Query psy5569
Match_columns 110
No_of_seqs 114 out of 135
Neff 3.9
Searched_HMMs 46136
Date Fri Aug 16 20:51:01 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5569.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5569hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01086 Clathrin_lg_ch: Clath 99.9 5.1E-27 1.1E-31 182.8 0.1 58 50-107 163-224 (225)
2 KOG4031|consensus 99.9 3.8E-22 8.2E-27 157.1 8.3 60 50-109 157-216 (216)
3 PF00249 Myb_DNA-binding: Myb- 75.0 6.4 0.00014 23.2 3.7 26 54-80 7-32 (48)
4 smart00717 SANT SANT SWI3, AD 49.4 32 0.00069 18.6 3.2 25 54-80 7-32 (49)
5 PF08485 Polysacc_syn_2C: Poly 36.1 28 0.0006 22.0 1.7 30 73-103 16-45 (48)
6 cd00167 SANT 'SWI3, ADA2, N-Co 35.8 64 0.0014 17.2 3.0 27 53-80 4-30 (45)
7 PF01846 FF: FF domain; Inter 35.8 72 0.0016 18.7 3.4 27 56-83 3-32 (51)
8 PHA00097 K protein K 29.5 29 0.00062 22.6 0.9 15 77-91 42-56 (56)
9 PF11903 DUF3423: Protein of u 29.2 62 0.0013 21.7 2.6 30 69-103 29-58 (72)
10 smart00441 FF Contains two con 26.3 74 0.0016 18.7 2.4 30 54-83 2-34 (55)
11 cd00197 VHS_ENTH_ANTH VHS, ENT 25.8 89 0.0019 21.1 3.0 39 65-105 11-49 (115)
12 cd03565 VHS_Tom1 VHS domain fa 24.3 1.3E+02 0.0027 21.9 3.7 37 66-104 13-49 (141)
13 PF00790 VHS: VHS domain; Int 21.9 58 0.0013 23.2 1.5 40 65-106 16-55 (140)
14 PF12283 Protein_K: Bacterioph 21.3 51 0.0011 21.5 1.0 15 77-91 42-56 (56)
15 smart00054 EFh EF-hand, calciu 21.2 1E+02 0.0022 13.9 3.0 28 71-101 1-28 (29)
16 smart00510 TFS2M Domain in the 20.5 62 0.0013 22.5 1.4 17 90-106 49-67 (102)
17 PF03579 SHP: Small hydrophobi 20.5 57 0.0012 21.8 1.1 22 75-97 41-62 (64)
No 1
>PF01086 Clathrin_lg_ch: Clathrin light chain; InterPro: IPR000996 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents clathrin light chains, which are more divergent in sequence than the heavy chains []. In higher eukaryotes, two genes encode distinct but related light chains, each of which can yield two separate forms via alternative splicing. In yeast there is a single light chain whose sequence is only distantly related to that of higher eukaryotes. Clathrin light chains have a conserved acidic N-terminal domain, a central coiled-coil domain and a conserved C-terminal domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030130 clathrin coat of trans-Golgi network vesicle, 0030132 clathrin coat of coated pit; PDB: 3LVG_E 3LVH_D.
Probab=99.92 E-value=5.1e-27 Score=182.76 Aligned_cols=58 Identities=52% Similarity=0.853 Sum_probs=2.8
Q ss_pred hhcHHHHHHHHHhhccCC-CCChhHHHHhhhcCCCCCCCCcchHHHHHHHHHHhh---cCCC
Q psy5569 50 LLFLNAEKQFVAEVDDIE-PGTEWERIAKLCDFNPKVGRTNKDVSRMRSIILQLK---QTPL 107 (110)
Q Consensus 50 ~~NR~~Ee~fl~~~~~~~-~gt~WERIakLiDf~~K~sk~~kDlSRMR~iLL~LK---~~p~ 107 (110)
++||++|++||+.+++.. +||+|+||++||||+++++++++|+||||+|||+|| +.|.
