Query 008594
Match_columns 560
No_of_seqs 44 out of 46
Neff 2.5
Searched_HMMs 46136
Date Thu Mar 28 14:07:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008594.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008594hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3583 Uncharacterized conser 100.0 2.1E-32 4.6E-37 264.9 11.7 174 37-234 8-202 (279)
2 PF10232 Med8: Mediator of RNA 100.0 1.7E-31 3.7E-36 254.9 2.3 170 39-228 11-192 (226)
3 PF12128 DUF3584: Protein of u 78.2 8.9 0.00019 45.6 8.9 132 39-183 511-653 (1201)
4 PF15011 CK2S: Casein Kinase 2 75.3 13 0.00028 35.4 7.5 30 153-182 73-102 (168)
5 KOG2235 Uncharacterized conser 74.5 10 0.00023 43.5 7.8 184 41-243 536-720 (776)
6 KOG2129 Uncharacterized conser 59.9 3E+02 0.0065 31.1 15.1 25 32-56 172-196 (552)
7 PF06248 Zw10: Centromere/kine 56.5 1.4E+02 0.0031 32.8 11.9 127 25-183 6-140 (593)
8 TIGR03017 EpsF chain length de 55.7 1E+02 0.0022 31.9 10.2 136 40-181 172-313 (444)
9 PF05983 Med7: MED7 protein; 55.3 1E+02 0.0022 29.3 9.3 89 45-174 71-161 (162)
10 KOG3598 Thyroid hormone recept 50.8 23 0.00049 44.3 5.1 21 98-118 1769-1789(2220)
11 PRK09039 hypothetical protein; 49.4 96 0.0021 32.5 8.9 68 150-225 143-218 (343)
12 PF11336 DUF3138: Protein of u 48.9 33 0.00071 38.3 5.6 75 150-224 24-118 (514)
13 TIGR00634 recN DNA repair prot 48.9 40 0.00087 36.8 6.3 31 151-181 346-376 (563)
14 TIGR01834 PHA_synth_III_E poly 46.0 53 0.0012 34.9 6.4 107 52-179 207-317 (320)
15 PF10146 zf-C4H2: Zinc finger- 44.7 3.5E+02 0.0076 27.4 11.9 27 40-66 2-28 (230)
16 PRK04863 mukB cell division pr 43.7 1.2E+02 0.0026 37.9 9.7 45 137-183 1076-1120(1486)
17 PF08654 DASH_Dad2: DASH compl 40.9 23 0.0005 31.8 2.5 64 30-93 5-73 (103)
18 PF04253 TFR_dimer: Transferri 40.0 44 0.00095 29.3 4.1 60 96-175 64-123 (125)
19 PF08580 KAR9: Yeast cortical 38.7 1.6E+02 0.0035 34.0 9.2 21 148-168 210-230 (683)
20 PF07106 TBPIP: Tat binding pr 37.6 2.4E+02 0.0052 26.2 8.7 127 72-213 17-160 (169)
21 PF05377 FlaC_arch: Flagella a 37.0 56 0.0012 27.0 3.9 46 139-186 4-49 (55)
22 COG0497 RecN ATPase involved i 36.3 1.3E+02 0.0028 34.3 7.8 88 21-110 200-300 (557)
23 PF15445 ATS: acidic terminal 35.5 57 0.0012 35.7 4.8 42 147-188 281-325 (437)
24 cd00176 SPEC Spectrin repeats, 35.3 1.9E+02 0.0041 25.2 7.3 28 154-181 182-209 (213)
25 PF11887 DUF3407: Protein of u 35.3 58 0.0013 32.8 4.6 29 76-104 56-84 (267)
26 PRK04778 septation ring format 34.6 1.1E+02 0.0025 33.7 7.1 63 37-104 273-342 (569)
27 KOG3091 Nuclear pore complex, 34.5 1E+02 0.0022 34.7 6.7 27 40-66 377-403 (508)
28 KOG3598 Thyroid hormone recept 33.2 40 0.00086 42.4 3.5 14 184-197 1842-1855(2220)
29 PF06160 EzrA: Septation ring 33.1 1.1E+02 0.0025 33.8 6.7 68 37-104 269-338 (560)
30 PRK12425 fumarate hydratase; P 32.4 5.2E+02 0.011 28.4 11.4 33 76-108 274-312 (464)
31 cd03204 GST_C_GDAP1 GST_C fami 32.3 1.5E+02 0.0033 26.4 6.2 68 128-199 2-70 (111)
32 cd07595 BAR_RhoGAP_Rich-like T 32.0 1.3E+02 0.0028 30.4 6.4 30 40-69 16-45 (244)
33 PRK15048 methyl-accepting chem 31.3 75 0.0016 33.9 4.9 26 201-226 367-400 (553)
34 PF08549 SWI-SNF_Ssr4: Fungal 31.2 1.1E+02 0.0024 35.5 6.4 82 91-177 322-410 (669)
35 PF15237 PTRF_SDPR: PTRF/SDPR 31.0 4.5E+02 0.0098 27.5 10.0 133 39-204 72-220 (246)
36 PF02074 Peptidase_M32: Carbox 30.5 2.3E+02 0.005 31.6 8.5 61 40-103 9-71 (494)
37 PF05873 Mt_ATP-synt_D: ATP sy 30.2 3.5E+02 0.0076 25.8 8.6 102 37-172 23-124 (161)
38 PRK09367 histidine ammonia-lya 30.1 86 0.0019 34.8 5.2 66 147-218 24-90 (500)
39 PRK14145 heat shock protein Gr 29.8 71 0.0015 31.7 4.1 69 21-102 40-108 (196)
40 PF11640 TAN: Telomere-length 28.8 76 0.0016 29.1 3.9 77 162-246 45-121 (155)
41 PF08656 DASH_Dad3: DASH compl 27.5 1.4E+02 0.0029 26.2 4.9 68 75-183 6-74 (78)
42 PRK05771 V-type ATP synthase s 27.0 1.8E+02 0.0039 32.5 7.1 23 39-61 93-115 (646)
43 TIGR03832 Tyr_2_3_mutase tyros 26.7 97 0.0021 34.5 4.9 57 160-218 28-85 (507)
44 KOG1412 Aspartate aminotransfe 25.9 91 0.002 34.0 4.4 61 39-107 316-377 (410)
45 COG1937 Uncharacterized protei 25.8 1.4E+02 0.0031 26.5 4.8 50 40-95 7-56 (89)
46 KOG1655 Protein involved in va 25.5 1.6E+02 0.0035 30.1 5.7 57 152-210 13-75 (218)
47 TIGR00293 prefoldin, archaeal 25.2 3.7E+02 0.0081 23.6 7.4 30 153-182 88-117 (126)
48 PF10444 Nbl1_Borealin_N: Nbl1 25.1 79 0.0017 25.3 2.9 43 38-81 9-59 (59)
49 PF08580 KAR9: Yeast cortical 25.0 89 0.0019 36.0 4.4 127 40-181 200-336 (683)
50 PRK08776 cystathionine gamma-s 24.5 1.9E+02 0.0042 30.4 6.4 92 83-180 307-402 (405)
51 cd07606 BAR_SFC_plant The Bin/ 24.4 2.2E+02 0.0047 28.2 6.4 29 38-66 7-35 (202)
52 PF08172 CASP_C: CASP C termin 24.1 3.2E+02 0.007 27.8 7.7 28 39-66 6-33 (248)
53 PF15601 Imm42: Immunity prote 24.1 2.3E+02 0.0051 26.8 6.2 55 48-109 15-77 (134)
54 PF10732 DUF2524: Protein of u 23.8 1.3E+02 0.0028 26.9 4.2 38 162-199 6-43 (84)
55 cd00332 PAL-HAL Phenylalanine 23.7 1.3E+02 0.0027 33.1 5.0 57 160-218 25-82 (444)
56 PF12795 MscS_porin: Mechanose 23.2 4.8E+02 0.01 25.6 8.4 65 132-199 15-82 (240)
57 TIGR01225 hutH histidine ammon 22.9 1.2E+02 0.0026 33.9 4.7 56 161-218 31-87 (506)
58 PF10239 DUF2465: Protein of u 22.6 2E+02 0.0043 30.3 6.0 151 50-211 32-201 (318)
59 PF15368 BioT2: Spermatogenesi 21.6 2.3E+02 0.0049 28.2 5.7 64 114-188 46-109 (170)
60 PF05546 She9_MDM33: She9 / Md 21.5 1.5E+02 0.0033 30.0 4.7 41 143-183 24-64 (207)
61 PF09712 PHA_synth_III_E: Poly 21.4 1.1E+02 0.0024 31.6 3.8 98 52-170 190-291 (293)
62 PTZ00365 60S ribosomal protein 21.2 9E+02 0.02 25.6 10.2 103 83-186 132-238 (266)
63 PF04949 Transcrip_act: Transc 21.2 2.2E+02 0.0048 28.0 5.6 36 146-181 79-114 (159)
64 PF02050 FliJ: Flagellar FliJ 20.8 2.1E+02 0.0045 23.2 4.7 29 154-182 55-83 (123)
65 PLN03097 FHY3 Protein FAR-RED 20.5 2.2E+02 0.0047 34.0 6.3 43 73-132 417-459 (846)
66 PF05597 Phasin: Poly(hydroxya 20.5 1.1E+02 0.0025 28.5 3.4 26 146-171 104-129 (132)
67 PF07464 ApoLp-III: Apolipopho 20.5 1.1E+02 0.0024 29.4 3.3 52 126-179 83-150 (155)
68 smart00721 BAR BAR domain. 20.4 2.3E+02 0.005 26.4 5.4 26 41-66 29-54 (239)
69 PRK10869 recombination and rep 20.3 3.3E+02 0.0072 30.3 7.4 34 73-106 262-295 (553)
70 COG1126 GlnQ ABC-type polar am 20.3 1.3E+02 0.0028 31.2 4.0 107 52-166 41-151 (240)
71 PRK14154 heat shock protein Gr 20.2 86 0.0019 31.4 2.7 64 26-102 52-115 (208)
72 PF00221 Lyase_aromatic: Aroma 20.2 1.1E+02 0.0024 33.6 3.8 65 148-218 22-87 (473)
73 COG4453 Uncharacterized protei 20.1 91 0.002 28.2 2.6 17 162-178 40-56 (95)
74 PRK10280 dipeptidyl carboxypep 20.1 1.1E+03 0.023 27.4 11.4 20 71-90 52-71 (681)
75 PRK13824 replication initiatio 20.1 2.8E+02 0.006 30.1 6.6 43 41-86 165-207 (404)
No 1
>KOG3583 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.98 E-value=2.1e-32 Score=264.88 Aligned_cols=174 Identities=21% Similarity=0.256 Sum_probs=158.5
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhH----HHHhhhhcceEeeeccCCCC
Q 008594 37 QQLNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIV----DEIRKVSKAFVVHPKNVNAE 112 (560)
Q Consensus 37 ~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLv----EEIkpvLr~FvVlPlnVnae 112 (560)
....++-|..|++|+|+.|..+|.+||.+| +++ ||.+|++|+.|+.++.+|. +|-+|.||+.||+|..|.-|
T Consensus 8 ~~~~~d~~ikr~~d~k~~i~~llq~ldlq~---~~~-wp~~le~fs~las~ms~l~~~~~k~~~p~lr~~~~~~~~~~~e 83 (279)
T KOG3583|consen 8 IAQATDMMIKRVTDAKKIIEELLQMLDLQE---KCP-WPLMLEKFSTLASFMSSLQSSVRKSGMPHLRSHVLVTQRLQYE 83 (279)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh---cCc-cHHHHHHHHHHHHHHHHHHHHHHHccCCccccchhhhhhhhcC
Confidence 345678999999999999999999999998 677 9999999999999998887 67778999999999999855
Q ss_pred ----------------CCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHH
Q 008594 113 ----------------NATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLAD 176 (560)
Q Consensus 113 ----------------Na~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~ 176 (560)
||++||||||||++||||.++-+ ++.+++++ ..|++.|+|..|||+|+++.+.|++
T Consensus 84 ~detl~r~TeGRVpvfsH~lVPdyLRTkPdPe~E~~e~q----l~~~aa~~----saDaa~kQI~~yNK~is~ll~~lsk 155 (279)
T KOG3583|consen 84 PDETLQRATEGRVPVFSHALVPDYLRTKPDPEMENEEGQ----LDGEAAAK----SADAAVKQIAAYNKNISGLLNHLSK 155 (279)
T ss_pred chHHHHHHhcCcccccccccchHhhccCCChhhHHHHhh----hhhHHhhh----hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999 78899999 9999999999999999999999999
Q ss_pred HHHhh-hhccCCCCCCCCccChhHHHHHHHHHHHHHHHHhcCCCcccCCCcCCCCCCCc
Q 008594 177 TRKAY-CFGTRQGPQILPTLDKGQALKIQEQENLLRAAVNSGEGLRLPGDQRQMTPALP 234 (560)
Q Consensus 177 aRk~~-e~gtRqGp~~~pT~dkadaaki~eqt~lL~AAVn~GeGLr~p~dqr~~~~~lp 234 (560)
.|++| |++.|.+ +.+|.+.+| |++|||||.+||||| .||.++.+=|
T Consensus 156 ~~re~tEs~~~~p--iqQT~n~~d-------T~~lVaaV~~GkGl~---~~r~~~~~gP 202 (279)
T KOG3583|consen 156 VDREHTESAIEKP--IQQTYNRDD-------TAKLVAAVLTGKGLR---SQRTMAPAGP 202 (279)
T ss_pred HHHHHHHhhhcCc--cccccChhH-------HHHHHHHHHhccccc---cccccCCCCC
Confidence 99997 4488888 999999999 999999999999998 4666554433
No 2
>PF10232 Med8: Mediator of RNA polymerase II transcription complex subunit 8; InterPro: IPR019364 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. Arc32, or Med8, is one of the subunits of the Mediator complex of RNA polymerase II. The region conserved contains two alpha helices putatively necessary for binding to other subunits within the core of the Mediator complex. The N terminus of Med8 binds to the essential core Head part of Mediator and the C terminus hinges to Med18 on the non-essential part of the Head that also includes Med20 []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3C0T_B 3RJ1_J 2HZS_I.
