Query psy11310
Match_columns 98
No_of_seqs 52 out of 54
Neff 2.7
Searched_HMMs 46136
Date Fri Aug 16 15:09:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11310.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11310hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03623 Focal_AT: Focal adhes 100.0 2.7E-39 5.8E-44 236.6 9.6 85 1-85 29-113 (139)
2 KOG4257|consensus 100.0 8.4E-33 1.8E-37 243.5 8.5 86 1-86 862-947 (974)
3 PF15508 NAAA-beta: beta subun 89.0 1.7 3.8E-05 28.9 5.6 74 3-94 12-87 (95)
4 PF14223 UBN2: gag-polypeptide 62.9 38 0.00081 22.2 5.7 61 4-64 41-110 (119)
5 PF06840 DUF1241: Protein of u 57.5 14 0.00031 27.8 3.3 33 8-40 117-149 (154)
6 PF10018 Med4: Vitamin-D-recep 54.0 44 0.00095 24.7 5.4 75 7-90 46-147 (188)
7 PF10239 DUF2465: Protein of u 46.0 17 0.00037 29.7 2.3 54 19-80 156-211 (318)
8 PF14966 DNA_repr_REX1B: DNA r 43.1 97 0.0021 21.2 5.4 46 4-64 33-83 (97)
9 KOG1497|consensus 39.9 18 0.00039 31.3 1.6 23 21-43 62-84 (399)
10 COG4842 Uncharacterized protei 38.5 1.1E+02 0.0025 20.4 5.1 45 20-64 30-75 (97)
11 PF05008 V-SNARE: Vesicle tran 35.3 1.1E+02 0.0023 19.1 4.3 27 52-78 36-62 (79)
12 smart00546 CUE Domain that may 34.7 81 0.0018 17.8 3.4 36 25-60 4-39 (43)
13 PRK13842 conjugal transfer pro 32.7 2.3E+02 0.0049 23.1 6.8 64 7-77 44-129 (267)
14 COG4980 GvpP Gas vesicle prote 32.5 44 0.00095 24.2 2.4 43 17-59 30-72 (115)
15 PF04651 Pox_A12: Poxvirus A12 31.9 43 0.00094 26.5 2.5 35 4-38 9-43 (189)
16 COG4170 SapD ABC-type antimicr 30.8 35 0.00076 28.7 1.9 66 7-88 99-177 (330)
17 PF11961 DUF3475: Domain of un 30.5 41 0.00088 21.8 1.8 16 43-58 36-51 (57)
18 KOG2857|consensus 29.9 52 0.0011 25.4 2.5 13 19-31 98-110 (157)
19 PF02845 CUE: CUE domain; Int 28.6 1.2E+02 0.0026 17.2 3.7 35 26-60 4-38 (42)
20 PF02568 ThiI: Thiamine biosyn 27.8 1.5E+02 0.0032 22.7 4.7 50 33-84 40-101 (197)
21 PF11880 DUF3400: Domain of un 27.8 74 0.0016 20.0 2.5 19 42-60 16-35 (45)
22 PF09177 Syntaxin-6_N: Syntaxi 27.7 1.8E+02 0.004 19.1 5.8 58 9-66 3-68 (97)
23 PF14782 BBS2_C: Ciliary BBSom 26.4 1E+02 0.0023 26.3 4.0 30 18-59 307-336 (431)
24 PF00804 Syntaxin: Syntaxin; 26.0 1.7E+02 0.0036 18.0 6.4 61 6-66 2-71 (103)
25 PF02416 MttA_Hcf106: mttA/Hcf 25.6 1.2E+02 0.0025 18.7 3.2 26 6-31 19-44 (53)
26 smart00503 SynN Syntaxin N-ter 25.5 1.9E+02 0.0041 18.5 6.5 58 7-64 49-109 (117)
27 cd00179 SynN Syntaxin N-termin 25.5 2.2E+02 0.0047 19.2 7.5 71 7-81 47-121 (151)
28 PF05659 RPW8: Arabidopsis bro 25.2 2.2E+02 0.0047 20.7 5.0 54 19-77 35-96 (147)
29 PF07279 DUF1442: Protein of u 24.2 57 0.0012 26.0 1.9 19 43-61 19-37 (218)
30 cd01671 CARD Caspase activatio 23.8 60 0.0013 19.8 1.6 26 25-59 13-38 (80)
31 PRK10404 hypothetical protein; 23.5 2.3E+02 0.005 19.6 4.7 48 16-63 10-57 (101)
32 PHA03247 large tegument protei 23.2 70 0.0015 34.2 2.8 32 19-50 1829-1860(3151)
33 PF07586 HXXSHH: Protein of un 22.7 54 0.0012 25.5 1.6 27 3-29 183-209 (302)
34 PRK01770 sec-independent trans 22.7 3.6E+02 0.0078 20.7 6.1 27 5-31 21-47 (171)
35 PF14479 HeLo: Prion-inhibitio 22.1 2.3E+02 0.0049 20.3 4.6 43 22-64 168-210 (212)
36 PF01316 Arg_repressor: Argini 21.9 50 0.0011 21.6 1.1 16 41-56 33-48 (70)
37 PF04783 DUF630: Protein of un 21.7 1.1E+02 0.0023 20.0 2.5 18 8-25 40-57 (60)
38 cd03561 VHS VHS domain family; 21.7 2.8E+02 0.0061 19.1 4.9 45 12-63 64-113 (133)
39 PF03195 DUF260: Protein of un 21.6 69 0.0015 22.2 1.8 30 30-59 18-48 (101)
40 KOG1572|consensus 21.4 72 0.0016 26.1 2.0 26 53-78 162-187 (249)
41 PF15188 CCDC-167: Coiled-coil 20.8 1.9E+02 0.0041 19.9 3.8 44 32-83 31-74 (85)
42 PF14871 GHL6: Hypothetical gl 20.7 16 0.00035 26.0 -1.6 53 6-62 2-55 (132)
43 PF00651 BTB: BTB/POZ domain; 20.7 1.1E+02 0.0025 18.8 2.5 28 53-80 81-108 (111)
44 PRK04778 septation ring format 20.6 3.7E+02 0.0079 23.2 6.2 61 3-64 440-503 (569)
45 PF14523 Syntaxin_2: Syntaxin- 20.4 2.5E+02 0.0053 17.9 5.9 31 35-65 62-92 (102)
46 PF06393 BID: BH3 interacting 20.2 1.7E+02 0.0036 23.3 3.8 35 23-68 129-163 (196)
No 1
>PF03623 Focal_AT: Focal adhesion targeting region; InterPro: IPR005189 Focal adhesion kinase (FAK) is a tyrosine kinase found in focal adhesions, intracellular signalling complexes that are formed following engagement of the extracellular matrix by integrins. The C-terminal "focal adhesion targeting" (FAT) region is necessary and sufficient for localizing FAK to focal adhesions. The crystal structure of FAT shows it forms a four-helix bundle that resembles those found in two other proteins involved in cell adhesion, alpha-catenin and vinculin []. The binding of FAT to the focal adhesion protein, paxillin, requires the integrity of the helical bundle, whereas binding to another focal adhesion protein, talin, does not.; GO: 0004713 protein tyrosine kinase activity, 0004871 signal transducer activity, 0006468 protein phosphorylation, 0007172 signal complex assembly, 0005925 focal adhesion; PDB: 1K05_C 1OW8_C 1OW7_C 3S9O_C 3B71_B 1K04_A 1OW6_C 3GM1_B 3GM3_A 3GM2_A ....