T Consensus 163 ~~nr~~ee~fl~~~~~~~~~~t~WerV~~Lid~~~~~~~~~kD~sRmR~iLl~LK~~~~~Pg 224 (225)
T PF01086_consen 163 KQNREEEEEFLAKREEFLQPGTEWERVAKLIDFNPKSSKSGKDVSRMREILLKLKGDENAPG 224 (225)
T ss_dssp HTT-----------------------------------------------------------
T ss_pred HHHHHHHHHHHHcccccCCCCCcHHHHHHHhCCCCCCCCCCCcHHHHHHHHHHhhhhccCCC
Confidence 899999999999998765 999999999999999999999999999999999999 6665
No 2
>KOG4031|consensus
Probab=99.87 E-value=3.8e-22 Score=157.05 Aligned_cols=60 Identities=50% Similarity=0.850 Sum_probs=54.9
Q ss_pred hhcHHHHHHHHHhhccCCCCChhHHHHhhhcCCCCCCCCcchHHHHHHHHHHhhcCCCCC
Q psy5569 50 LLFLNAEKQFVAEVDDIEPGTEWERIAKLCDFNPKVGRTNKDVSRMRSIILQLKQTPLKK 109 (110)
Q Consensus 50 ~~NR~~Ee~fl~~~~~~~~gt~WERIakLiDf~~K~sk~~kDlSRMR~iLL~LK~~p~~~ 109 (110)
.+||++++.|+...+..++||+||||++|||||+|++|++|||||||+|||+|||.|.+.
T Consensus 157 ~~nk~eee~~~~e~~~~~~gTeWErv~kL~D~n~k~sk~gkD~SRlrslL~~LK~aP~a~ 216 (216)
T KOG4031|consen 157 ANNKAEEEALVKENEEFSPGTEWERVAKLCDFNPKSSKQGKDVSRLRSLLISLKQAPGAA 216 (216)
T ss_pred HHhHHHHHHHHHhhcccCCCchHHHHHHHHcCCccchhccccHHHHHHHHHHhhhCcCCC
Confidence 778877777777778888999999999999999999999999999999999999999863
No 3
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=74.98 E-value=6.4 Score=23.20 Aligned_cols=26 Identities=19% Similarity=0.461 Sum_probs=15.6
Q ss_pred HHHHHHHHhhccCCCCChhHHHHhhhc
Q psy5569 54 NAEKQFVAEVDDIEPGTEWERIAKLCD 80 (110)
Q Consensus 54 ~~Ee~fl~~~~~~~~gt~WERIakLiD 80 (110)
++++.|+...... +...|..|++.+.
T Consensus 7 eE~~~l~~~v~~~-g~~~W~~Ia~~~~ 32 (48)
T PF00249_consen 7 EEDEKLLEAVKKY-GKDNWKKIAKRMP 32 (48)
T ss_dssp HHHHHHHHHHHHS-TTTHHHHHHHHHS
T ss_pred HHHHHHHHHHHHh-CCcHHHHHHHHcC
Confidence 3455555532222 2226999999997
No 4
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=49.39 E-value=32 Score=18.64 Aligned_cols=25 Identities=28% Similarity=0.533 Sum_probs=15.7
Q ss_pred HHHHHHHHhhccCCCC-ChhHHHHhhhc
Q psy5569 54 NAEKQFVAEVDDIEPG-TEWERIAKLCD 80 (110)
Q Consensus 54 ~~Ee~fl~~~~~~~~g-t~WERIakLiD 80 (110)
++++.|+..... .| ..|..|++.+.
T Consensus 7 ~E~~~l~~~~~~--~g~~~w~~Ia~~~~ 32 (49)
T smart00717 7 EEDELLIELVKK--YGKNNWEKIAKELP 32 (49)
T ss_pred HHHHHHHHHHHH--HCcCCHHHHHHHcC
Confidence 444555553222 24 77999999985
No 5
>PF08485 Polysacc_syn_2C: Polysaccharide biosynthesis protein C-terminal; InterPro: IPR013692 This domain is found to the C terminus of the IPR003869 from INTERPRO domain in bacterial polysaccharide biosynthesis enzymes including the capsule protein CapD [] and several putative epimerases/dehydratases. ; GO: 0003978 UDP-glucose 4-epimerase activity, 0009103 lipopolysaccharide biosynthetic process
Probab=36.10 E-value=28 Score=22.02 Aligned_cols=30 Identities=30% Similarity=0.587 Sum_probs=23.3
Q ss_pred HHHHhhhcCCCCCCCCcchHHHHHHHHHHhh
Q psy5569 73 ERIAKLCDFNPKVGRTNKDVSRMRSIILQLK 103 (110)
Q Consensus 73 ERIakLiDf~~K~sk~~kDlSRMR~iLL~LK 103 (110)
.+|+.+-|++...+. -=|+.-|+++|+.|-
T Consensus 16 ~~~~~~~dYnShNT~-rL~ve~~k~lLl~L~ 45 (48)
T PF08485_consen 16 EKISEVEDYNSHNTE-RLDVEEMKELLLKLD 45 (48)
T ss_pred cccccccccCCCCcc-ccCHHHHHHHHHhCh
Confidence 356777888887665 467999999999884
No 6
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=35.79 E-value=64 Score=17.17 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=15.8
Q ss_pred HHHHHHHHHhhccCCCCChhHHHHhhhc
Q psy5569 53 LNAEKQFVAEVDDIEPGTEWERIAKLCD 80 (110)
Q Consensus 53 R~~Ee~fl~~~~~~~~gt~WERIakLiD 80 (110)
.++++.|+...... +...|..|++.+.