Probab=99.96 E-value=1.7e-31 Score=254.91 Aligned_cols=170 Identities=20% Similarity=0.293 Sum_probs=108.4
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHHh---hhhcceEeeeccCCCC--C
Q 008594 39 LNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEIR---KVSKAFVVHPKNVNAE--N 113 (560)
Q Consensus 39 lNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEIk---pvLr~FvVlPlnVnae--N 113 (560)
.+||+||.|+.+|+++|..|+.+|+..+ +.+.|++||++|+||+++|.+|.+.++ ++|+++||||+.+.|+ .
T Consensus 11 ~aLe~ir~Rl~qL~~SL~~l~~~L~~~~---~lp~W~slq~qf~il~~qL~sL~~~L~~~~~~L~~~vv~P~~~fP~~~~ 87 (226)
T PF10232_consen 11 KALEAIRQRLAQLKHSLQSLIDKLEQSQ---PLPPWPSLQDQFAILSSQLSSLSKTLQHNKPLLRNTVVYPLPLFPGRDE 87 (226)
T ss_dssp TTTSTTTHHHHHHHHHHHHHHHHHT-T----SS---HHHHHHHHHHHHHHHHHHHHTTTSSTTTTTS--TTS---S--TT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHccC---CCCCcHHHHHHHHHHHHHHHHHHHHHHhccccccceeeecCCCCCCcCh
Confidence 6899999999999999999999999877 899999999999999999999995554 8999999999999876 6
Q ss_pred CCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHH-----HHHHHHHHHhHHHHHHHHHHhhhh--ccC
Q 008594 114 ATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSR-----IDMIGAACESAEKVLADTRKAYCF--GTR 186 (560)
Q Consensus 114 a~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKR-----Id~iNkacE~aekvIa~aRk~~e~--gtR 186 (560)
.++||+||||||+||||..+.+. ...+.++ ..+...++ |..+|+.|++++++|.+.|++|+. ..+
T Consensus 88 e~ll~~lLRtKl~PeVE~~~~~~----~~~~~~~----~~~~~~~q~~~~~i~~~~k~~~~~~~~~t~lree~e~~~~~~ 159 (226)
T PF10232_consen 88 EDLLPDLLRTKLDPEVEEWEAQL----REEAANA----TPDAAQKQQAELAIAQYNKRISNWLDVVTGLREEWEFEDFSD 159 (226)
T ss_dssp GGGTTHHHHH----GGGTTTSTT----T---TTS-----S--SSS-SSTTTHHHHHHHHHHH--TTTTTHHH---HTTT-
T ss_pred HHHHHHHHhCCCCChHHHHHHHH----HHHHHhc----CcCHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence 68999999999999999999994 4445556 55666777 999999999999999999999998 555
Q ss_pred CCCCCCCccChhHHHHHHHHHHHHHHHHhcCCCcccCCCcCC
Q 008594 187 QGPQILPTLDKGQALKIQEQENLLRAAVNSGEGLRLPGDQRQ 228 (560)
Q Consensus 187 qGp~~~pT~dkadaaki~eqt~lL~AAVn~GeGLr~p~dqr~ 228 (560)
.+ ..+|++.+| ++.|++||.+|+||+-..++..
T Consensus 160 ~~--~~~~~~~~d-------t~~lv~~~~~g~gl~~~~~~~~ 192 (226)
T PF10232_consen 160 RE--EEQTSEEED-------TEALVAAVGFGKGLKPQFEQQI 192 (226)
T ss_dssp --------------------HHHHHH------SS-HH-----
T ss_pred cc--cccccChhH-------HHHHHHHhhcchhcccccchhh
Confidence 55 889999999 9999999999999995555443
No 3
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=78.16 E-value=8.9 Score=45.57 Aligned_cols=132 Identities=14% Similarity=0.221 Sum_probs=79.3
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHhhhhhcc------cCCCCChhhhhhhhhhcchhhhhhH-HHHhhhhcce----Eeeec
Q 008594 39 LNLEAVKTRAISLFKAISRILEDFDAYAR------TNTTPKWQDILGQYSMVNLELFNIV-DEIRKVSKAF----VVHPK 107 (560)
Q Consensus 39 lNLEAVraRA~DLkkaIsriI~~LE~e~~------tN~t~kWpDVLdqFSVIS~QL~nLv-EEIkpvLr~F----vVlPl 107 (560)
.-|...+.++.+++..|..+-.-|+.... -...+.|.+-||+ ||+-+| |. .|+.|.+..- .+|-+
T Consensus 511 ~~l~~~~~~~~~~~~~~~~l~~~L~p~~gSL~~fL~~~~p~We~tIGK--Vid~eL--L~r~dL~P~l~~~~~~dslyGl 586 (1201)
T PF12128_consen 511 EELRQARRELEELRAQIAELQRQLDPQKGSLLEFLRKNKPGWEQTIGK--VIDEEL--LYRTDLEPQLVEDSGSDSLYGL 586 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCCCCCcHHHHHHhCCCcHHHHhHh--hCCHHH--hcCCCCCCeecCCCccccccee
Confidence 34566677777777777777666653322 1258999999986 888775 32 6777755422 46666
Q ss_pred cCCCCCCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh
Q 008594 108 NVNAENATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCF 183 (560)
Q Consensus 108 nVnaeNa~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~ 183 (560)
.++=++= .+|+|..++- ++|.+...+.+++... ....+.+.+++..+++.++.+.+-+.+++-+++.
T Consensus 587 ~LdL~~I-~~pd~~~~ee--~L~~~l~~~~~~l~~~------~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~ 653 (1201)
T PF12128_consen 587 SLDLSAI-DVPDYAASEE--ELRERLEQAEDQLQSA------EERQEELEKQLKQINKKIEELKREITQAEQELKQ 653 (1201)
T ss_pred Eeehhhc-CCchhhcChH--HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6654422 4677776644 4444433333332221 2245667777777888877777777666655544
No 4
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=75.29 E-value=13 Score=35.45 Aligned_cols=30 Identities=17% Similarity=0.317 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHhhh
Q 008594 153 IEKLKSRIDMIGAACESAEKVLADTRKAYC 182 (560)
Q Consensus 153 iEklqKRId~iNkacE~aekvIa~aRk~~e 182 (560)
..++.+.++.+++|++.+++...+...-|+
T Consensus 73 l~~L~e~l~~l~~v~~~l~~~~~~~~~l~~ 102 (168)
T PF15011_consen 73 LAKLRETLEELQKVRDSLSRQVRDVFQLYE 102 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455688888899999998888888888888
No 5
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.52 E-value=10 Score=43.46 Aligned_cols=184 Identities=17% Similarity=0.182 Sum_probs=113.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCCcchhh
Q 008594 41 LEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENATILPVM 120 (560)
Q Consensus 41 LEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~IVPdm 120 (560)
+.+|..|...|+..|.-+...+.+.++ . -...|.+|=+=+ +-.||...+.+|+---.+.+-+|| .+-.-
T Consensus 536 i~aiqdk~~~ly~nirlyEkalklF~d---d--tq~~L~k~LLkt-----v~neI~n~l~nyvase~~~tvdn~-~L~s~ 604 (776)
T KOG2235|consen 536 ISAIQDKCRQLYDNIRLYEKALKLFAD---D--TQSDLRKYLLKT-----VGNEIANALLNYVASEESKTVDNH-QLKSK 604 (776)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccC---c--hHHHHHHHHHHH-----HHHHHHHHHHHHHHHHhhhhhhhh-hccHH
Confidence 445556666666666666666666552 1 355666665433 558999999999999889888984 78888
Q ss_pred hhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhh-hhccCCCCCCCCccChhH
Q 008594 121 LSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAY-CFGTRQGPQILPTLDKGQ 199 (560)
Q Consensus 121 LRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~-e~gtRqGp~~~pT~dkad 199 (560)
-|+|+.-+.+..-+.++-.+.....+- .+|+++.-++-..++|+-+.|.+.+-++.- ...-|..- ..+-+.-.|
T Consensus 605 qR~kla~nl~~~lr~all~l~~aLn~k----siDdF~~a~~saaea~sl~lKKvDKK~er~ll~~~rk~L-~eQl~~~~e 679 (776)
T KOG2235|consen 605 QREKLAENLPEMLRDALLSLFAALNSK----SIDDFHDAVYSAAEACSLALKKVDKKGERELLAKHRKEL-HEQLCSQTE 679 (776)
T ss_pred HHHHHHHhhhHHHHHHHHHHHHHhccc----chHHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHHHH-HHHHhcccc
Confidence 899998888777776655555444444 788888888888899997776654433321 11222110 111111112
Q ss_pred HHHHHHHHHHHHHHHhcCCCcccCCCcCCCCCCCchhhhhcccc
Q 008594 200 ALKIQEQENLLRAAVNSGEGLRLPGDQRQMTPALPMHLVDLLPV 243 (560)
Q Consensus 200 aaki~eqt~lL~AAVn~GeGLr~p~dqr~~~~~lp~hl~~~l~~ 243 (560)
-|-|.-=.-+|.=+--.|+-|.-||. .-+++=.||-|-|+-
T Consensus 680 PallL~l~vllLf~ki~~s~lhA~Gk---~Vsaiiahik~kl~E 720 (776)
T KOG2235|consen 680 PALLLHLSVLLLFAKITNSPLHASGK---FVSAIIAHIKDKLPE 720 (776)
T ss_pred hHHHHHHHHHHHHHHHcCCcccCccc---hHHHHHHHHHhhCCh
Confidence 22233234455556667888887774 224455677666654
No 6
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=59.89 E-value=3e+02 Score=31.12 Aligned_cols=25 Identities=24% Similarity=0.448 Sum_probs=19.8
Q ss_pred cHHHHhhhcHHHHHHHHHHHHHHHH
Q 008594 32 NQAVVQQLNLEAVKTRAISLFKAIS 56 (560)
Q Consensus 32 n~~V~~QlNLEAVraRA~DLkkaIs 56 (560)
|.-...|.+||.+|--+.+|.+++.