Probab=100.00 E-value=2.7e-39 Score=236.61 Aligned_cols=85 Identities=48% Similarity=0.725 Sum_probs=82.4
Q ss_pred CCccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhHHHHHhhh
Q psy11310 1 VQQNLTEHYLELVKRVGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDNVYRKRGR 80 (98)
Q Consensus 1 Vq~a~~e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~eYrK~ML 80 (98)
|+.++||+|+++||+||.+||+||++||+++|+||+|+|+|||||||+|||||+|||++||+||||++|||++||||+||
T Consensus 29 v~~~~~~~y~~~VK~VG~~Lr~Ll~sVd~~~~~l~~s~~~EVema~klL~~DM~eLi~~mklaq~~~~ttl~~eyrr~ml 108 (139)
T PF03623_consen 29 VQTAKPEEYVDLVKNVGLALRDLLTSVDQILPSLPSSVRREVEMAHKLLSKDMAELISAMKLAQQNSNTTLDEEYRRQML 108 (139)
T ss_dssp TTTSSHHHHHHHHHHHHHHHHHHHHHHHHHGGGSHTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred hccCChHHHHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcc
Q psy11310 81 RFSSA 85 (98)
Q Consensus 81 ~~~~~ 85 (98)
+++-.
T Consensus 109 ~aah~ 113 (139)
T PF03623_consen 109 SAAHV 113 (139)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 98654
No 2
>KOG4257|consensus
Probab=99.98 E-value=8.4e-33 Score=243.46 Aligned_cols=86 Identities=42% Similarity=0.582 Sum_probs=83.3
Q ss_pred CCccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhHHHHHhhh
Q psy11310 1 VQQNLTEHYLELVKRVGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDNVYRKRGR 80 (98)
Q Consensus 1 Vq~a~~e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~eYrK~ML 80 (98)
|++++||+|+.+||+||+.||+||+|||.+.|.||+++|+|||||||+|||||+||||+|||||||+.|||++|||||||
T Consensus 862 v~~a~pegyl~~VKeVgl~LR~ll~svd~~~~~lpast~tevemtqkllnkDm~elinkMrlaQq~~~tsl~~e~rrqml 941 (974)
T KOG4257|consen 862 VEKANPEGYLHSVKEVGLQLRELLISVDGMRPRLPASTQTEVEMTQKLLNKDMKELINKMRLAQQNGHTSLYNEYRRQML 941 (974)
T ss_pred cccCCchhhhHHHHHHHHHHHHHHHHhhcccccCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccc
Q psy11310 81 RFSSAS 86 (98)
Q Consensus 81 ~~~~~~ 86 (98)
+++-+-
T Consensus 942 taah~L 947 (974)
T KOG4257|consen 942 TAAHEL 947 (974)
T ss_pred HHHHHH
Confidence 987553
No 3
>PF15508 NAAA-beta: beta subunit of N-acylethanolamine-hydrolyzing acid amidase
Probab=88.97 E-value=1.7 Score=28.90 Aligned_cols=74 Identities=18% Similarity=0.326 Sum_probs=48.3
Q ss_pred ccchhHHHHHHHHHHHHHHHHHhhhhhhhcc-CCC-chhHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhHHHHHhhh
Q psy11310 3 QNLTEHYLELVKRVGTELRNLLTSVDNLVVM-FPP-SAHKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDNVYRKRGR 80 (98)
Q Consensus 3 ~a~~e~Yv~lVK~VGl~LR~LL~SVD~l~p~-~P~-s~hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~eYrK~ML 80 (98)
..+-|.|..+++.-+-++|.+...++++++. +|. ..+.-|+ .++..| . -.+.++|...|.
T Consensus 12 lpP~eRw~~i~~~~k~~i~~l~~~~~~~~~~~~~~~~~~~~v~-----------~~~~~l--~-----~~~~~~~~~Eir 73 (95)
T PF15508_consen 12 LPPEERWVQIAKDYKDEIRELIEVLKDLLQSFVPSGKVLDFVD-----------KLLPHL--L-----RYLPQPYAEEIR 73 (95)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHH-----------HHHHHH--H-----HhCCHHHHHHHH
Confidence 4567889999999999999999999999886 455 3433332 111111 1 234677888888
Q ss_pred hhhccchhhhhhHh
Q psy11310 81 RFSSASQSALTRVI 94 (98)
Q Consensus 81 ~~~~~~~~~~~~~~ 94 (98)
..|.++---+.-++
T Consensus 74 GIA~~~gi~l~~iv 87 (95)
T PF15508_consen 74 GIAKAAGIPLGDIV 87 (95)
T ss_pred HHHHHhCCCHHHHH
Confidence 77766544444333
No 4
>PF14223 UBN2: gag-polypeptide of LTR copia-type
Probab=62.86 E-value=38 Score=22.22 Aligned_cols=61 Identities=18% Similarity=0.293 Sum_probs=44.9
Q ss_pred cchhHHHHHHHHHHHHHHHHHh------hhhhhhccCCCchhHHHHHHHHhhhh---hHHHHHHHHHHHH
Q psy11310 4 NLTEHYLELVKRVGTELRNLLT------SVDNLVVMFPPSAHKEIEIAHKVLSK---DMGELVACMKLAH 64 (98)
Q Consensus 4 a~~e~Yv~lVK~VGl~LR~LL~------SVD~l~p~~P~s~hrEVEmahKvLsk---DMaELVsaMKLAq 64 (98)
-.+++|+.-++.+.-+|+.+=. -|..++..||++...=+..-...-+- -..||++.++..+
T Consensus 41 ~sv~~y~~~~~~i~~~L~~~g~~i~d~~~v~~iL~~Lp~~y~~~~~~i~~~~~~~~~t~~el~~~L~~~E 110 (119)
T PF14223_consen 41 ESVDEYISRLKEIVDELRAIGKPISDEDLVSKILRSLPPSYDTFVTAIRNSKDLPKMTLEELISRLLAEE 110 (119)
T ss_pred ccHHHHHHHHHHhhhhhhhcCCcccchhHHHHHHhcCCchhHHHHHHHHhcCCCCcCCHHHHHHHHHHHH
Confidence 3578899999999999987743 35668889998888777755444333 3778888887665
No 5
>PF06840 DUF1241: Protein of unknown function (DUF1241); InterPro: IPR009652 This family consists of several programmed cell death 10 protein (PDCD10 or TFAR15) sequences. The function of this family is unknown.; PDB: 3L8I_A 3RQG_B 3RQE_B 3L8J_A 3RQF_B 3AJM_B.