T Consensus 4 ~eE~~~l~~~~~~~-g~~~w~~Ia~~~~ 30 (45)
T cd00167 4 EEEDELLLEAVKKY-GKNNWEKIAKELP 30 (45)
T ss_pred HHHHHHHHHHHHHH-CcCCHHHHHhHcC
Confidence 34455555432222 2167999999984
No 7
>PF01846 FF: FF domain; InterPro: IPR002713 The FF domain may be involved in protein-protein interaction []. It often occurs as multiple copies and often accompanies WW domains IPR001202 from INTERPRO. PRP40 from yeast encodes a novel, essential splicing component that associates with the yeast U1 small nuclear ribonucleoprotein particle [].; PDB: 3HFH_B 2KIS_A 2DOD_A 2JUC_A 2LKS_A 1UZC_A 2KZG_A 2L9V_A 2DOF_A 2KFD_A ....
Probab=35.78 E-value=72 Score=18.68 Aligned_cols=27 Identities=26% Similarity=0.516 Sum_probs=18.1
Q ss_pred HHHHHH---hhccCCCCChhHHHHhhhcCCC
Q psy5569 56 EKQFVA---EVDDIEPGTEWERIAKLCDFNP 83 (110)
Q Consensus 56 Ee~fl~---~~~~~~~gt~WERIakLiDf~~ 83 (110)
.+.|.+ +.. +++.+.|+.|..+|.-.|
T Consensus 3 ~~~F~~lL~e~~-i~~~s~W~~~~~~l~~dp 32 (51)
T PF01846_consen 3 REAFKELLKEHK-ITPYSSWEEVKPKLSKDP 32 (51)
T ss_dssp HHHHHHHHHHTT-S-TTSSHHHHHHHHTTSC
T ss_pred HHHHHHHHHhCC-CCCCCcHHHHHHHHccCH
Confidence 344554 333 789999999999995443
No 8
>PHA00097 K protein K
Probab=29.50 E-value=29 Score=22.60 Aligned_cols=15 Identities=33% Similarity=0.804 Sum_probs=12.2
Q ss_pred hhhcCCCCCCCCcch
Q psy5569 77 KLCDFNPKVGRTNKD 91 (110)
Q Consensus 77 kLiDf~~K~sk~~kD 91 (110)
=||+++|++..++||
T Consensus 42 ll~~lsps~~r~~k~ 56 (56)
T PHA00097 42 LLCNLSPSSQRSGKN 56 (56)
T ss_pred HhhcCCCCcccccCC
Confidence 478999998887775
No 9
>PF11903 DUF3423: Protein of unknown function (DUF3423); InterPro: IPR021831 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 73 to 118 amino acids in length.
Probab=29.18 E-value=62 Score=21.71 Aligned_cols=30 Identities=23% Similarity=0.462 Sum_probs=23.9
Q ss_pred CChhHHHHhhhcCCCCCCCCcchHHHHHHHHHHhh
Q psy5569 69 GTEWERIAKLCDFNPKVGRTNKDVSRMRSIILQLK 103 (110)
Q Consensus 69 gt~WERIakLiDf~~K~sk~~kDlSRMR~iLL~LK 103 (110)
=..|-||.+++..|| .-+.+..+.+|+..-
T Consensus 29 iE~WariGr~~E~np-----~l~~~~I~~~l~~~~ 58 (72)
T PF11903_consen 29 IEHWARIGRAAEDNP-----DLSYSFIEEMLLAAE 58 (72)
T ss_pred HHHHHHHHHHHHHCC-----CCCHHHHHHHHHHhh
Confidence 458999999999888 445778888888654
No 10
>smart00441 FF Contains two conserved F residues. A novel motif that often accompanies WW domains. Often contains two conserved Phe (F) residues.