T Consensus 172 n~t~~kq~~leQLRre~V~lentlE 196 (552)
T KOG2129|consen 172 NKTLLKQNTLEQLRREAVQLENTLE 196 (552)
T ss_pred hhhHHhhhhHHHHHHHHHHHhhHHH
Confidence 6667778888888888888888774
No 7
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=56.48 E-value=1.4e+02 Score=32.82 Aligned_cols=127 Identities=16% Similarity=0.226 Sum_probs=71.5
Q ss_pred cchhhhhcHHHHhhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhh---hhhcchhhhhhHHHHhhhhcc
Q 008594 25 PVAVERLNQAVVQQLNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQ---YSMVNLELFNIVDEIRKVSKA 101 (560)
Q Consensus 25 ~~~~e~ln~~V~~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdq---FSVIS~QL~nLvEEIkpvLr~ 101 (560)
|...|-|+..+. .|..|++++|..|..+|.+ +|.||+.. -.-+-..+..|.+||..+++.
T Consensus 6 ~l~~edl~~~I~------~L~~~i~~~k~eV~~~I~~-----------~y~df~~~~~~~~~L~~~~~~l~~eI~d~l~~ 68 (593)
T PF06248_consen 6 PLSKEDLRKSIS------RLSRRIEELKEEVHSMINK-----------KYSDFSPSLQSAKDLIERSKSLAREINDLLQS 68 (593)
T ss_pred CCCHhHHHHHHH------HHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence 334444444444 7777888888887766653 33344433 334455667777888777766
Q ss_pred eEeeeccCCCCCCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHH-----hHHHHHHH
Q 008594 102 FVVHPKNVNAENATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACE-----SAEKVLAD 176 (560)
Q Consensus 102 FvVlPlnVnaeNa~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE-----~aekvIa~ 176 (560)
-+ ++. +.+..- +...+...++.++.....-+-+-..+.++.++|+.++.+++ .|-+.+.+
T Consensus 69 ~~--------~~~-i~~~l~------~a~~e~~~L~~eL~~~~~~l~~L~~L~~i~~~l~~~~~al~~~~~~~Aa~~L~~ 133 (593)
T PF06248_consen 69 EI--------ENE-IQPQLR------DAAEELQELKRELEENEQLLEVLEQLQEIDELLEEVEEALKEGNYLDAADLLEE 133 (593)
T ss_pred hc--------cch-hHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence 22 111 232222 23444555555555554444444566677777777776643 45566666
Q ss_pred HHHhhhh
Q 008594 177 TRKAYCF 183 (560)
Q Consensus 177 aRk~~e~ 183 (560)
+++....
T Consensus 134 ~~~~L~~ 140 (593)
T PF06248_consen 134 LKSLLDD 140 (593)
T ss_pred HHHHHHh
Confidence 6666655
No 8
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=55.67 E-value=1e+02 Score=31.93 Aligned_cols=136 Identities=12% Similarity=0.140 Sum_probs=68.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhh----hhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCC
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQD----ILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENAT 115 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpD----VLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~ 115 (560)
.++-+..|+..+++.+.+...+|+.+-+-|....+.+ ...+..-++.+|..+..+.......+ - ..+..+
T Consensus 172 ~~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~i~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~---~---~~~~~~ 245 (444)
T TIGR03017 172 AALWFVQQIAALREDLARAQSKLSAYQQEKGIVSSDERLDVERARLNELSAQLVAAQAQVMDASSKE---G---GSSGKD 245 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCcccchHHHHHHHHHHHHHHHHHHHHHHHHHH---h---ccCCcc
Confidence 4566777888888888888887777765555544432 12333344444444443222111100 0 112234
Q ss_pred cchhhhhcccCcchhhhhhHHHHHHHhhcCC-CCCchhHHHHHHHHHHHHHHHH-hHHHHHHHHHHhh
Q 008594 116 ILPVMLSSKLLPEMEIDDNSKREQLLLGMQN-LPIPSQIEKLKSRIDMIGAACE-SAEKVLADTRKAY 181 (560)
Q Consensus 116 IVPdmLRTKLlPEmEtee~q~~~ql~~kA~n-LP~~~qiEklqKRId~iNkacE-~aekvIa~aRk~~ 181 (560)
.+|........-++..+..++..++..-... .|-+..+-.++++|+.+.+.+. .+.+++...++++
T Consensus 246 ~~~~~~~~~~i~~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~e~~~~~~~~~~~~ 313 (444)
T TIGR03017 246 ALPEVIANPIIQNLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNAEIKKVTSSVGTNS 313 (444)
T ss_pred cchhhhcChHHHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4565544433334444444444443333333 2667777778888887777654 2333433333333
No 9
>PF05983 Med7: MED7 protein; InterPro: IPR009244 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. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=55.32 E-value=1e+02 Score=29.30 Aligned_cols=89 Identities=22% Similarity=0.387 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcc--cCCCCChhhhhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCCcchhhhh
Q 008594 45 KTRAISLFKAISRILEDFDAYAR--TNTTPKWQDILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENATILPVMLS 122 (560)
Q Consensus 45 raRA~DLkkaIsriI~~LE~e~~--tN~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~IVPdmLR 122 (560)
..|..+||+....++..+-..-+ ...-..|..-++...+|-..+..|..|.+|.
T Consensus 71 ~d~~~eLkkL~~sll~nfleLl~~l~~~P~~~~~ki~~i~~L~~NmhhllNeyRPh------------------------ 126 (162)
T PF05983_consen 71 VDRKKELKKLNKSLLLNFLELLDILSKNPSQYERKIEDIRLLFINMHHLLNEYRPH------------------------ 126 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSS---CCCHHHHHHHHHHHHHHHHHHHHHTHHH------------------------
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHHHHHHHHhCHH------------------------
Confidence 66777777777766655433322 1233466667777777766666677666652
Q ss_pred cccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHH
Q 008594 123 SKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVL 174 (560)
Q Consensus 123 TKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvI 174 (560)
+.|+.+..-| ..++|.-+..|+.|.++|+.|+++|
T Consensus 127 ------------QARetLi~~m-----e~Ql~~kr~~i~~i~~~~~~~~~~l 161 (162)
T PF05983_consen 127 ------------QARETLIMMM-----EEQLEEKREEIEEIRKVCEKAREVL 161 (162)
T ss_dssp ------------HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ------------HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 2222222221 2267777888999999999998887
No 10
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=50.76 E-value=23 Score=44.34 Aligned_cols=21 Identities=10% Similarity=0.238 Sum_probs=11.8
Q ss_pred hhcceEeeeccCCCCCCCcch
Q 008594 98 VSKAFVVHPKNVNAENATILP 118 (560)
Q Consensus 98 vLr~FvVlPlnVnaeNa~IVP 118 (560)
--|.|-+-|+-|.||+-+--|
T Consensus 1769 ~pR~yyL~PlPlPpedEEe~~ 1789 (2220)
T KOG3598|consen 1769 FPRDYYLAPLPLPPEDEEEAK 1789 (2220)
T ss_pred CcchhhccCCCCCcccccCCC
Confidence 335566666667666544433
No 11
>PRK09039 hypothetical protein; Validated
Probab=49.39 E-value=96 Score=32.48 Aligned_cols=68 Identities=29% Similarity=0.444 Sum_probs=42.8
Q ss_pred chhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh-ccCCCCCCCCccChhHHHHHHHHHH-------HHHHHHhcCCCcc
Q 008594 150 PSQIEKLKSRIDMIGAACESAEKVLADTRKAYCF-GTRQGPQILPTLDKGQALKIQEQEN-------LLRAAVNSGEGLR 221 (560)
Q Consensus 150 ~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~-gtRqGp~~~pT~dkadaaki~eqt~-------lL~AAVn~GeGLr 221 (560)
..+|++|+++|+.+..+++.+++-.++.++..+. +.+ ++.+=|.|+.|=+. -|++..+.-+|++
T Consensus 143 ~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~--------L~~a~~~~~~~l~~~~~~~~~~l~~~~~~~~~ir 214 (343)
T PRK09039 143 NQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRR--------LNVALAQRVQELNRYRSEFFGRLREILGDREGIR 214 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHhHHHHHHHHHHHhCCCCCcE
Confidence 4467777777777777777777777776666655 332 34444444544333 3567777777888
Q ss_pred cCCC
Q 008594 222 LPGD 225 (560)
Q Consensus 222 ~p~d 225 (560)
|-+|
T Consensus 215 i~g~ 218 (343)
T PRK09039 215 IVGD 218 (343)
T ss_pred EECC
Confidence 7755
No 12
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=48.87 E-value=33 Score=38.26 Aligned_cols=75 Identities=24% Similarity=0.327 Sum_probs=48.1
Q ss_pred chhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCCCC-----------CCCccChhHH-------HHHHHHHHHHH
Q 008594 150 PSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQGPQ-----------ILPTLDKGQA-------LKIQEQENLLR 211 (560)
Q Consensus 150 ~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqGp~-----------~~pT~dkada-------aki~eqt~lL~ 211 (560)
..+||.|++++..+.+-|..+++.|+..-.+-..|+..+|. ..+++..+|+ |.++-.+..|.
T Consensus 24 a~~i~~L~~ql~aLq~~v~eL~~~laa~~~aa~~gA~~~~~~~a~~~aP~~~a~~~~T~d~~~~~~qqiAn~~lKv~~l~ 103 (514)
T PF11336_consen 24 ADQIKALQAQLQALQDQVNELRAKLAAKPAAAPGGAAIGPAATAAAAAPSSDAQAGLTNDDATEMRQQIANAQLKVESLE 103 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCccccccccccccccCCCcccccccChHHHHHHHHHHHhhhhhHHHHh
Confidence 34788889999888888888888776544443333322221 2334555555 34444567788
Q ss_pred HHHhcC--CCcccCC
Q 008594 212 AAVNSG--EGLRLPG 224 (560)
Q Consensus 212 AAVn~G--eGLr~p~ 224 (560)
.|...| |||+|.+
T Consensus 104 da~~t~~~kGLsITG 118 (514)
T PF11336_consen 104 DAAETGGFKGLSITG 118 (514)
T ss_pred hHHhcCCcccceEee
Confidence 888877 7999876
No 13
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=48.86 E-value=40 Score=36.84 Aligned_cols=31 Identities=19% Similarity=0.303 Sum_probs=16.8
Q ss_pred hhHHHHHHHHHHHHHHHHhHHHHHHHHHHhh
Q 008594 151 SQIEKLKSRIDMIGAACESAEKVLADTRKAY 181 (560)
Q Consensus 151 ~qiEklqKRId~iNkacE~aekvIa~aRk~~ 181 (560)
..++.+.++++.+.+.++.+-+.|++.|+.+
T Consensus 346 ~~le~L~~el~~l~~~l~~~a~~Ls~~R~~~ 376 (563)
T TIGR00634 346 ESLEALEEEVDKLEEELDKAAVALSLIRRKA 376 (563)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555555555555555544
No 14
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=45.97 E-value=53 Score=34.86 Aligned_cols=107 Identities=26% Similarity=0.367 Sum_probs=66.0
Q ss_pred HHHHHHHHHhhhhhcccCCCCC-hhhhhhhhhhcchhhhhhH---HHHhhhhcceEeeeccCCCCCCCcchhhhhcccCc
Q 008594 52 FKAISRILEDFDAYARTNTTPK-WQDILGQYSMVNLELFNIV---DEIRKVSKAFVVHPKNVNAENATILPVMLSSKLLP 127 (560)
Q Consensus 52 kkaIsriI~~LE~e~~tN~t~k-WpDVLdqFSVIS~QL~nLv---EEIkpvLr~FvVlPlnVnaeNa~IVPdmLRTKLlP 127 (560)
.+++.++..+|....+-.+.++ |.++.|.+.-+..+.+.-+ +|..++...+ ||+- .-|+..+..