Probab=57.53 E-value=14 Score=27.82 Aligned_cols=33 Identities=24% Similarity=0.558 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhccCCCchhH
Q psy11310 8 HYLELVKRVGTELRNLLTSVDNLVVMFPPSAHK 40 (98)
Q Consensus 8 ~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hr 40 (98)
.|+...|.+.-+.+.||.+|.+....+|..+++
T Consensus 117 ~FL~tIK~IAsaIK~lLdAvn~v~~~~~~~~~k 149 (154)
T PF06840_consen 117 TFLETIKEIASAIKKLLDAVNEVFKNIPGPTQK 149 (154)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTST-TSSC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccchhhh
Confidence 588999999999999999999999999965544
No 6
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=53.96 E-value=44 Score=24.68 Aligned_cols=75 Identities=16% Similarity=0.191 Sum_probs=44.4
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHH-HHHHHHHhcc-----------------
Q psy11310 7 EHYLELVKRVGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVA-CMKLAHTYSH----------------- 68 (98)
Q Consensus 7 e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVs-aMKLAq~ys~----------------- 68 (98)
-+++.-++....+|++++..=|+-+..++..-.++|. -.+|++ |+|++.-++.
T Consensus 46 ~~~~~~L~~~~~~L~~~~~~~~~~~~~~~~~~~~~v~---------~~eLL~YA~rISk~t~~p~~~~~~~~~P~~~~~~ 116 (188)
T PF10018_consen 46 RDILKQLKEARKELRTLPDQADEKLKSIPKAEKRPVD---------YEELLSYAHRISKFTSAPPTFPSGSIAPNNWQPG 116 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccccccccccCCCC---------HHHHHHHHHHHHHhcCCCCCCCCCCcCCcccccc
Confidence 3444555555555655553333334555555555554 446665 6777776665
Q ss_pred ---------chhhHHHHHhhhhhhccchhhh
Q psy11310 69 ---------TSLDNVYRKRGRRFSSASQSAL 90 (98)
Q Consensus 69 ---------TtLd~eYrK~ML~~~~~~~~~~ 90 (98)
---+.+-|.+||..++......
T Consensus 117 ~~~~~~~~PwP~Ed~mR~G~L~~~~~~~~~~ 147 (188)
T PF10018_consen 117 PPSGDFFRPWPQEDQMRRGMLAQLQLLAEEG 147 (188)
T ss_pred cccccccCCCCCHHHHHHhHHHhhhhhhhcC
Confidence 3446778899998887665533
No 7
>PF10239 DUF2465: Protein of unknown function (DUF2465); InterPro: IPR018797 FAM98A, B and C are glycine-rich proteins found from worms to humans whose function is unknown.
Probab=45.96 E-value=17 Score=29.72 Aligned_cols=54 Identities=17% Similarity=0.309 Sum_probs=33.6
Q ss_pred HHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhHHH--HHhhh
Q psy11310 19 ELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDNVY--RKRGR 80 (98)
Q Consensus 19 ~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~eY--rK~ML 80 (98)
-+..+-..|+++++.+|+....+==+ .+-|+.+--+-++++ +..|.+|| |++||
T Consensus 156 lf~~i~~ki~~~L~~lp~~~~~~PLl-~~~L~~~Qw~~Le~i-------~~~L~~EY~~RR~mL 211 (318)
T PF10239_consen 156 LFSKIEAKIEELLSKLPPGHMGKPLL-KKSLTDEQWEKLEKI-------NQALSKEYECRRQML 211 (318)
T ss_pred HHHHHHHHHHHHHHhcCccccCCCCc-CCCCCHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence 45667778888888888876654333 445555555555555 24455555 66774
No 8
>PF14966 DNA_repr_REX1B: DNA repair REX1-B
Probab=43.07 E-value=97 Score=21.21 Aligned_cols=46 Identities=24% Similarity=0.330 Sum_probs=30.7
Q ss_pred cchhHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhh-----hhHHHHHHHHHHHH
Q psy11310 4 NLTEHYLELVKRVGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLS-----KDMGELVACMKLAH 64 (98)
Q Consensus 4 a~~e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLs-----kDMaELVsaMKLAq 64 (98)
.+.+.|-.+|+.|-.+.+++= +||-...+.|+ .|++++|..+..-+
T Consensus 33 ~~~~~y~~~~~~iT~~f~~~S---------------~ei~~ie~~L~~~~~~~~la~~i~~lQ~~E 83 (97)
T PF14966_consen 33 GPEEAYRQLCHEITQEFSAIS---------------KEILAIEAELRDEHERPDLAELIRELQEQE 83 (97)
T ss_pred CChHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHhccccCCHHHHHHHHHHHHHH
Confidence 345777777777777776554 44555555665 88999998876543
No 9
>KOG1497|consensus
Probab=39.91 E-value=18 Score=31.30 Aligned_cols=23 Identities=30% Similarity=0.397 Sum_probs=22.0
Q ss_pred HHHHhhhhhhhccCCCchhHHHH
Q psy11310 21 RNLLTSVDNLVVMFPPSAHKEIE 43 (98)
Q Consensus 21 R~LL~SVD~l~p~~P~s~hrEVE 43 (98)
|.|++.+|+-++++|+++++||-
T Consensus 62 rqllsl~~~~l~~l~~e~~Kei~ 84 (399)
T KOG1497|consen 62 RQLLSLFDVELSILEDELRKEIS 84 (399)
T ss_pred HHHHHHHHHHhccCCHHHHHHHH
Confidence 89999999999999999999986
No 10
>COG4842 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.55 E-value=1.1e+02 Score=20.39 Aligned_cols=45 Identities=18% Similarity=0.299 Sum_probs=36.7
Q ss_pred HHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHH-HHHH
Q psy11310 20 LRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACM-KLAH 64 (98)
Q Consensus 20 LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaM-KLAq 64 (98)
|-+|-..+|.+.+..-..+...-+-.++-+++.|.+|++++ .+++
T Consensus 30 l~~l~s~~~~l~~~W~G~a~~~f~~~~~~w~~~~~~l~~~l~~i~~ 75 (97)
T COG4842 30 LQDLASEIAKLQSAWEGDAAEAFQSEQQQWNQAATELNEALEQLAD 75 (97)
T ss_pred HHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455567777788888899999999999999999999999 5554
No 11
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=35.30 E-value=1.1e+02 Score=19.05 Aligned_cols=27 Identities=26% Similarity=0.308 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHhccchhhHHHHHh
Q psy11310 52 DMGELVACMKLAHTYSHTSLDNVYRKR 78 (98)
Q Consensus 52 DMaELVsaMKLAq~ys~TtLd~eYrK~ 78 (98)
+.-++|+.|.+--+...++..+.|...