Probab=26.31 E-value=74 Score=18.73 Aligned_cols=30 Identities=27% Similarity=0.488 Sum_probs=20.2
Q ss_pred HHHHHHHHhh---ccCCCCChhHHHHhhhcCCC
Q psy5569 54 NAEKQFVAEV---DDIEPGTEWERIAKLCDFNP 83 (110)
Q Consensus 54 ~~Ee~fl~~~---~~~~~gt~WERIakLiDf~~ 83 (110)
+..++|.+.. ...+++++|+.|.+++--.|
T Consensus 2 ~~~~~F~~LL~e~~~~~~~~~W~~~~~~~~~d~ 34 (55)
T smart00441 2 EAKEAFKELLKEHEVITPDTTWSEARKKLKNDP 34 (55)
T ss_pred hHHHHHHHHHHhCCCCCCCCcHHHHHHHHhcCh
Confidence 3456676643 22358999999999885443
No 11
>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain. The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It is located at the N-termini of proteins involved in intracellular membrane trafficking. The epsin N-terminal homology (ENTH) domain is an evolutionarily conserved protein module found primarily in proteins that participate in clathrin-mediated endocytosis. A set of proteins previously designated as harboring an ENTH domain in fact contains a highly similar, yet unique module referred to as an AP180 N-terminal homology (ANTH) domain. VHS, ENTH and ANTH domains are structurally similar and are composed of a superhelix of eight alpha helices. ENTH adnd ANTH (E/ANTH) domains bind both inositol phospholipids and proteins and contribute to the nucleation and formation of clathrin coats on membra
Probab=25.76 E-value=89 Score=21.11 Aligned_cols=39 Identities=18% Similarity=0.443 Sum_probs=27.2
Q ss_pred cCCCCChhHHHHhhhcCCCCCCCCcchHHHHHHHHHHhhcC
Q psy5569 65 DIEPGTEWERIAKLCDFNPKVGRTNKDVSRMRSIILQLKQT 105 (110)
Q Consensus 65 ~~~~gt~WERIakLiDf~~K~sk~~kDlSRMR~iLL~LK~~ 105 (110)
+...+..|.-|-.+||+-.....++++ =|+.|..+|++.
T Consensus 11 ~~~~~p~~~~i~~i~d~~~~~~~~~~~--~~~~l~kRl~~~ 49 (115)
T cd00197 11 NENMGPDWPLIMEICDLINETNVGPKE--AVDAIKKRINNK 49 (115)
T ss_pred CCCCCCCHHHHHHHHHHHHCCCccHHH--HHHHHHHHhcCC
Confidence 345689999999999998655444444 466677777654
No 12
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=24.31 E-value=1.3e+02 Score=21.92 Aligned_cols=37 Identities=19% Similarity=0.369 Sum_probs=28.0
Q ss_pred CCCCChhHHHHhhhcCCCCCCCCcchHHHHHHHHHHhhc
Q psy5569 66 IEPGTEWERIAKLCDFNPKVGRTNKDVSRMRSIILQLKQ 104 (110)
Q Consensus 66 ~~~gt~WERIakLiDf~~K~sk~~kDlSRMR~iLL~LK~ 104 (110)
.-..--|.-|-.+||.-+...-+++|. ||.|-.+|++
T Consensus 13 ~l~~~dw~~ileicD~In~~~~~~k~a--~ralkkRl~~ 49 (141)
T cd03565 13 SLQSEDWGLNMEICDIINETEDGPKDA--VRALKKRLNG 49 (141)
T ss_pred CCCCcCHHHHHHHHHHHhCCCCcHHHH--HHHHHHHHcc
Confidence 345668999999999977655566664 7788888874
No 13
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=21.89 E-value=58 Score=23.18 Aligned_cols=40 Identities=23% Similarity=0.464 Sum_probs=26.4
Q ss_pred cCCCCChhHHHHhhhcCCCCCCCCcchHHHHHHHHHHhhcCC
Q psy5569 65 DIEPGTEWERIAKLCDFNPKVGRTNKDVSRMRSIILQLKQTP 106 (110)
Q Consensus 65 ~~~~gt~WERIakLiDf~~K~sk~~kDlSRMR~iLL~LK~~p 106 (110)
......-|..|-.|||+-.....++++. +|.|-.+|++..