T Consensus 207 ~ks~e~~~~~l~~~~~~g~~v~s~re~~d~W~~~ae~~~~e~~~S~efak~~G~l------vna~------m~lr~~~qe 274 (320)
T TIGR01834 207 YKSFAALMSDLLARAKSGKPVKTAKALYDLWVIAAEEAYAEVFASEENAKVHGKF------INAL------MRLRIQQQE 274 (320)
T ss_pred HHHHHHHHHHHHhccccCCCchhHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHH------HHHH------HHHHHHHHH
Confidence 4677777777776554334455 9999998876554443333 4444433322 1111 112222222
Q ss_pred chhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 008594 128 EMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRK 179 (560)
Q Consensus 128 EmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk 179 (560)
.| |. .-+..|||--..+|.+.+||..|.+-+-.++|-|.+..+
T Consensus 275 ~~--------e~-~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l~~ 317 (320)
T TIGR01834 275 IV--------EA-LLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDLEA 317 (320)
T ss_pred HH--------HH-HHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 22 22 223468999999999999999999999988888876554
No 15
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=44.68 E-value=3.5e+02 Score=27.40 Aligned_cols=27 Identities=15% Similarity=0.433 Sum_probs=22.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYA 66 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~ 66 (560)
+|..||.++.+|.+.-.+|+..++..-
T Consensus 2 ~i~~ir~K~~~lek~k~~i~~e~~~~e 28 (230)
T PF10146_consen 2 KIKEIRNKTLELEKLKNEILQEVESLE 28 (230)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467899999999999999988887754
No 16
>PRK04863 mukB cell division protein MukB; Provisional
Probab=43.66 E-value=1.2e+02 Score=37.94 Aligned_cols=45 Identities=11% Similarity=0.315 Sum_probs=35.7
Q ss_pred HHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh
Q 008594 137 REQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCF 183 (560)
Q Consensus 137 ~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~ 183 (560)
+++++...... ...++.|.++|+...+-++..++.|...++.|+.
T Consensus 1076 ~~~~~~~~~~r--e~EIe~L~kkL~~~~~e~~~~re~I~~aK~~W~~ 1120 (1486)
T PRK04863 1076 RNQLEKQLTFC--EAEMDNLTKKLRKLERDYHEMREQVVNAKAGWCA 1120 (1486)
T ss_pred HHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444443332 5688999999999999999999999999999998
No 17
>PF08654 DASH_Dad2: DASH complex subunit Dad2; InterPro: IPR013963 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=40.89 E-value=23 Score=31.78 Aligned_cols=64 Identities=17% Similarity=0.334 Sum_probs=49.1
Q ss_pred hhcHHHHhhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccC-----CCCChhhhhhhhhhcchhhhhhHH
Q 008594 30 RLNQAVVQQLNLEAVKTRAISLFKAISRILEDFDAYARTN-----TTPKWQDILGQYSMVNLELFNIVD 93 (560)
Q Consensus 30 ~ln~~V~~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN-----~t~kWpDVLdqFSVIS~QL~nLvE 93 (560)
||...-.-=.+|..+|.=..+|..-+..|-.+|+.-.+-. ---||+.|+...++.|..|....+
T Consensus 5 ri~eKk~ELe~L~~l~~lS~~L~~qle~L~~kl~~m~dg~e~Va~Vl~NW~nV~r~Is~AS~~l~~~~~ 73 (103)
T PF08654_consen 5 RIAEKKAELEALKQLRDLSADLASQLEALSEKLETMADGAEAVASVLANWQNVFRAISMASLSLAKYSE 73 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHhHHHHHHHHHHHHhhhhhccc
Confidence 3444444445778888899999999999999999876522 235999999999999988877764
No 18
>PF04253 TFR_dimer: Transferrin receptor-like dimerisation domain; InterPro: IPR007365 This entry represents the dimerisation domain found in the transferrin receptor, as well as in a number of other proteins including glutamate carboxypeptidase II and N-acetylated-alpha-linked acidic dipeptidase like protein. The transferrin receptor (TfR) assists iron uptake into vertebrate cells through a cycle of endo- and exocytosis of the iron transport protein transferrin (Tf). TfR binds iron-loaded (diferric) Tf at the cell surface and carries it to the endosome, where the iron dissociates from Tf. The apo-Tf remains bound to TfR until it reaches the cell surface, where apo-Tf is replaced by diferric Tf from the serum to begin the cycle again. Human TfR is a homodimeric type II transmembrane protein. The crystal structure of a TfR monomer reveals a 3-domain structure: a protease-like domain that closely resembles carboxy- and amino-peptidases; an apical domain consisting of a beta-sandwich; and a helical dimerisation domain. The dimerisation domain consists of a 4-helical bundle that makes contact with each of the three domains in the dimer partner [].; PDB: 3FF3_A 3FEC_A 3FED_A 3FEE_A 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A ....
Probab=40.02 E-value=44 Score=29.33 Aligned_cols=60 Identities=18% Similarity=0.222 Sum_probs=37.5
Q ss_pred hhhhcceEeeeccCCCCCCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHH
Q 008594 96 RKVSKAFVVHPKNVNAENATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLA 175 (560)
Q Consensus 96 kpvLr~FvVlPlnVnaeNa~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa 175 (560)
+|-.|+.++-|-.-+.... ...|.+ +|.+..+-.+. .++.++++|+.+..++++|-++|+
T Consensus 64 r~~~kHvifap~~~~~y~~---------~~fPgI-------~dai~~~~~~~----~~~~~~~~i~~v~~~i~~Aa~~L~ 123 (125)
T PF04253_consen 64 RPWYKHVIFAPGRWNGYAS---------WTFPGI-------RDAIEDKDSSK----DWEEAQKQISRVAKAIQNAANTLS 123 (125)
T ss_dssp BTT--BSSEEEETTEEEEE---------EESHHH-------HHHHTTGGGTS----THHHHHHHHHHHHHHHHHHHHHCS
T ss_pred CcccceeeeCCCCCCCCcC---------cccHHH-------HHHHHhcccCc----hHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4456666666555443322 445554 34455553333 399999999999999999988764
No 19
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=38.65 E-value=1.6e+02 Score=33.98 Aligned_cols=21 Identities=24% Similarity=0.461 Sum_probs=16.8
Q ss_pred CCchhHHHHHHHHHHHHHHHH
Q 008594 148 PIPSQIEKLKSRIDMIGAACE 168 (560)
Q Consensus 148 P~~~qiEklqKRId~iNkacE 168 (560)
|+....|=|=.||++++..|+
T Consensus 210 PLraSLdfLP~Ri~~F~~ra~ 230 (683)
T PF08580_consen 210 PLRASLDFLPMRIEEFQSRAE 230 (683)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 778888888888888887765
No 20
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=37.59 E-value=2.4e+02 Score=26.15 Aligned_cols=127 Identities=19% Similarity=0.166 Sum_probs=72.9
Q ss_pred CChhhhhhhh------hhcchhhhhhHHHHhhhhc----ceEeeeccCCCC--CCCcchhhhhc-----ccCcchhhhhh
Q 008594 72 PKWQDILGQY------SMVNLELFNIVDEIRKVSK----AFVVHPKNVNAE--NATILPVMLSS-----KLLPEMEIDDN 134 (560)
Q Consensus 72 ~kWpDVLdqF------SVIS~QL~nLvEEIkpvLr----~FvVlPlnVnae--Na~IVPdmLRT-----KLlPEmEtee~ 134 (560)
-+=.||.+++ +.|-.-|..|+++-+=+.| .-++++..-..+ +.+-+..|=.. .-+-+.+.+..
T Consensus 17 ys~~di~~nL~~~~~K~~v~k~Ld~L~~~g~i~~K~~GKqkiY~~~Q~~~~~~s~eel~~ld~ei~~L~~el~~l~~~~k 96 (169)
T PF07106_consen 17 YSAQDIFDNLHNKVGKTAVQKALDSLVEEGKIVEKEYGKQKIYFANQDELEVPSPEELAELDAEIKELREELAELKKEVK 96 (169)
T ss_pred CcHHHHHHHHHhhccHHHHHHHHHHHHhCCCeeeeeecceEEEeeCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666665 5566677777755433333 335555544333 23333322221 11123333333
Q ss_pred HHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHHH
Q 008594 135 SKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRAA 213 (560)
Q Consensus 135 q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~AA 213 (560)
.++.++-.-...+ ..+.+.+.|+.+.+-|+..++-|...|..|.. +++.+..+|...-.-++..
T Consensus 97 ~l~~eL~~L~~~~----t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~-----------vs~ee~~~~~~~~~~~~k~ 160 (169)
T PF07106_consen 97 SLEAELASLSSEP----TNEELREEIEELEEEIEELEEKLEKLRSGSKP-----------VSPEEKEKLEKEYKKWRKE 160 (169)
T ss_pred HHHHHHHHHhcCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC-----------CCHHHHHHHHHHHHHHHHH
Confidence 3333333333334 78889999999999999999999888864432 7788888887766655544
No 21
>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=37.01 E-value=56 Score=27.00 Aligned_cols=46 Identities=20% Similarity=0.226 Sum_probs=36.8
Q ss_pred HHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccC
Q 008594 139 QLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTR 186 (560)
Q Consensus 139 ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtR 186 (560)
.++.+...+ ...++++++.++.|.+.+|.+++-|.+.=+-||.=||
T Consensus 4 elEn~~~~~--~~~i~tvk~en~~i~~~ve~i~envk~ll~lYE~Vs~ 49 (55)
T PF05377_consen 4 ELENELPRI--ESSINTVKKENEEISESVEKIEENVKDLLSLYEVVSN 49 (55)
T ss_pred HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 345555444 5678899999999999999999999988888988554
No 22
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=36.34 E-value=1.3e+02 Score=34.28 Aligned_cols=88 Identities=17% Similarity=0.209 Sum_probs=51.7
Q ss_pred CCCCcchhhhhcHHHHhhhcHHHHHHHHHHHHHHH-------------HHHHHhhhhhcccCCCCChhhhhhhhhhcchh
Q 008594 21 VPPQPVAVERLNQAVVQQLNLEAVKTRAISLFKAI-------------SRILEDFDAYARTNTTPKWQDILGQYSMVNLE 87 (560)
Q Consensus 21 ~~~~~~~~e~ln~~V~~QlNLEAVraRA~DLkkaI-------------sriI~~LE~e~~tN~t~kWpDVLdqFSVIS~Q 87 (560)
.-|+|--.|+|..--..-+|.|.+..-+.+....| .+.++.|+... +-..+..++....+=.--+
T Consensus 200 ~~l~~gE~e~L~~e~~rLsn~ekl~~~~~~a~~~L~ge~~~~~~~~~l~~a~~~l~~~~--~~d~~l~~~~~~l~ea~~~ 277 (557)
T COG0497 200 LNLQPGEDEELEEERKRLSNSEKLAEAIQNALELLSGEDDTVSALSLLGRALEALEDLS--EYDGKLSELAELLEEALYE 277 (557)
T ss_pred cCCCCchHHHHHHHHHHHhhHHHHHHHHHHHHHHHhCCCCchhHHHHHHHHHHHHHHhh--ccChhHHHHHHHHHHHHHH
Confidence 45666677777666666666665554443333322 22233333221 1244666666666655566
Q ss_pred hhhhHHHHhhhhcceEeeeccCC
Q 008594 88 LFNIVDEIRKVSKAFVVHPKNVN 110 (560)
Q Consensus 88 L~nLvEEIkpvLr~FvVlPlnVn 110 (560)
|..+.+|++..++.+-+-|..+.