T Consensus 36 ea~~~l~qMe~E~~~~p~s~r~~~~~k 62 (79)
T PF05008_consen 36 EAEELLKQMELEVRSLPPSERNQYKSK 62 (79)
T ss_dssp HHHHHHHHHHHHHCTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence 455777888777776666655555443
No 12
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=34.65 E-value=81 Score=17.82 Aligned_cols=36 Identities=14% Similarity=0.245 Sum_probs=28.7
Q ss_pred hhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHH
Q psy11310 25 TSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACM 60 (98)
Q Consensus 25 ~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaM 60 (98)
..|+++...||.-....|+..-+--+.|+..-|+.+
T Consensus 4 ~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~L 39 (43)
T smart00546 4 EALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNL 39 (43)
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 357888889999999999887777778888777654
No 13
>PRK13842 conjugal transfer protein TrbJ; Provisional
Probab=32.65 E-value=2.3e+02 Score=23.08 Aligned_cols=64 Identities=20% Similarity=0.404 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHHHHH---HHHhhh----hhh-------------hccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHH--
Q psy11310 7 EHYLELVKRVGTELR---NLLTSV----DNL-------------VVMFPPSAHKEIEIAHKVLSKDMGELVACMKLAH-- 64 (98)
Q Consensus 7 e~Yv~lVK~VGl~LR---~LL~SV----D~l-------------~p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq-- 64 (98)
=++..+|.-+|.+|. +.++++ +++ +..+|.+...+++ .++..|.+.|.-|+
T Consensus 44 ln~aeli~~a~r~leQInnQi~ql~q~~~QlQnQ~q~y~Nm~rNl~sLp~s~w~ql~-------~~l~~l~~l~~qaq~i 116 (267)
T PRK13842 44 LNNAELISLVGQSAEQINNQITQISQLAEQIQNQLNIYQNMLQNTAQLPNHIWGQVE-------NDLNRLRSIVNQGQGI 116 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHH-------HHHHHHHHHHHHHHHH
Confidence 356777777777774 345554 222 5567877766654 67888888888887
Q ss_pred HhccchhhHHHHH
Q psy11310 65 TYSHTSLDNVYRK 77 (98)
Q Consensus 65 ~ys~TtLd~eYrK 77 (98)
.|....+|..+..
T Consensus 117 ay~v~~id~~f~q 129 (267)
T PRK13842 117 AFSMGNADDVLKQ 129 (267)
T ss_pred HHHHHHHHHHHHH
Confidence 5677778776653
No 14
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=32.48 E-value=44 Score=24.23 Aligned_cols=43 Identities=23% Similarity=0.295 Sum_probs=31.3
Q ss_pred HHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHH
Q psy11310 17 GTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVAC 59 (98)
Q Consensus 17 Gl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsa 59 (98)
|.+||.++.+==+-++-+-...-.++.|-.+.+|++.+++++-
T Consensus 30 GkelR~~~K~~~~~~~~~ae~~~~~~~~~a~~~s~~~a~~~~~ 72 (115)
T COG4980 30 GKELRKKLKKSGDALFELAEDKGTDILMIADKLSKESAETLKD 72 (115)
T ss_pred cHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 7888877765444444555566778888888999998888764
No 15
>PF04651 Pox_A12: Poxvirus A12 protein; InterPro: IPR006744 This family contains vaccinia virus protein A12 and its homologues. VVA12 is a virion protein though its function is unknown.
Probab=31.95 E-value=43 Score=26.49 Aligned_cols=35 Identities=17% Similarity=0.304 Sum_probs=28.3
Q ss_pred cchhHHHHHHHHHHHHHHHHHhhhhhhhccCCCch
Q psy11310 4 NLTEHYLELVKRVGTELRNLLTSVDNLVVMFPPSA 38 (98)
Q Consensus 4 a~~e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~ 38 (98)
..-|+|++-+.++--.||+||+-+.-+-+.-|+..
T Consensus 9 SSYDDYIeTinKitPQLrtlLahI~geq~~~~~n~ 43 (189)
T PF04651_consen 9 SSYDDYIETINKITPQLRTLLAHISGEQANRGGNL 43 (189)
T ss_pred ccHHHHHHHHHHhCHHHHHHHHHhcccccccCCcc
Confidence 34589999999999999999998877666655443
No 16
>COG4170 SapD ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=30.82 E-value=35 Score=28.66 Aligned_cols=66 Identities=24% Similarity=0.356 Sum_probs=49.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhccCCCch-------------hHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhH
Q psy11310 7 EHYLELVKRVGTELRNLLTSVDNLVVMFPPSA-------------HKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDN 73 (98)
Q Consensus 7 e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~-------------hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~ 73 (98)
..-+|--+.||..| +..+|..| +|-||.-|||=-||-.+.. +-|..---+-
T Consensus 99 ~sCLDPS~~iG~Ql----------Iq~IP~wTfkgrWWq~F~WrKrrAIeLLHrVGIKdHkDIM------~SYP~ElTeG 162 (330)
T COG4170 99 QSCLDPSERVGRQL----------IQNIPAWTYKGRWWQRFGWRKRRAIELLHRVGIKDHKDIM------RSYPYELTEG 162 (330)
T ss_pred hhhcChHHHHHHHH----------HhhCccccccchHhhhhchhHHHHHHHHHHhccccHHHHH------HhCcchhccC
Confidence 34455666777543 45566655 6889999999999988765 4588877788
Q ss_pred HHHHhhhhhhccchh
Q psy11310 74 VYRKRGRRFSSASQS 88 (98)
Q Consensus 74 eYrK~ML~~~~~~~~ 88 (98)
||+|-|.+.+-|.|.
T Consensus 163 E~QKVMIA~A~AnqP 177 (330)
T COG4170 163 ECQKVMIAIALANQP 177 (330)
T ss_pred cceeeeeehhhccCC
Confidence 999999999888764
No 17
>PF11961 DUF3475: Domain of unknown function (DUF3475); InterPro: IPR021864 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 60 amino acids in length. This domain is found associated with PF05003 from PFAM.
Probab=30.50 E-value=41 Score=21.80 Aligned_cols=16 Identities=31% Similarity=0.266 Sum_probs=14.4
Q ss_pred HHHHHhhhhhHHHHHH
Q psy11310 43 EIAHKVLSKDMGELVA 58 (98)
Q Consensus 43 EmahKvLskDMaELVs 58 (98)
|+.+++.|+|+.+|..