T Consensus 16 ~~~~~~Dw~~~l~icD~i~~~~~~~kea--~~~l~krl~~~~ 55 (140)
T PF00790_consen 16 ESLPSPDWSLILEICDLINSSPDGAKEA--ARALRKRLKHGN 55 (140)
T ss_dssp TTSSS--HHHHHHHHHHHHTSTTHHHHH--HHHHHHHHTTSS
T ss_pred cCCCCCCHHHHHHHHHHHHcCCccHHHH--HHHHHHHHhCCC
Confidence 3346679999999999866555556665 445777777743
No 14
>PF12283 Protein_K: Bacteriophage protein K; InterPro: IPR020962 This family of proteins is found in the microviridae (isometric ssDNA phages) and are approximately 60 amino acids in length. The function of these proteins are unknown. In phi X174 site-directed mutagenesis of gene K produces small plaques on su- hosts. The mutant phage has an identical latent period, but a more reduced burst size than that of the wild-type phi X174. The reduced burst size in the gene K mutant suggests that the gene K protein, although not essential, has a role in increasing infectivity by increasing the burst size three to six fold [].
Probab=21.30 E-value=51 Score=21.47 Aligned_cols=15 Identities=40% Similarity=0.612 Sum_probs=11.9
Q ss_pred hhhcCCCCCCCCcch
Q psy5569 77 KLCDFNPKVGRTNKD 91 (110)
Q Consensus 77 kLiDf~~K~sk~~kD 91 (110)
=||+++|++..++||
T Consensus 42 llr~lsps~~~~~kd 56 (56)
T PF12283_consen 42 LLRDLSPSSQRSGKD 56 (56)
T ss_pred HhhcCCCCccccccC
Confidence 478999988887776
No 15
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=21.18 E-value=1e+02 Score=13.88 Aligned_cols=28 Identities=14% Similarity=0.224 Sum_probs=17.6
Q ss_pred hhHHHHhhhcCCCCCCCCcchHHHHHHHHHH
Q psy5569 71 EWERIAKLCDFNPKVGRTNKDVSRMRSIILQ 101 (110)
Q Consensus 71 ~WERIakLiDf~~K~sk~~kDlSRMR~iLL~ 101 (110)
+|.++-+.+|.+..+ .-+...++.++.+
T Consensus 1 ~~~~~f~~~d~~~~g---~i~~~e~~~~~~~ 28 (29)
T smart00054 1 ELKEAFRLFDKDGDG---KIDFEEFKDLLKA 28 (29)
T ss_pred CHHHHHHHHCCCCCC---cEeHHHHHHHHHh
Confidence 366777888876533 3456667766654
No 16
>smart00510 TFS2M Domain in the central regions of transcription elongation factor S-II (and elsewhere).
Probab=20.54 E-value=62 Score=22.54 Aligned_cols=17 Identities=35% Similarity=0.600 Sum_probs=14.4
Q ss_pred chHHHHHHHHHHhh--cCC
Q psy5569 90 KDVSRMRSIILQLK--QTP 106 (110)
Q Consensus 90 kDlSRMR~iLL~LK--~~p 106 (110)
+=.++||+|+-.|| ++|
T Consensus 49 ~Yk~k~Rsl~fNLkd~kN~ 67 (102)
T smart00510 49 KYKNKYRSLYFNLKDKKNP 67 (102)
T ss_pred HHHHHHHHHHHHhcCCCCH
Confidence 34789999999999 776
No 17
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=20.46 E-value=57 Score=21.81 Aligned_cols=22 Identities=27% Similarity=0.410 Sum_probs=15.7
Q ss_pred HHhhhcCCCCCCCCcchHHHHHH
Q psy5569 75 IAKLCDFNPKVGRTNKDVSRMRS 97 (110)
Q Consensus 75 IakLiDf~~K~sk~~kDlSRMR~ 97 (110)
..||||++..-++ +-|+-+++.
T Consensus 41 LNKLcd~n~~h~~-sldi~~~~~ 62 (64)
T PF03579_consen 41 LNKLCDLNDFHTN-SLDIRTRLR 62 (64)
T ss_pred HHHHHHhhhhccc-cchHhHHhc
Confidence 4799999987766 466666653
Done!