T Consensus 278 l~ea~~el~~~~~~le~Dp~~L~ 300 (557)
T COG0497 278 LEEASEELRAYLDELEFDPNRLE 300 (557)
T ss_pred HHHHHHHHHHHHhcCCCCHHHHH
Confidence 67777888888888888777764
No 23
>PF15445 ATS: acidic terminal segments, variant surface antigen of PfEMP1
Probab=35.53 E-value=57 Score=35.71 Aligned_cols=42 Identities=21% Similarity=0.385 Sum_probs=38.0
Q ss_pred CCCchhHHHHHHHHHHHHHHHH---hHHHHHHHHHHhhhhccCCC
Q 008594 147 LPIPSQIEKLKSRIDMIGAACE---SAEKVLADTRKAYCFGTRQG 188 (560)
Q Consensus 147 LP~~~qiEklqKRId~iNkacE---~aekvIa~aRk~~e~gtRqG 188 (560)
=|+.-+++-++|-+|.+..+|| +-+++|.+..|+|+.-+-.|
T Consensus 281 DpI~nQl~LfHkWLDRHRdmCekw~~kee~L~KLkEeW~~e~~sg 325 (437)
T PF15445_consen 281 DPIHNQLNLFHKWLDRHRDMCEKWNNKEELLDKLKEEWEKENHSG 325 (437)
T ss_pred CchhhhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcccCCC
Confidence 4889999999999999999999 67899999999999966666
No 24
>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here
Probab=35.30 E-value=1.9e+02 Score=25.22 Aligned_cols=28 Identities=11% Similarity=0.302 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHhh
Q 008594 154 EKLKSRIDMIGAACESAEKVLADTRKAY 181 (560)
Q Consensus 154 EklqKRId~iNkacE~aekvIa~aRk~~ 181 (560)
....++++.++.-++.+...+.+.++..
T Consensus 182 ~~~~~~l~~l~~~~~~l~~~~~~~~~~L 209 (213)
T cd00176 182 EEIEEKLEELNERWEELLELAEERQKKL 209 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666666665555443
No 25
>PF11887 DUF3407: Protein of unknown function (DUF3407); InterPro: IPR024516 This entry represents a domain of unknown function found at the C terminus of many proteins in the mammalian cell entry family.
Probab=35.29 E-value=58 Score=32.83 Aligned_cols=29 Identities=7% Similarity=0.028 Sum_probs=14.3
Q ss_pred hhhhhhhhcchhhhhhHHHHhhhhcceEe
Q 008594 76 DILGQYSMVNLELFNIVDEIRKVSKAFVV 104 (560)
Q Consensus 76 DVLdqFSVIS~QL~nLvEEIkpvLr~FvV 104 (560)
+.|+.++-|+.-|..-..||...++++++
T Consensus 56 ~~l~~l~~v~~~~a~aapdL~~~l~~~~~ 84 (267)
T PF11887_consen 56 EDLRNLADVADTYADAAPDLLDALDNLTT 84 (267)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 34455555555554444555555554443
No 26
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=34.60 E-value=1.1e+02 Score=33.69 Aligned_cols=63 Identities=10% Similarity=0.245 Sum_probs=45.1
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhh-------cchhhhhhHHHHhhhhcceEe
Q 008594 37 QQLNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSM-------VNLELFNIVDEIRKVSKAFVV 104 (560)
Q Consensus 37 ~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSV-------IS~QL~nLvEEIkpvLr~FvV 104 (560)
..+.|+.+...+.+|..-|+.+-..|+.+.. -...|-.+... +..+...|..||..+-.+|.+
T Consensus 273 ~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~-----A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l 342 (569)
T PRK04778 273 EELDLDEAEEKNEEIQERIDQLYDILEREVK-----ARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTL 342 (569)
T ss_pred HhcChHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 4788999999999999999999998888763 22333333333 444555566888888888765
No 27
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=34.55 E-value=1e+02 Score=34.75 Aligned_cols=27 Identities=22% Similarity=0.352 Sum_probs=21.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYA 66 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~ 66 (560)
-++-.|.|..+|-+-|.||+-+.|...
T Consensus 377 KI~~~k~r~~~Ls~RiLRv~ikqeilr 403 (508)
T KOG3091|consen 377 KIEEAKNRHVELSHRILRVMIKQEILR 403 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 366778899999999999988877654
No 28
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=33.16 E-value=40 Score=42.40 Aligned_cols=14 Identities=29% Similarity=0.212 Sum_probs=7.7
Q ss_pred ccCCCCCCCCccCh
Q 008594 184 GTRQGPQILPTLDK 197 (560)
Q Consensus 184 gtRqGp~~~pT~dk 197 (560)
-.|.+|.--+|+.+
T Consensus 1842 ~~r~~p~~~~~s~~ 1855 (2220)
T KOG3598|consen 1842 CKRASPKDDVTSEK 1855 (2220)
T ss_pred cccCCCCCCCCChH
Confidence 45666655555544
No 29
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=33.08 E-value=1.1e+02 Score=33.81 Aligned_cols=68 Identities=10% Similarity=0.247 Sum_probs=56.2
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHHhhhhhccc--CCCCChhhhhhhhhhcchhhhhhHHHHhhhhcceEe
Q 008594 37 QQLNLEAVKTRAISLFKAISRILEDFDAYART--NTTPKWQDILGQYSMVNLELFNIVDEIRKVSKAFVV 104 (560)
Q Consensus 37 ~QlNLEAVraRA~DLkkaIsriI~~LE~e~~t--N~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvV 104 (560)
.+++|+.++....+|..-|+.+-..||.+.++ .-.-+|+.+.+...-+..+...|..|+..+..+|.+
T Consensus 269 ~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L 338 (560)
T PF06160_consen 269 KNLELDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSYTL 338 (560)
T ss_pred HcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 57899999999999999999999999988752 233467777777777777778888999999999964
No 30
>PRK12425 fumarate hydratase; Provisional
Probab=32.42 E-value=5.2e+02 Score=28.40 Aligned_cols=33 Identities=24% Similarity=0.457 Sum_probs=28.0
Q ss_pred hhhhhhhhcchhhhhhHHHHhhhh---c---ceEeeecc
Q 008594 76 DILGQYSMVNLELFNIVDEIRKVS---K---AFVVHPKN 108 (560)
Q Consensus 76 DVLdqFSVIS~QL~nLvEEIkpvL---r---~FvVlPln 108 (560)
++++-.++|...|..|.+||.-.. + .++.+|..
T Consensus 274 e~~~~l~~la~~L~kia~Dl~llsS~p~~g~~ei~lp~~ 312 (464)
T PRK12425 274 SLSGALKTLAVALMKIANDLRLLGSGPRAGLAEVRLPAN 312 (464)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCccCCceEEECCCC
Confidence 788899999999999999999987 4 35688854
No 31
>cd03204 GST_C_GDAP1 GST_C family, Ganglioside-induced differentiation-associated protein 1 (GDAP1) subfamily; GDAP1 was originally identified as a highly expressed gene at the differentiated stage of GD3 synthase-transfected cells. More recently, mutations in GDAP1 have been reported to cause both axonal and demyelinating autosomal-recessive Charcot-Marie-Tooth (CMT) type 4A neuropathy. CMT is characterized by slow and progressive weakness and atrophy of muscles. Sequence analysis of GDAP1 shows similarities and differences with GSTs; it appears to contain both N-terminal thioredoxin-fold and C-terminal alpha helical domains of GSTs, however, it also contains additional C-terminal transmembrane domains unlike GSTs. GDAP1 is mainly expressed in neuronal cells and is localized in the mitochondria through its transmembrane domains. It does not exhibit GST activity using standard substrates.
Probab=32.28 E-value=1.5e+02 Score=26.41 Aligned_cols=68 Identities=13% Similarity=0.126 Sum_probs=40.7
Q ss_pred chhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCCC-CCCCccChhH
Q 008594 128 EMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQGP-QILPTLDKGQ 199 (560)
Q Consensus 128 EmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqGp-~~~pT~dkad 199 (560)
+|-+.-..|...++++... +-+.+.+.+.+..++.++..+|+.+.+..++|| ++.-+| -.+-+++.||
T Consensus 2 ~~~~~~~~~~~~~~~~~~~---~~~~~~i~~~~~~l~~~l~~LE~~L~~~~~~~~-~~~~~~yL~Gd~~TlAD 70 (111)
T cd03204 2 DLATAYIAKQKKLKSKLLD---HDNVEYLKKILDELEMVLDQVEQELQRRKEETE-EQKCQLWLCGDTFTLAD 70 (111)
T ss_pred cHHHHHHHHHHHHHHHHHh---cccHHHHHHHHHHHHHHHHHHHHHHHcCCcccc-cccCCCccCCCCCCHHH
Confidence 3333334444445554433 235667778888888888888888875444555 333223 2335788999
No 32
>cd07595 BAR_RhoGAP_Rich-like The Bin/Amphiphysin/Rvs (BAR) domain of Rich-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to GAP interacting with CIP4 homologs proteins (Rich). Members contain an N-terminal BAR domain, followed by a Rho GAP domain, and a C-terminal prolin-rich region. Vertebrates harbor at least three Rho GAPs in this subfamily including Rich1, Rich2, and SH3-domain binding protein 1 (SH3BP1). Rich1 and Rich2 play complementary roles in the establishment and maintenance of cell polarity. Rich1 is a Cdc42- and Rac-specific GAP that binds to polarity proteins through the scaffold protein angiomotin and plays a role in maintaining the integrity of tight junctions. Rich2 is a Rac GAP that interacts with CD317 and plays a role in actin cytoskeleton organization and
Probab=31.96 E-value=1.3e+02 Score=30.36 Aligned_cols=30 Identities=13% Similarity=0.144 Sum_probs=24.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhcccC
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYARTN 69 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~~tN 69 (560)
.+..|-.|++.+++++..|+.++..+..-|
T Consensus 16 ~~~~lE~~~d~~k~~~~~~~k~~~~~lq~n 45 (244)
T cd07595 16 ELLQIEKRVEAVKDACQNIHKKLISCLQGQ 45 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHhcCCC
Confidence 456788999999999999999888766544
No 33
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=31.31 E-value=75 Score=33.92 Aligned_cols=26 Identities=35% Similarity=0.448 Sum_probs=19.2
Q ss_pred HHHHHHHHHH--HHHH------hcCCCcccCCCc
Q 008594 201 LKIQEQENLL--RAAV------NSGEGLRLPGDQ 226 (560)
Q Consensus 201 aki~eqt~lL--~AAV------n~GeGLr~p~dq 226 (560)
..|.|||||| -||+ -.|+|+-|+.|.
T Consensus 367 ~~Ia~QTNLLALNAaIEAARAGE~GrGFAVVA~E 400 (553)
T PRK15048 367 DGIAFQTNILALNAAVEAARAGEQGRGFAVVAGE 400 (553)
T ss_pred HHHHHHHHHHHHHHHHHHhccccCCCCChhHHHH
Confidence 3588999986 2333 279999988875
No 34
>PF08549 SWI-SNF_Ssr4: Fungal domain of unknown function (DUF1750); InterPro: IPR013859 This is a fungal protein of unknown function.