T Consensus 36 eGV~~LVS~D~~~LL~ 51 (57)
T PF11961_consen 36 EGVRKLVSDDDSFLLR 51 (57)
T ss_pred HHHHHHcCCCHHHHHH
Confidence 7899999999999964
No 18
>KOG2857|consensus
Probab=29.86 E-value=52 Score=25.41 Aligned_cols=13 Identities=54% Similarity=0.930 Sum_probs=9.8
Q ss_pred HHHHHHhhhhhhh
Q psy11310 19 ELRNLLTSVDNLV 31 (98)
Q Consensus 19 ~LR~LL~SVD~l~ 31 (98)
-||+|+.|.|+.+
T Consensus 98 ~Lr~Li~sid~~~ 110 (157)
T KOG2857|consen 98 HLRNLIESIDELL 110 (157)
T ss_pred HHHHHHHHHHHHh
Confidence 5788888888654
No 19
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=28.62 E-value=1.2e+02 Score=17.17 Aligned_cols=35 Identities=23% Similarity=0.322 Sum_probs=27.1
Q ss_pred hhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHH
Q psy11310 26 SVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACM 60 (98)
Q Consensus 26 SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaM 60 (98)
.|+++...||.-....|+.+=+--+.|...-|+++
T Consensus 4 ~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~L 38 (42)
T PF02845_consen 4 MVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDAL 38 (42)
T ss_dssp HHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 46788889999999999887777778887777654
No 20
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=27.82 E-value=1.5e+02 Score=22.65 Aligned_cols=50 Identities=16% Similarity=0.140 Sum_probs=32.8
Q ss_pred cCCCchhHHHHHHHHhhh------------hhHHHHHHHHHHHHHhccchhhHHHHHhhhhhhc
Q psy11310 33 MFPPSAHKEIEIAHKVLS------------KDMGELVACMKLAHTYSHTSLDNVYRKRGRRFSS 84 (98)
Q Consensus 33 ~~P~s~hrEVEmahKvLs------------kDMaELVsaMKLAq~ys~TtLd~eYrK~ML~~~~ 84 (98)
...+.+...++-..+.|+ -|..++...+..--...++.++ ||+-|+..+.
T Consensus 40 ~~~~~~~~k~~~l~~~l~~~~~~~~~~l~~v~~~~~~~~i~~~~~~~~~ci~--ckr~M~r~A~ 101 (197)
T PF02568_consen 40 FTGEKAREKVEELAEKLSEYSPGHKIRLYVVDFTEVQKEILRGVKERNPCID--CKRFMYRIAE 101 (197)
T ss_dssp TSSCCCHHHHHHHHHHHHCCSTTS-EEEEEECHHHHHHHHHHHS-GGGHHHH--HHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHhCCCcceeEEEECcHHHHHHHHhcCCccchhHH--HHHHHHHHHH
Confidence 344555666666666665 3778888776555455556664 9999998775
No 21
>PF11880 DUF3400: Domain of unknown function (DUF3400); InterPro: IPR021817 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 50 amino acids in length. This domain is found associated with PF02754 from PFAM, PF02913 from PFAM, PF01565 from PFAM.
Probab=27.77 E-value=74 Score=20.04 Aligned_cols=19 Identities=21% Similarity=0.415 Sum_probs=14.6
Q ss_pred HHHHHHhhhhh-HHHHHHHH
Q psy11310 42 IEIAHKVLSKD-MGELVACM 60 (98)
Q Consensus 42 VEmahKvLskD-MaELVsaM 60 (98)
||||..+|-.| |.+.|.+.
T Consensus 16 VEmA~~lLGe~W~~~~v~~a 35 (45)
T PF11880_consen 16 VEMARHLLGENWQQDYVERA 35 (45)
T ss_pred HHHHHHHhhhhHHHHHHHHH
Confidence 89999999877 56666654
No 22
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=27.73 E-value=1.8e+02 Score=19.08 Aligned_cols=58 Identities=12% Similarity=0.178 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhccCC--------CchhHHHHHHHHhhhhhHHHHHHHHHHHHHh
Q psy11310 9 YLELVKRVGTELRNLLTSVDNLVVMFP--------PSAHKEIEIAHKVLSKDMGELVACMKLAHTY 66 (98)
Q Consensus 9 Yv~lVK~VGl~LR~LL~SVD~l~p~~P--------~s~hrEVEmahKvLskDMaELVsaMKLAq~y 66 (98)
|...-..|.-.|+.+=+-..+-....+ .++.+|++-+=+-+..|+.+|=.++..++++
T Consensus 3 F~~v~~ev~~sl~~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~n 68 (97)
T PF09177_consen 3 FFVVKDEVQSSLDRLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIEWDLEDLEEAVRIVEKN 68 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 555556666665554444443333333 3468999999999999999999999998865
No 23
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=26.38 E-value=1e+02 Score=26.33 Aligned_cols=30 Identities=30% Similarity=0.467 Sum_probs=22.4
Q ss_pred HHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHH
Q psy11310 18 TELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVAC 59 (98)
Q Consensus 18 l~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsa 59 (98)
.+||+++..||++ .-++.-|+-||||-.+.
T Consensus 307 ~el~~~l~~V~~~------------~~vr~~ltaemAd~~~~ 336 (431)
T PF14782_consen 307 EELREILEKVDEL------------NEVRQRLTAEMADHSNL 336 (431)
T ss_pred HHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHH
Confidence 4788888888864 44567889999886554
No 24
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=25.96 E-value=1.7e+02 Score=17.99 Aligned_cols=61 Identities=8% Similarity=0.193 Sum_probs=40.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhc------cCCC---chhHHHHHHHHhhhhhHHHHHHHHHHHHHh
Q psy11310 6 TEHYLELVKRVGTELRNLLTSVDNLVV------MFPP---SAHKEIEIAHKVLSKDMGELVACMKLAHTY 66 (98)
Q Consensus 6 ~e~Yv~lVK~VGl~LR~LL~SVD~l~p------~~P~---s~hrEVEmahKvLskDMaELVsaMKLAq~y 66 (98)
+++|++-|..+...+..+=..|++|-. ..|. ...+|++-...-.++...++=+.+|-.++-
T Consensus 2 ~~~f~~~v~~i~~~i~~i~~~~~~l~~l~~~~l~~~~~d~~~~~el~~l~~~i~~~~~~~~~~lk~l~~~ 71 (103)
T PF00804_consen 2 MPEFFDEVQEIREDIDKIKEKLNELRKLHKKILSSPDQDSELKRELDELTDEIKQLFQKIKKRLKQLSKD 71 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999988888777776531 1122 467777766666666666665555554433
No 25
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=25.61 E-value=1.2e+02 Score=18.72 Aligned_cols=26 Identities=15% Similarity=0.400 Sum_probs=20.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhh
Q psy11310 6 TEHYLELVKRVGTELRNLLTSVDNLV 31 (98)
Q Consensus 6 ~e~Yv~lVK~VGl~LR~LL~SVD~l~ 31 (98)
|+.-.++.|.+|..+|.+=..+++.-
T Consensus 19 p~kLP~~~r~lG~~ir~fk~~~~~~~ 44 (53)
T PF02416_consen 19 PKKLPELARSLGKAIREFKKAINEAK 44 (53)
T ss_dssp TTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 67778899999999998877766543
No 26
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=25.51 E-value=1.9e+02 Score=18.51 Aligned_cols=58 Identities=17% Similarity=0.257 Sum_probs=31.2
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhccCCCc---hhHHHHHHHHhhhhhHHHHHHHHHHHH
