhhcchhHHHHHHhhHcCCCcchhhhcccCCc
Q psy9555 20 FLRQEIDRIQ---RVILEVRKTLTDLKLAIDGTITGNKFSSLICPSIQSIVMSQGLKSSLDAMYDARIPEKWQKISWESA 96 (138)
Q Consensus 20 fl~qEi~r~n---~Ll~~Ir~sL~~L~~ai~G~~~~~~~~~~~~~~~~~~~ms~~l~~~~~~l~~~~VP~~W~~~s~~s~ 96 (138)
-|.+|+.++. +=....+.+|..|...-+|.+++- ..|+++.+...++...+++..=....-|+.
T Consensus 229 ~Ll~E~KkiEarkke~~~~~~~l~rlld~ad~~i~~~-------------stS~~~~~~~~~~~a~kt~~k~~~a~v~a~ 295 (445)
T KOG2656|consen 229 ALLVELKKIEARKKERLAERQDLLRLLDSADGDITQY-------------STSPGMSSLENALLAKKTRQKKHEANVPAS 295 (445)
T ss_pred HHHHHHHHHHHHhhhhhhhhHHHHHhhhccccccccc-------------ccChhHHHHHHHHhhhhhhcccccccCccc
Confidence 5556666665 223345677777777778887544 678899999999988777765433334432
Q ss_pred CHHHHHHHHH
Q psy9555 97 TLGFWYTELL 106 (138)
Q Consensus 97 ~L~~Wi~dL~ 106 (138)
+-.+|....+
T Consensus 296 ~~~s~~ss~~ 305 (445)
T KOG2656|consen 296 PRESWMSSGI 305 (445)
T ss_pred cchhhhhhhh
Confidence 2236666543
No 11
>PF12491 ApoB100_C: Apolipoprotein B100 C terminal; InterPro: IPR022176 This domain family is found in eukaryotes, and is approximately 60 amino acids in length. There are two conserved sequence motifs: QLS and LIDL. ApoB100 has an essential role in the assembly and secretion of triglyceride-rich lipoproteins and lipids transport.
Probab=20.09 E-value=1.9e+02 Score=18.87 Aligned_cols=31 Identities=16% Similarity=0.260 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHcHHHHHHhhcCcc
Q psy9555 20 FLRQEIDRIQRVILEVRKTLTDLKLAIDGTI 50 (138)
Q Consensus 20 fl~qEi~r~n~Ll~~Ir~sL~~L~~ai~G~~ 50 (138)
.+-.-|+.|+..++.|-.-|++|+.|..+.+
T Consensus 27 LIDLsIqnY~~Fl~yi~eLL~~lq~ata~~~ 57 (58)
T PF12491_consen 27 LIDLSIQNYHMFLRYITELLKELQSATANDI 57 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 3445678899999999999999998877654
Done!