Probab=31.20 E-value=1.1e+02 Score=35.53 Aligned_cols=82 Identities=20% Similarity=0.259 Sum_probs=49.0
Q ss_pred hHHHHhhhhcceEeeeccCCCCCCCcchhhhh-cccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHH----HHHHHH-
Q 008594 91 IVDEIRKVSKAFVVHPKNVNAENATILPVMLS-SKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKS----RIDMIG- 164 (560)
Q Consensus 91 LvEEIkpvLr~FvVlPlnVnaeNa~IVPdmLR-TKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqK----RId~iN- 164 (560)
+.-|+..+-+.|---|.--..+...-.|.-.. .||+||.-.|=+ +++..+...+ ...|||+|+ +++.++
T Consensus 322 rKGEL~sLTeGiF~ap~~~~~~~~~~~~~~~~~gkLdp~~aeeF~---kRV~~~ia~~--~AEIekmK~~Hak~m~k~k~ 396 (669)
T PF08549_consen 322 RKGELESLTEGIFEAPGGQSGDASKEGPKKPYVGKLDPGKAEEFR---KRVAKKIADM--NAEIEKMKARHAKRMAKFKR 396 (669)
T ss_pred cccchhhhhcccccCCCCCCccccccCCCcccccCCCHHHHHHHH---HHHHHHHHHH--HHHHHHHHHHHHHHHHHHhh
Confidence 34677777788777766665555455554444 899999744333 3444444443 557888775 455553
Q ss_pred -HHHHhHHHHHHHH
Q 008594 165 -AACESAEKVLADT 177 (560)
Q Consensus 165 -kacE~aekvIa~a 177 (560)
+++..+|+-|.++
T Consensus 397 ~s~lk~AE~~LR~a 410 (669)
T PF08549_consen 397 NSLLKDAEKELRDA 410 (669)
T ss_pred ccHHHHHHHHHHhc
Confidence 3455666655433
No 35
>PF15237 PTRF_SDPR: PTRF/SDPR family
Probab=31.02 E-value=4.5e+02 Score=27.48 Aligned_cols=133 Identities=19% Similarity=0.264 Sum_probs=80.6
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhh--hhhhhcchhhhhhHHHHhhhhcceEeeeccCC------
Q 008594 39 LNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDIL--GQYSMVNLELFNIVDEIRKVSKAFVVHPKNVN------ 110 (560)
Q Consensus 39 lNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVL--dqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVn------ 110 (560)
.|...||.|++-=-.-| .+||. |-..+| ++|.|+= .-||.+=+.+.|+.-|..+.
T Consensus 72 ~~vk~Vr~r~ekQ~~qV----kklE~--------n~~eLL~Rn~FkVlI-----~Qee~eiPa~~~~k~~~~~~~~~~~~ 134 (246)
T PF15237_consen 72 VNVKEVRERLEKQAAQV----KKLEA--------NHAELLKRNKFKVLI-----FQEENEIPASVFVKEPEPLPSEGSEA 134 (246)
T ss_pred hhHHHHHHHHHHHHHHH----hhhhc--------cHHHHhhccCceEEe-----ccccccCCCcccccCCcccccccccc
Confidence 45667888876544433 56665 334454 4677764 44888878888888777772
Q ss_pred -------CCCCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh
Q 008594 111 -------AENATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCF 183 (560)
Q Consensus 111 -------aeNa~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~ 183 (560)
.+..+..|+-|++--+=++|.+.-+ ++|..| --+..++||-|-+|++ -+-+.++|...|-
T Consensus 135 ~~~~~~~~~~e~~~~~~lsSDEe~~v~e~~ee------SRA~ri-----KRSgLkrVdsLKKAFS--kenm~KTR~n~~k 201 (246)
T PF15237_consen 135 GEEDEEKEEEEFLEPIDLSSDEEYEVEEEIEE------SRAERI-----KRSGLKRVDSLKKAFS--KENMEKTRQNIEK 201 (246)
T ss_pred cccccccCCccccCCCCCCCccccchhhhhhH------hHHHHH-----HHHHHHHHHHHHHHHH--HHHHHHHHHHHHh
Confidence 1245567777887555455333222 222222 1123579999999998 3446678887776
Q ss_pred -ccCCCCCCCCccChhHHHHHH
Q 008594 184 -GTRQGPQILPTLDKGQALKIQ 204 (560)
Q Consensus 184 -gtRqGp~~~pT~dkadaaki~ 204 (560)
+.+.|..| +.+.--.||.
T Consensus 202 Kmnk~gTri---V~pERREKir 220 (246)
T PF15237_consen 202 KMNKLGTRI---VTPERREKIR 220 (246)
T ss_pred hccccCCCc---CChHHhhhHh
Confidence 66666333 5555555665
No 36
>PF02074 Peptidase_M32: Carboxypeptidase Taq (M32) metallopeptidase; InterPro: IPR001333 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M32 (carboxypeptidase Taq family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. Carboxypeptidase Taq is a zinc-containing thermostable metallopeptidase. It was originally discovered and purified from Thermus aquaticus; optimal enzymatic activity occurs at 80 celcius. Although very little is known about this enzyme, it is thought either to be associated with a membrane or to be particle bound.; GO: 0004181 metallocarboxypeptidase activity, 0006508 proteolysis; PDB: 1K9X_A 1KA4_A 1KA2_A 3DWC_A 1WGZ_A 3HQ2_A 3HOA_B.
Probab=30.55 E-value=2.3e+02 Score=31.60 Aligned_cols=61 Identities=13% Similarity=0.062 Sum_probs=34.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhH--HHHhhhhcceE
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIV--DEIRKVSKAFV 103 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLv--EEIkpvLr~Fv 103 (560)
.|.....|+.+|.++++-+--+.++.. +.--=+.=-.+-+.+++..+.+. ++++.+|+.+.
T Consensus 9 ~l~~~~~~i~~l~~a~slL~WD~~T~m---P~~g~~~Raeqla~Ls~~~hel~T~~~~~elL~~l~ 71 (494)
T PF02074_consen 9 ELKEHLREISALEHASSLLYWDQETMM---PKGGAEARAEQLATLSGLIHELLTSPEIGELLEELE 71 (494)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCT-----GGGHHHHHHHHHHHHHHHHHHHTSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCC---CcccHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHh
Confidence 355556666667666665555555543 22222333345566777777776 66777666554
No 37
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=30.17 E-value=3.5e+02 Score=25.82 Aligned_cols=102 Identities=19% Similarity=0.255 Sum_probs=53.5
Q ss_pred hhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCCc
Q 008594 37 QQLNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENATI 116 (560)
Q Consensus 37 ~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~I 116 (560)
+-..|.++|.|-.+++..+.. +.+.-+++.|.--=.. |. +-.+||+++.+-++.|-| |.-
T Consensus 23 ~~~~~~afk~r~d~~~~~v~~-------~pe~pp~IDwa~Yk~~---l~-~~~~lVD~feK~y~s~ki-p~p-------- 82 (161)
T PF05873_consen 23 QKAQFQAFKKRSDEYKRRVSK-------LPEQPPKIDWAHYKSV---LK-ENPGLVDEFEKQYESFKI-PYP-------- 82 (161)
T ss_dssp GHHHHHHHHHHHHHHHHHHHH-------S-SS-----HHHHHHC----S--STTHHHHHHHHHCC---------------
T ss_pred HHHHHHHHHHHHHHHHHHHHh-------CcCCCCCCCHHHHHHH---hh-hhHHHHHHHHHHHhccCC-CCC--------
Confidence 346677888888888777752 3333478888654332 33 556699999999999874 422
Q ss_pred chhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHH
Q 008594 117 LPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEK 172 (560)
Q Consensus 117 VPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aek 172 (560)
.++.+.++|..+.++.+... ...+...+||+.+.+.+++.+.
T Consensus 83 -----~d~~~~~i~~~e~~~~~~~~---------~~~~~s~~~i~~l~keL~~i~~ 124 (161)
T PF05873_consen 83 -----VDKQTKEIDAQEKEAIKEAK---------EFEAESKKRIAELEKELANIES 124 (161)
T ss_dssp -------TTTTHHHHHHHHHHHCHH---------HHHHHHHHHHHHHHHHHHHHT-
T ss_pred -----hHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHc
Confidence 25677778777766422211 1334445566666555554444
No 38
>PRK09367 histidine ammonia-lyase; Provisional
Probab=30.15 E-value=86 Score=34.83 Aligned_cols=66 Identities=21% Similarity=0.251 Sum_probs=46.9
Q ss_pred CCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHH-HHhcCC
Q 008594 147 LPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRA-AVNSGE 218 (560)
Q Consensus 147 LP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~A-AVn~Ge 218 (560)
.++....|. ++.+.+..+.+++.+++.+..|++.|=-|+....+++.++.+.+ |.++|++ |++.|+
T Consensus 24 ~~v~ls~~~----~~ri~~sr~~l~~~~~~~~~iYGvnTG~G~~~~~~i~~~~~~~l--q~nLi~sha~GvG~ 90 (500)
T PRK09367 24 AKVELDPSA----RAAIAASRAVVERIVAEGRPVYGINTGFGKLASVRIAPEDLEQL--QRNLVLSHAAGVGE 90 (500)
T ss_pred CceeeCHHH----HHHHHHHHHHHHHHHhcCCcccccccCCccccCcccCHHHHHHH--HHHHHHHHHcCCCC
Confidence 444445554 34556677777788999999999988888777777777775554 5888875 666666
No 39
>PRK14145 heat shock protein GrpE; Provisional
Probab=29.80 E-value=71 Score=31.68 Aligned_cols=69 Identities=20% Similarity=0.311 Sum_probs=47.7
Q ss_pred CCCCcchhhhhcHHHHhhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHHhhhhc
Q 008594 21 VPPQPVAVERLNQAVVQQLNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEIRKVSK 100 (560)
Q Consensus 21 ~~~~~~~~e~ln~~V~~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr 100 (560)
....+..++.|... |+.++.++.+|+....|..-+||.|-+ -+-+=-+-+..|++-+ ++.++-|+++
T Consensus 40 ~~~~~~e~~~l~~~------l~~le~e~~el~d~~lR~~AEfeN~rk--R~~kE~e~~~~~a~e~-----~~~~LLpV~D 106 (196)
T PRK14145 40 QQQTVDEIEELKQK------LQQKEVEAQEYLDIAQRLKAEFENYRK--RTEKEKSEMVEYGKEQ-----VILELLPVMD 106 (196)
T ss_pred ccCchhHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH-----HHHHHHhHHh
Confidence 33344556666554 458999999999999999999999873 1112234455566554 8888888887
Q ss_pred ce
Q 008594 101 AF 102 (560)
Q Consensus 101 ~F 102 (560)
+|
T Consensus 107 nL 108 (196)
T PRK14145 107 NF 108 (196)
T ss_pred HH
Confidence 76
No 40
>PF11640 TAN: Telomere-length maintenance and DNA damage repair; InterPro: IPR021668 ATM is a large protein kinase, in humans, critical for responding to DNA double-strand breaks (DSBs). Tel1, the orthologue from budding yeast, also regulates responses to DSBs. Tel1 is important for maintaining viability and for phosphorylation of the DNA damage signal transducer kinase Rad53 (an orthologue of mammalian CHK2). In addition to functioning in the response to DSBs, numerous findings indicate that Tel1/ATM regulates telomeres. The overall domain structure of Tel1/ATM is shared by proteins of the phosphatidylinositol 3-kinase (PI3K)-related kinase (PIKK) family, but this family carries a unique and functionally important TAN sequence motif, near its N-terminal, LxxxKxxE/DRxxxL. which is conserved specifically in the Tel1/ATM subclass of the PIKKs. The TAN motif is essential for both telomere length maintenance and Tel1 action in response to DNA damage []. It is classified as an 2.7.11.1 from EC. ; GO: 0004674 protein serine/threonine kinase activity
Probab=28.83 E-value=76 Score=29.14 Aligned_cols=77 Identities=23% Similarity=0.285 Sum_probs=53.0
Q ss_pred HHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHHHHhcCCCcccCCCcCCCCCCCchhhhhcc
Q 008594 162 MIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRAAVNSGEGLRLPGDQRQMTPALPMHLVDLL 241 (560)
Q Consensus 162 ~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~AAVn~GeGLr~p~dqr~~~~~lp~hl~~~l 241 (560)
.+.+++|.+.+.|.+.++.|..+... ...|... -+.|+++=..+||-+|..|-- +++ |.--..|-.|+.|+|
T Consensus 45 ~~~~ifeaL~~~i~~Ek~~y~~~~~~---~~s~~~~-~~~RL~~~a~~lR~~ve~~~~-~~k---~kt~~~Ll~hI~~~l 116 (155)
T PF11640_consen 45 QWHSIFEALFRCIEKEKEAYSRKKSS---SASTATT-AESRLSSCASALRLFVEKSNS-RLK---RKTVKALLDHITDLL 116 (155)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCc---ccchHHH-HHHHHHHHHHHHHHHHHHHHh-hcc---cchHHHHHHHHHHHh
Confidence 57889999999999999999332111 1222222 246888888999999976643 222 333356788999999
Q ss_pred ccCCC
Q 008594 242 PVGDG 246 (560)
Q Consensus 242 ~~~dg 246 (560)
...||
T Consensus 117 ~~~~~ 121 (155)
T PF11640_consen 117 PDPDD 121 (155)
T ss_pred hCCch
Confidence 98873
No 41
>PF08656 DASH_Dad3: DASH complex subunit Dad3; InterPro: IPR013965 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=27.48 E-value=1.4e+02 Score=26.18 Aligned_cols=68 Identities=16% Similarity=0.298 Sum_probs=45.6
Q ss_pred hhhhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHH
Q 008594 75 QDILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIE 154 (560)
Q Consensus 75 pDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiE 154 (560)
.+||+.|.-++..|.+|.++++.+. +.++++. . ++.++..|
T Consensus 6 q~VL~eY~~La~~L~~L~~~l~~L~----------~~~~~~~------------------~----lL~~LR~L------- 46 (78)
T PF08656_consen 6 QEVLDEYQRLADNLKTLSDTLKDLN----------SSNSPSE------------------E----LLDGLREL------- 46 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----------ccCCChH------------------H----HHHHHHHH-------
Confidence 5799999999999999999999871 0111100 1 22222222
Q ss_pred HHHHHHHHHHHHHH-hHHHHHHHHHHhhhh
Q 008594 155 KLKSRIDMIGAACE-SAEKVLADTRKAYCF 183 (560)
Q Consensus 155 klqKRId~iNkacE-~aekvIa~aRk~~e~ 183 (560)
.+.|-.+.-.+. +|+.+|..-..+|+.