Q psy11310 7 EHYLELVKRVGTELRNLLTSVDNLVVMFPPS---AHKEIEIAHKVLSKDMGELVACMKLAH 64 (98)
Q Consensus 7 e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s---~hrEVEmahKvLskDMaELVsaMKLAq 64 (98)
+...+-++..+.+++.+|..+++.....+.+ .-|--.-.|..|.+|..+++....-+|
T Consensus 49 ~~~~~~~~~~~~~i~~~lk~l~~~~~~~~~~~~~~~r~~~~q~~~L~~~f~~~m~~fq~~Q 109 (117)
T smart00503 49 ERLIDDIKRLAKEIRAKLKELEKENLENRASGSASDRTRKAQTEKLRKKFKEVMNEFQRLQ 109 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHhhcccCCHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555666666666666554433321 112223345566777777766666665
No 27
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=25.49 E-value=2.2e+02 Score=19.21 Aligned_cols=71 Identities=20% Similarity=0.263 Sum_probs=44.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhhhccCCC----chhHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhHHHHHhhhh
Q psy11310 7 EHYLELVKRVGTELRNLLTSVDNLVVMFPP----SAHKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDNVYRKRGRR 81 (98)
Q Consensus 7 e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~----s~hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~eYrK~ML~ 81 (98)
++..+-++..+..++..|..+++....++. ..-|--.--+..|+++..++++...-+|+-.. +.||.++-+
T Consensus 47 ~~~~~~~~~~~~~ik~~lk~l~~~~~~~~~~~~s~~~r~~~~q~~~L~~~f~~~m~~fq~~Q~~~~----~~~k~~i~R 121 (151)
T cd00179 47 ESLVQEIKKLAKEIKGKLKELEESNEQNEALNGSSVDRIRKTQHSGLSKKFVEVMTEFNKAQRKYR----ERYKERIQR 121 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence 455666677777777777777765443331 12222234467889999999999988885433 455554443
No 28
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=25.25 E-value=2.2e+02 Score=20.74 Aligned_cols=54 Identities=22% Similarity=0.347 Sum_probs=29.7
Q ss_pred HHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhh----HHHH----HHHHHHHHHhccchhhHHHHH
Q psy11310 19 ELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKD----MGEL----VACMKLAHTYSHTSLDNVYRK 77 (98)
Q Consensus 19 ~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskD----MaEL----VsaMKLAq~ys~TtLd~eYrK 77 (98)
.|..|.++++.|.|.+ .||+.-.+.|+.- +.+| -++=+|.++|+..+--|=|||
T Consensus 35 ~l~~L~sTl~~i~P~i-----~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV~k~sk~~r~n~~kk 96 (147)
T PF05659_consen 35 ILKRLESTLESIIPII-----KEIDKLNVELDRPRQEEIERLKELLEKGKELVEKCSKVRRWNLYKK 96 (147)
T ss_pred HHHHHHHHHHHhhhHH-----HHHHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHhccccHHHHHhh
Confidence 4566677777777653 4455444444322 2233 344556777887776554443
No 29
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=24.18 E-value=57 Score=26.01 Aligned_cols=19 Identities=11% Similarity=0.361 Sum_probs=14.5
Q ss_pred HHHHHhhhhhHHHHHHHHH
Q psy11310 43 EIAHKVLSKDMGELVACMK 61 (98)
Q Consensus 43 EmahKvLskDMaELVsaMK 61 (98)
+|-++.-..|.+|+||||-
T Consensus 19 k~c~~~~ep~~aEfISAlA 37 (218)
T PF07279_consen 19 KMCKKFKEPGVAEFISALA 37 (218)
T ss_pred HHhhhcCCCCHHHHHHHHh
Confidence 3455556789999999995
No 30
>cd01671 CARD Caspase activation and recruitment domain: a protein-protein interaction domain. Caspase activation and recruitment domains (CARDs) are death domains (DDs) found associated with caspases. Caspases are aspartate-specific cysteine proteases with functions in apoptosis, immune signaling, inflammation, and host-defense mechanisms. In addition to caspases, proteins containing CARDs include adaptor proteins such as RAIDD, CARD9, and RIG-I-like helicases, which can form mutliprotein complexes and play important roles in mediating the signals to induce immune and inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=23.83 E-value=60 Score=19.82 Aligned_cols=26 Identities=15% Similarity=0.231 Sum_probs=17.9
Q ss_pred hhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHH
Q psy11310 25 TSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVAC 59 (98)
Q Consensus 25 ~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsa 59 (98)
+.+|.+++.+- +.++|+.++.|-|..
T Consensus 13 ~~~~~il~~L~---------~~~vlt~~e~~~i~~ 38 (80)
T cd01671 13 LDVEDVLDHLL---------SDGVLTEEEYEKIRS 38 (80)
T ss_pred ccHHHHHHHHH---------HcCCCCHHHHHHHHc
Confidence 66777777763 346888777777765
No 31
>PRK10404 hypothetical protein; Provisional
Probab=23.52 E-value=2.3e+02 Score=19.57 Aligned_cols=48 Identities=10% Similarity=0.111 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHHHHH
Q psy11310 16 VGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACMKLA 63 (98)
Q Consensus 16 VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaMKLA 63 (98)
+=-.|+.|+..+++++..-...+..|++....-+..-+.+.-.++.-+
T Consensus 10 l~~dl~~L~~dle~Ll~~~~~~a~e~~~~lR~r~~~~L~~ar~~l~~~ 57 (101)
T PRK10404 10 IDDDLTLLSETLEEVLRSSGDPADQKYVELKARAEKALDDVKKRVSQA 57 (101)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445789999999999999999999999988887777666666555433
No 32
>PHA03247 large tegument protein UL36; Provisional
Probab=23.18 E-value=70 Score=34.23 Aligned_cols=32 Identities=28% Similarity=0.301 Sum_probs=29.5
Q ss_pred HHHHHHhhhhhhhccCCCchhHHHHHHHHhhh
Q psy11310 19 ELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLS 50 (98)
Q Consensus 19 ~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLs 50 (98)
.||.|+.+.|++...||.++.+|...+.++|-
T Consensus 1829 ~Lr~lla~FD~~a~~LPkW~~~~~~~~r~Ll~ 1860 (3151)
T PHA03247 1829 ALGRLLAEFDALAGDLAPWAVDEFRGARALVQ 1860 (3151)
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHHHHHHHHH
Confidence 58999999999999999999999999988763
No 33
>PF07586 HXXSHH: Protein of unknown function (DUF1552); InterPro: IPR011447 This is a family of proteins identified in Rhodopirellula baltica.
Probab=22.73 E-value=54 Score=25.51 Aligned_cols=27 Identities=15% Similarity=0.330 Sum_probs=18.6
Q ss_pred ccchhHHHHHHHHHHHHHHHHHhhhhh
Q psy11310 3 QNLTEHYLELVKRVGTELRNLLTSVDN 29 (98)
Q Consensus 3 ~a~~e~Yv~lVK~VGl~LR~LL~SVD~ 29 (98)
+.|-|+|++.|+.|-..|-..-...|.