T Consensus 47 --E~K~glV~TL~KaSVYslvlq~~~~~e~ 74 (78)
T PF08656_consen 47 --ERKIGLVYTLFKASVYSLVLQQEIDNEE 74 (78)
T ss_pred --HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 556666666665 788999888887764
No 42
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=26.99 E-value=1.8e+02 Score=32.46 Aligned_cols=23 Identities=22% Similarity=0.276 Sum_probs=11.8
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHh
Q 008594 39 LNLEAVKTRAISLFKAISRILED 61 (560)
Q Consensus 39 lNLEAVraRA~DLkkaIsriI~~ 61 (560)
..++.+..++.+|.+.+.++...
T Consensus 93 ~~~~~~~~~i~~l~~~~~~L~~~ 115 (646)
T PRK05771 93 EELEKIEKEIKELEEEISELENE 115 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555444443
No 43
>TIGR03832 Tyr_2_3_mutase tyrosine 2,3-aminomutase. Members of this protein family are tyrosine 2,3-aminomutase. It is variable from member to member as to whether the (R)-beta-Tyr or (S)-beta-Tyr is the preferred product from L-Tyr. This enzyme tends to occur in secondary metabolite biosynthesis systems, as in the production of chondramides in Chondromyces crocatus.
Probab=26.69 E-value=97 Score=34.55 Aligned_cols=57 Identities=21% Similarity=0.283 Sum_probs=42.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHH-HHhcCC
Q 008594 160 IDMIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRA-AVNSGE 218 (560)
Q Consensus 160 Id~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~A-AVn~Ge 218 (560)
++.+.+..+-+++.+++.+-.|+..|=-|...-.+++.++.++. |.++|++ |++.|+
T Consensus 28 ~~ri~~sr~~l~~~~~~g~~iYGvnTGfG~~~d~~i~~~~~~~l--Q~nLi~sha~GvG~ 85 (507)
T TIGR03832 28 LAKAAKSRAIFEGIAEQNVPIYGVTTGYGEMIYMLVDKEHEVEL--QTNLVRSHSAGVGP 85 (507)
T ss_pred HHHHHHHHHHHHHHHhcCCceeeecCCCCCccCccCCHHHHHHH--HHHHHHHHhcCCCC
Confidence 34556677777789999999999988888766677788886655 4888875 555554
No 44
>KOG1412 consensus Aspartate aminotransferase/Glutamic oxaloacetic transaminase AAT2/GOT1 [Amino acid transport and metabolism]
Probab=25.90 E-value=91 Score=34.02 Aligned_cols=61 Identities=13% Similarity=0.210 Sum_probs=48.7
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhH-HHHhhhhcceEeeec
Q 008594 39 LNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIV-DEIRKVSKAFVVHPK 107 (560)
Q Consensus 39 lNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLv-EEIkpvLr~FvVlPl 107 (560)
-++..+-+|+...|+++.+-|.+|.+- .+|+-|.++..|.| +++|. ..++-+.+++.||-+
T Consensus 316 ~sik~MssRI~~MR~aLrd~L~aL~TP------GtWDHI~~QiGMFS--yTGLtp~qV~~li~~h~vyLl 377 (410)
T KOG1412|consen 316 QSIKTMSSRIKKMRTALRDHLVALKTP------GTWDHITQQIGMFS--YTGLTPAQVDHLIENHKVYLL 377 (410)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCC------CcHHHHHhhcccee--ecCCCHHHHHHHHHhceEEEe
Confidence 456688999999999999888888884 49999999999999 77776 455556677777643
No 45
>COG1937 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.80 E-value=1.4e+02 Score=26.48 Aligned_cols=50 Identities=16% Similarity=0.151 Sum_probs=42.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHH
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEI 95 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEI 95 (560)
..+.+++|+.-++.-|..|..-+|-.. --.|||-+++=|.+-|.++..+|
T Consensus 7 ~kkkl~~RlrRi~GQv~gI~rMlEe~~------~C~dVl~QIaAVr~Al~~~~~~v 56 (89)
T COG1937 7 EKKKLLNRLRRIEGQVRGIERMLEEDR------DCIDVLQQIAAVRGALNGLMREV 56 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCC------cHHHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999999999988888733 56899999999999998888554
No 46
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.52 E-value=1.6e+02 Score=30.09 Aligned_cols=57 Identities=25% Similarity=0.350 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh------ccCCCCCCCCccChhHHHHHHHHHHHH
Q 008594 152 QIEKLKSRIDMIGAACESAEKVLADTRKAYCF------GTRQGPQILPTLDKGQALKIQEQENLL 210 (560)
Q Consensus 152 qiEklqKRId~iNkacE~aekvIa~aRk~~e~------gtRqGp~~~pT~dkadaaki~eqt~lL 210 (560)
....|..-|+-+|+.-+++++.|++.--+.+- -+|.| ++.++-|..|-++..|.+.+
T Consensus 13 p~psL~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k~R~g--paq~~~KqrAlrVLkQKK~y 75 (218)
T KOG1655|consen 13 PPPSLQDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKKTRPG--PAQNALKQRALRVLKQKKMY 75 (218)
T ss_pred CChhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCC--cchhHHHHHHHHHHHHHHHH
Confidence 44567778889999999999888766555544 78988 77788888888887765544
No 47
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=25.22 E-value=3.7e+02 Score=23.55 Aligned_cols=30 Identities=33% Similarity=0.351 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHhhh
Q 008594 153 IEKLKSRIDMIGAACESAEKVLADTRKAYC 182 (560)
Q Consensus 153 iEklqKRId~iNkacE~aekvIa~aRk~~e 182 (560)
.+-+.+||+.+++..+..++.|.+.++.+.
T Consensus 88 ~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~ 117 (126)
T TIGR00293 88 IEFLKKRIEELEKAIEKLQEALAELASRAQ 117 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566777777777766666666666554
No 48
>PF10444 Nbl1_Borealin_N: Nbl1 / Borealin N terminal; InterPro: IPR018851 This entry represents the N-terminal domain of borealin, and is also found in the N-terminal-Borealin-like (NBL; YHR199C-A) protein from Saccharomyces cerevisiae (Baker's yeast). NBL is a subunit of the conserved chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), which regulates mitotic chromosome segregation. It is not required for the kinase activity of the complex and it mediates the interaction of Sli15p and Bir1p [].; PDB: 2RAW_B 2RAX_Y 2QFA_B.
Probab=25.06 E-value=79 Score=25.34 Aligned_cols=43 Identities=21% Similarity=0.332 Sum_probs=29.5
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHHhhhhhcccC--------CCCChhhhhhhh
Q 008594 38 QLNLEAVKTRAISLFKAISRILEDFDAYARTN--------TTPKWQDILGQY 81 (560)
Q Consensus 38 QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN--------~t~kWpDVLdqF 81 (560)
..++| |..|+..|+.....++.+++..++.. -.-+|-||+.+|
T Consensus 9 ~fd~E-v~~r~~~lr~~~~~~~~~~~~~~~~~l~riP~~vR~m~~~d~~~~y 59 (59)
T PF10444_consen 9 NFDLE-VEERIRRLRAQYENLLQSLRNRLEMELLRIPKAVRKMTMRDFLEKY 59 (59)
T ss_dssp HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-HHHHTSBHHHHHH--
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHhCCHHHHhhcC
Confidence 34454 77888888888888888888776511 256888888776
No 49
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=25.04 E-value=89 Score=35.99 Aligned_cols=127 Identities=12% Similarity=0.099 Sum_probs=63.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHHhhhhhc---ccC-C------CCChhhhhhhhhhcchhhhhhHHHHhhhhcceEeeeccC
Q 008594 40 NLEAVKTRAISLFKAISRILEDFDAYA---RTN-T------TPKWQDILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNV 109 (560)
Q Consensus 40 NLEAVraRA~DLkkaIsriI~~LE~e~---~tN-~------t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnV 109 (560)
+|=++.+|+.=|+.+|+=+=.+|+... +.+ + .-+|..+.++|..+-.++..|-+|+..-=- +++=+++
T Consensus 200 ~ll~L~arm~PLraSLdfLP~Ri~~F~~ra~~~fp~a~e~L~~r~~~L~~k~~~L~~e~~~LK~ELiedRW--~~vFr~l 277 (683)
T PF08580_consen 200 SLLALFARMQPLRASLDFLPMRIEEFQSRAESIFPSACEELEDRYERLEKKWKKLEKEAESLKKELIEDRW--NIVFRNL 277 (683)
T ss_pred HHHHHHhccchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH--HHHHHHH
Confidence 455777777777777744333333221 100 0 124555555555555555555555433111 1111222
Q ss_pred CCCCCCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhh
Q 008594 110 NAENATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAY 181 (560)
Q Consensus 110 naeNa~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~ 181 (560)
+-+ + .|..=++|.....+.+..+.++..- ..+++.|+|+.+-+.|.|--.+|-++|+.=
T Consensus 278 ~~q--------~-~~m~esver~~~kl~~~~~~~~~~~----~~~~l~~~i~s~~~k~~~~~~~I~ka~~~s 336 (683)
T PF08580_consen 278 GRQ--------A-QKMCESVERSLSKLQEAIDSGIHLD----NPSKLSKQIESKEKKKSHYFPAIYKARVLS 336 (683)
T ss_pred HHH--------H-HHHHHHHHHHHHHhhcccccccccc----chHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence 211 0 1112233333333333322222222 457788999999999998888887776654
No 50
>PRK08776 cystathionine gamma-synthase; Provisional
Probab=24.49 E-value=1.9e+02 Score=30.43 Aligned_cols=92 Identities=16% Similarity=0.195 Sum_probs=54.7
Q ss_pred hcchhhhhhHHHHhhhhcceEeeeccCC-CCCCCcc--hhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHH
Q 008594 83 MVNLELFNIVDEIRKVSKAFVVHPKNVN-AENATIL--PVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSR 159 (560)
Q Consensus 83 VIS~QL~nLvEEIkpvLr~FvVlPlnVn-aeNa~IV--PdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKR 159 (560)
|||-+|..=.++.++.++++-+..+-+| .+..++| |......-+++-|-+..- +..+... ++..+|....-
T Consensus 307 ~~s~~~~~~~~~~~~f~~~l~l~~~~~s~G~~~sl~~~p~~~~h~~~~~~~~~~~g----i~~~liR--~svGlE~~~dl 380 (405)
T PRK08776 307 MLSFELEGGEAAVRAFVDGLRYFTLAESLGGVESLIAHPASMTHAAMTAEARAAAG----ISDGLLR--LSVGIESAEDL 380 (405)
T ss_pred EEEEEEcCCHHHHHHHHHhCCcceEccCCCCCceEEECCcccccccCCHHHHHhcC----CCCCeEE--EEeCcCCHHHH
Confidence 7777775435777889999888888887 4455555 655554444431111111 2222333 35566676777
Q ss_pred HHHHHHHHHhHHHHHH-HHHHh
Q 008594 160 IDMIGAACESAEKVLA-DTRKA 180 (560)
Q Consensus 160 Id~iNkacE~aekvIa-~aRk~ 180 (560)
|+-|..+.+.++.++. .+||.