T Consensus 183 r~kLd~yl~sireiE~rl~~~~~~~~~ 209 (302)
T PF07586_consen 183 RQKLDQYLDSIREIEKRLQQAEAWADC 209 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhcccc
Confidence 456788888888888777555544444
No 34
>PRK01770 sec-independent translocase; Provisional
Probab=22.69 E-value=3.6e+02 Score=20.69 Aligned_cols=27 Identities=19% Similarity=0.086 Sum_probs=21.1
Q ss_pred chhHHHHHHHHHHHHHHHHHhhhhhhh
Q psy11310 5 LTEHYLELVKRVGTELRNLLTSVDNLV 31 (98)
Q Consensus 5 ~~e~Yv~lVK~VGl~LR~LL~SVD~l~ 31 (98)
-|+.-..++|.||..+|.+=..+++.-
T Consensus 21 GPerLP~~~r~lg~~i~~~R~~~~~~k 47 (171)
T PRK01770 21 GPQRLPVAVKTVAGWIRALRSLATTVQ 47 (171)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888999999998888776665544
No 35
>PF14479 HeLo: Prion-inhibition and propagation; PDB: 2WVQ_A 2WVN_A 2WVO_A.
Probab=22.10 E-value=2.3e+02 Score=20.26 Aligned_cols=43 Identities=19% Similarity=0.291 Sum_probs=25.7
Q ss_pred HHHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHH
Q psy11310 22 NLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACMKLAH 64 (98)
Q Consensus 22 ~LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq 64 (98)
+|=.-+|.+...||+...++.+++.+-...-|...++.+++-+
T Consensus 168 ~l~~~~d~L~~l~p~~~~~~~~~~~~e~~~~~~~~~~~L~~L~ 210 (212)
T PF14479_consen 168 DLRDLNDSLENLFPDTQQRQSQLIRKEIEEIMIQDEDSLRLLR 210 (212)
T ss_dssp HHHHHHHHHHHTTT-HHHHH-HHHHHHCTT----SHHHHHHHH
T ss_pred HHHHHHHHHHHHcCchhhHHHHHHHHHHHHHHhccHHHHHHHH
Confidence 3334466666677999888888877777766666677777654
No 36
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=21.95 E-value=50 Score=21.58 Aligned_cols=16 Identities=38% Similarity=0.688 Sum_probs=11.4
Q ss_pred HHHHHHHhhhhhHHHH
Q psy11310 41 EIEIAHKVLSKDMGEL 56 (98)
Q Consensus 41 EVEmahKvLskDMaEL 56 (98)
-|+.+|-.+|.|+.||
T Consensus 33 Gi~vTQaTiSRDLkeL 48 (70)
T PF01316_consen 33 GIEVTQATISRDLKEL 48 (70)
T ss_dssp T-T--HHHHHHHHHHH
T ss_pred CCCcchhHHHHHHHHc
Confidence 4677899999999987
No 37
>PF04783 DUF630: Protein of unknown function (DUF630); InterPro: IPR006868 This region is sometimes found at the N terminus of putative plant bZIP proteins IPR006867 from INTERPRO. The function of this conserved region is not known.
Probab=21.70 E-value=1.1e+02 Score=19.96 Aligned_cols=18 Identities=28% Similarity=0.647 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHh
Q psy11310 8 HYLELVKRVGTELRNLLT 25 (98)
Q Consensus 8 ~Yv~lVK~VGl~LR~LL~ 25 (98)
.|+...|+||-+||....
T Consensus 40 aY~~SLr~~g~aL~~F~~ 57 (60)
T PF04783_consen 40 AYIQSLRNVGAALRQFAE 57 (60)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 699999999999998653
No 38
>cd03561 VHS VHS domain family; 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 has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=21.68 E-value=2.8e+02 Score=19.07 Aligned_cols=45 Identities=18% Similarity=0.200 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhh---hhhhhccCCC--chhHHHHHHHHhhhhhHHHHHHHHHHH
Q psy11310 12 LVKRVGTELRNLLTS---VDNLVVMFPP--SAHKEIEIAHKVLSKDMGELVACMKLA 63 (98)
Q Consensus 12 lVK~VGl~LR~LL~S---VD~l~p~~P~--s~hrEVEmahKvLskDMaELVsaMKLA 63 (98)
+|||-|...+..+.| +|+++..+.+ .++.+|. . -+.|+|.....+
T Consensus 64 ~vkNcg~~f~~~i~s~~fl~~l~~l~~~~~~~~~~Vk--~-----kil~ll~~W~~~ 113 (133)
T cd03561 64 LVKNCGKPFHLQVADKEFLLELVKIAKNSPKYDPKVR--E-----KALELILAWSES 113 (133)
T ss_pred HHHhCChHHHHHHhhHHHHHHHHHHhCCCCCCCHHHH--H-----HHHHHHHHHHHH
Confidence 567777777777766 5566666654 3444443 2 233566555443
No 39
>PF03195 DUF260: Protein of unknown function DUF260; InterPro: IPR004883 The lateral organ boundaries (LOB) gene is expressed at the adaxial base of initiating lateral organs and encodes a plant-specific protein of unknown function. The N-terminal one half of the LOB protein contains a conserved approximately 100-amino acid domain (the LOB domain) that is present in 42 other Arabidopsis thaliana proteins and in proteins from a variety of other plant species. Genes encoding LOB domain (LBD) proteins are expressed in a variety of temporal- and tissue-specific patterns, suggesting that they may function in diverse processes [] The LOB domain contains conserved blocks of amino acids that identify the LBD gene family. In particular, a conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is defining feature of the LOB domain, is present in all LBD proteins. It is possible that this motif forms a new zinc finger [].
Probab=21.61 E-value=69 Score=22.24 Aligned_cols=30 Identities=20% Similarity=0.437 Sum_probs=23.2
Q ss_pred hhccCCCchhHHHHHHHHhhh-hhHHHHHHH
Q psy11310 30 LVVMFPPSAHKEIEIAHKVLS-KDMGELVAC 59 (98)
Q Consensus 30 l~p~~P~s~hrEVEmahKvLs-kDMaELVsa 59 (98)
+-|.||++-...-+-+|||+. +-+..+++.
T Consensus 18 laPyFP~~~~~~F~~vhkvFG~sni~k~L~~ 48 (101)
T PF03195_consen 18 LAPYFPADQPQRFANVHKVFGVSNISKMLQE 48 (101)
T ss_pred CCCCCChhHHHHHHHHHHHHchhHHHHHHHh
Confidence 568999999999999999997 445444443
No 40
>KOG1572|consensus
Probab=21.41 E-value=72 Score=26.14 Aligned_cols=26 Identities=27% Similarity=0.496 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHHh
Q psy11310 53 MGELVACMKLAHTYSHTSLDNVYRKR 78 (98)
Q Consensus 53 MaELVsaMKLAq~ys~TtLd~eYrK~ 78 (98)
..=||..||..|.++.++.-+||+|-
T Consensus 162 tg~lVgclRklq~W~lssil~Ey~~f 187 (249)
T KOG1572|consen 162 TGCLVGCLRKLQNWSLSSILDEYLRF 187 (249)
T ss_pred hhhhHHHHHHHhccchhHHHHHHHHh
Confidence 45799999999999999999999874
No 41
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=20.81 E-value=1.9e+02 Score=19.95 Aligned_cols=44 Identities=18% Similarity=0.115 Sum_probs=29.2
Q ss_pred ccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHHHhccchhhHHHHHhhhhhh
Q psy11310 32 VMFPPSAHKEIEIAHKVLSKDMGELVACMKLAHTYSHTSLDNVYRKRGRRFS 83 (98)
Q Consensus 32 p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq~ys~TtLd~eYrK~ML~~~ 83 (98)
+.+|+..+++.|-=+..+++.+...=+.++ .|..|=||.|+.+.
T Consensus 31 ~eLs~e~R~~lE~E~~~l~~~l~~~E~eL~--------~LrkENrK~~~ls~ 74 (85)
T PF15188_consen 31 RELSPEARRSLEKELNELKEKLENNEKELK--------LLRKENRKSMLLSV 74 (85)
T ss_pred cCCChHHHHHHHHHHHHHHHHhhccHHHHH--------HHHHhhhhhHHHHH
Confidence 678899999999544455554444444444 45668889887653
No 42
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=20.69 E-value=16 Score=25.98 Aligned_cols=53 Identities=17% Similarity=0.329 Sum_probs=33.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhhhhhH-HHHHHHHHH
Q psy11310 6 TEHYLELVKRVGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVLSKDM-GELVACMKL 62 (98)
Q Consensus 6 ~e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvLskDM-aELVsaMKL 62 (98)
|++|++..|..|..-=.+-..---.+..+|...+++ |+-|..|+ .|+|.+-+-
T Consensus 2 ~~~~~~~lk~~~v~si~i~a~~h~g~ayYPt~~~~~----hp~L~~Dllge~v~a~h~ 55 (132)
T PF14871_consen 2 PEQFVDTLKEAHVNSITIFAKCHGGYAYYPTKVGPR----HPGLKRDLLGEQVEACHE 55 (132)
T ss_pred HHHHHHHHHHhCCCEEEEEcccccEEEEccCCCCcC----CCCCCcCHHHHHHHHHHH
Confidence 566777766655432222222223456788888665 88888897 888887653
No 43
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=20.69 E-value=1.1e+02 Score=18.79 Aligned_cols=28 Identities=14% Similarity=0.087 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHHhhh
Q psy11310 53 MGELVACMKLAHTYSHTSLDNVYRKRGR 80 (98)
Q Consensus 53 MaELVsaMKLAq~ys~TtLd~eYrK~ML 80 (98)
..+++.-+++|..|....|.+.|.+.|.
T Consensus 81 ~~~~~~ll~lA~~~~~~~L~~~~~~~l~ 108 (111)
T PF00651_consen 81 DENVEELLELADKLQIPELKKACEKFLQ 108 (111)
T ss_dssp TTTHHHHHHHHHHTTBHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence 6788999999999999999999887664
No 44
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=20.62 E-value=3.7e+02 Score=23.16 Aligned_cols=61 Identities=23% Similarity=0.328 Sum_probs=45.2
Q ss_pred ccchhHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHhh---hhhHHHHHHHHHHHH
Q psy11310 3 QNLTEHYLELVKRVGTELRNLLTSVDNLVVMFPPSAHKEIEIAHKVL---SKDMGELVACMKLAH 64 (98)
Q Consensus 3 ~a~~e~Yv~lVK~VGl~LR~LL~SVD~l~p~~P~s~hrEVEmahKvL---skDMaELVsaMKLAq 64 (98)
+.-|+.|++....+.-+++.|-..+++ .|.=.....+|.+.+..-+ .+--.+|+.+..+++
T Consensus 440 pgip~~y~~~~~~~~~~i~~l~~~L~~-g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE 503 (569)
T PRK04778 440 PGLPEDYLEMFFEVSDEIEALAEELEE-KPINMEAVNRLLEEATEDVETLEEETEELVENATLTE 503 (569)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346899999999999999999999999 7766666666777766544 344455555555544
No 45
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=20.38 E-value=2.5e+02 Score=17.91 Aligned_cols=31 Identities=19% Similarity=0.288 Sum_probs=20.7
Q ss_pred CCchhHHHHHHHHhhhhhHHHHHHHHHHHHH
Q psy11310 35 PPSAHKEIEIAHKVLSKDMGELVACMKLAHT 65 (98)
Q Consensus 35 P~s~hrEVEmahKvLskDMaELVsaMKLAq~ 65 (98)
+....+.....+.=|++|..++++...-+|+
T Consensus 62 ~~~~~~~~k~~~~KL~~df~~~l~~fq~~q~ 92 (102)
T PF14523_consen 62 DRSNDRQQKLQREKLSRDFKEALQEFQKAQR 92 (102)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445666777777788888888877776664
No 46
>PF06393 BID: BH3 interacting domain (BID); InterPro: IPR010479 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. BID is a member of the Bcl-2 superfamily of proteins that are key regulators of programmed cell death, hence this family is related to the Apoptosis regulator Bcl-2 protein BH domain. BID is a pro-apoptotic member of the Bcl-2 superfamily and as such posses the ability to target intracellular membranes and contains the BH3 death domain. The activity of BID is regulated by a Caspase 8-mediated cleavage event, exposing the BH3 domain and significantly changing the surface charge and hydrophobicity, which causes a change of cellular localisation [].; GO: 0043065 positive regulation of apoptosis, 0005737 cytoplasm; PDB: 2BID_A 1ZY3_B 2KBW_B 1DDB_A 2VOI_B.
Probab=20.18 E-value=1.7e+02 Score=23.29 Aligned_cols=35 Identities=29% Similarity=0.351 Sum_probs=26.3
Q ss_pred HHhhhhhhhccCCCchhHHHHHHHHhhhhhHHHHHHHHHHHHHhcc
Q psy11310 23 LLTSVDNLVVMFPPSAHKEIEIAHKVLSKDMGELVACMKLAHTYSH 68 (98)
Q Consensus 23 LL~SVD~l~p~~P~s~hrEVEmahKvLskDMaELVsaMKLAq~ys~ 68 (98)
|-+.|++++..+|+...+|-- .|+=+|=||++-++
T Consensus 129 LAaavq~lmqt~P~Dme~Eka-----------~L~ltMLLaKKVa~ 163 (196)
T PF06393_consen 129 LAAAVQQLMQTVPKDMEQEKA-----------MLVLTMLLAKKVAD 163 (196)
T ss_dssp HHHHHHHHHCCS-STCHCHHH-----------HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCccHHHHHH-----------HHHHHHHHHHHHHH
Confidence 677899999999998877654 67888888876443
Done!