T Consensus 381 i~dl~~al~~~~~~~~~~~~~~ 402 (405)
T PRK08776 381 LIDLRAGLARAEAVLTAAARKK 402 (405)
T ss_pred HHHHHHHHHHhHHHHHHHhhhh
Confidence 7777777777776664 44553
No 51
>cd07606 BAR_SFC_plant The Bin/Amphiphysin/Rvs (BAR) domain of the plant protein SCARFACE (SFC). BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. The plant protein SCARFACE (SFC), also called VAscular Network 3 (VAN3), is a plant ACAP (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein), an Arf GTPase Activating Protein (GAP) that plays a role in the trafficking of auxin efflux regulators from the plasma membrane to the endosome. It is required for the normal vein patterning in leaves. SCF contains an N-terminal BAR domain, followed by a Pleckstrin Homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=24.44 E-value=2.2e+02 Score=28.17 Aligned_cols=29 Identities=10% Similarity=0.281 Sum_probs=25.1
Q ss_pred hhcHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 008594 38 QLNLEAVKTRAISLFKAISRILEDFDAYA 66 (560)
Q Consensus 38 QlNLEAVraRA~DLkkaIsriI~~LE~e~ 66 (560)
+-+.+.+++|++-|.|.-.+++..+..++
T Consensus 7 E~~~~~l~~~~~Kl~K~~~~~~~a~~~~~ 35 (202)
T cd07606 7 EGSADELRDRSLKLYKGCRKYRDALGEAY 35 (202)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677999999999999999988888876
No 52
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=24.13 E-value=3.2e+02 Score=27.84 Aligned_cols=28 Identities=7% Similarity=0.089 Sum_probs=24.2
Q ss_pred hcHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 008594 39 LNLEAVKTRAISLFKAISRILEDFDAYA 66 (560)
Q Consensus 39 lNLEAVraRA~DLkkaIsriI~~LE~e~ 66 (560)
-.|+.+.+++.+.+..|.++..+|+...
T Consensus 6 ~~l~~l~~~~~~~~~L~~kLE~DL~~~~ 33 (248)
T PF08172_consen 6 KELSELEAKLEEQKELNAKLENDLAKVQ 33 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4566899999999999999999998865
No 53
>PF15601 Imm42: Immunity protein 42
Probab=24.08 E-value=2.3e+02 Score=26.83 Aligned_cols=55 Identities=24% Similarity=0.196 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhh--hh------hHHHHhhhhcceEeeeccC
Q 008594 48 AISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLEL--FN------IVDEIRKVSKAFVVHPKNV 109 (560)
Q Consensus 48 A~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL--~n------LvEEIkpvLr~FvVlPlnV 109 (560)
..+|...-+-|.+.||.+. .-.+||-+++.+ -.+.| .. .+++|+..|+.+- |.-|
T Consensus 15 ~dfl~sFFsti~~~lE~~~---wGskfP~Lm~~L--Y~g~L~~~~~~~A~~eL~~I~~~l~~~~--p~~V 77 (134)
T PF15601_consen 15 PDFLHSFFSTISYRLENEG---WGSKFPLLMNEL--YRGYLRYEELEKALKELEEIRKELKKFP--PSEV 77 (134)
T ss_pred HHHHHHHHHHHHHHhhccC---CCCcchHHHHHH--HcCCCCHHHHHHHHHHHHHHHHHHhcCC--hhhh
Confidence 4566667777788888876 566999999987 33333 22 2366677776664 4444
No 54
>PF10732 DUF2524: Protein of unknown function (DUF2524); InterPro: IPR019668 This entry represents proteins with unknown function, and appear to be restricted to the Bacillaceae.
Probab=23.84 E-value=1.3e+02 Score=26.95 Aligned_cols=38 Identities=13% Similarity=0.121 Sum_probs=30.4
Q ss_pred HHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhH
Q 008594 162 MIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQ 199 (560)
Q Consensus 162 ~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkad 199 (560)
.+...++.++++|..+.|-|+.|.|++.--.--.+.|+
T Consensus 6 s~~~~lq~~e~~i~~a~eQ~~~~~rqehynd~eYt~Aq 43 (84)
T PF10732_consen 6 SVDEFLQQCEQAIRFAQEQFEEGSRQEHYNDEEYTEAQ 43 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccchHHHHHHH
Confidence 45667888999999999999999999965555555555
No 55
>cd00332 PAL-HAL Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL). PAL and HAL are members of the Lyase class I_like superfamily of enzymes that, catalyze similar beta-elimination reactions and are active as homotetramers. The four active sites of the homotetrameric enzyme are each formed by residues from three different subunits. PAL, present in plants and fungi, catalyzes the conversion of L-phenylalanine to E-cinnamic acid. HAL, found in several bacteria and animals, catalyzes the conversion of L-histidine to E-urocanic acid. Both PAL and HAL contain the cofactor 3, 5-dihydro-5-methylidene-4H-imidazol-4-one (MIO) which is formed by autocatalytic excision/cyclization of the internal tripeptide, Ala-Ser-Gly. PAL is being explored as enzyme substitution therapy for Phenylketonuria (PKU), a disorder which involves an inability to metabolize phenylalanine. HAL failure in humans results in the disease histidinemia.
Probab=23.72 E-value=1.3e+02 Score=33.08 Aligned_cols=57 Identities=25% Similarity=0.316 Sum_probs=43.6
Q ss_pred HHHHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHH-HHhcCC
Q 008594 160 IDMIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRA-AVNSGE 218 (560)
Q Consensus 160 Id~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~A-AVn~Ge 218 (560)
++.+++..+.+++.+++.+..|++-|=-|+....+++.++.+..+ .++|++ |++.|+
T Consensus 25 ~~ri~~s~~~l~~~~~~~~~iYGvnTG~G~~~d~~i~~~~~~~~q--~nLi~sha~GvG~ 82 (444)
T cd00332 25 RERVDASRAALEEAAAEGKPVYGVNTGFGALADVRIDDADLRALQ--RNLLRSHAAGVGP 82 (444)
T ss_pred HHHHHHHHHHHHHHHhcCCceeeeCCCCCCcCCcccCHHHHHHHH--HHHHHHHhcCCCC
Confidence 455667777788888889999999888887777777887766665 888775 566665
No 56
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=23.19 E-value=4.8e+02 Score=25.59 Aligned_cols=65 Identities=18% Similarity=0.193 Sum_probs=47.6
Q ss_pred hhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccC---CCCCCCCccChhH
Q 008594 132 DDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTR---QGPQILPTLDKGQ 199 (560)
Q Consensus 132 ee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtR---qGp~~~pT~dkad 199 (560)
+...+++.+......| ..+++.+++++.|.++++.+-+.|.+.|++.+.=.. ..+.+....+..+
T Consensus 15 ~~~~~i~~l~~al~~L---~~~~~~~~~~~~~~~~i~~aP~~~~~l~~~l~~l~~~~~~~~~~~~~~s~~e 82 (240)
T PF12795_consen 15 EQKALIQDLQQALSFL---DEIKKQKKRAAEYQKQIDQAPKEIRELQKELEALKSQDAPSKEILANLSLEE 82 (240)
T ss_pred hhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhccccccccCcccCCHHH
Confidence 3455566666666666 789999999999999999999999999999987322 2334444455444
No 57
>TIGR01225 hutH histidine ammonia-lyase. This enzyme deaminates histidine to urocanic acid, the first step in histidine degradation. It is closely related to phenylalanine ammonia-lyase.
Probab=22.92 E-value=1.2e+02 Score=33.86 Aligned_cols=56 Identities=21% Similarity=0.388 Sum_probs=41.3
Q ss_pred HHHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHH-HHhcCC
Q 008594 161 DMIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRA-AVNSGE 218 (560)
Q Consensus 161 d~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~A-AVn~Ge 218 (560)
+.+.+..+.+++++++.+..|+..|=-|+....+++.++.++++ .+||++ |++.|+
T Consensus 31 ~~i~~s~~~l~~~~~~g~~iYGvnTGfG~~~d~~i~~~~~~~lq--~nLi~sha~GvG~ 87 (506)
T TIGR01225 31 EAVAKSRAAIEQIIAGDETVYGINTGFGKLASTRIDSEDLAELQ--RNLVRSHAAGVGD 87 (506)
T ss_pred HHHHHHHHHHHHHHhcCCceeeecCCCCCccCcccCHHHHHHHH--HHHHHHHhcCCCC
Confidence 44555666677788899999999888887766777877765554 888875 566654
No 58
>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=22.59 E-value=2e+02 Score=30.31 Aligned_cols=151 Identities=17% Similarity=0.191 Sum_probs=75.4
Q ss_pred HHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHHhhhhcceE---eeeccCCCCCCCcchhhhhccc-
Q 008594 50 SLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEIRKVSKAFV---VHPKNVNAENATILPVMLSSKL- 125 (560)
Q Consensus 50 DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~Fv---VlPlnVnaeNa~IVPdmLRTKL- 125 (560)
|+.+.|..+...|..++.+++++.=+|= +..+-.||.+++.|+.=+++.++ |-.+..+.+|.-.|=.||.|-|
T Consensus 32 ~f~~L~~wL~~EL~~l~~leE~v~~~dd---~~~f~~Els~~L~El~CPy~~L~~G~~~~rl~~~~~~l~LL~fL~sELq 108 (318)
T PF10239_consen 32 EFRELCAWLASELKTLCKLEESVSSPDD---AESFLLELSGFLKELGCPYSALTSGDISDRLQSKEDRLLLLEFLCSELQ 108 (318)
T ss_pred HHHHHHHHHHHHHHHHhccccccCCCch---HHHHHHHHHHHHHhcCCCcHHHcCCcchhhhcCHHHHHHHHHHHHHHHH
Confidence 5666677777777777766666663332 22344566666666654444333 2455566666667777776532
Q ss_pred ----------Cc-chhh-hhhHHHHHHHh--hcCCCCCc-hhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCCCC
Q 008594 126 ----------LP-EMEI-DDNSKREQLLL--GMQNLPIP-SQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQGPQ 190 (560)
Q Consensus 126 ----------lP-EmEt-ee~q~~~ql~~--kA~nLP~~-~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqGp~ 190 (560)
.+ +.+. ++......+.. .+.++|.+ ..+.. . ..++++...+++++++. ..+..-.|-
T Consensus 109 aarl~~~k~~~~~~~~~~~~s~~~~~l~~i~~~L~l~~p~~~i~~-~---~lf~~i~~ki~~~L~~l----p~~~~~~PL 180 (318)
T PF10239_consen 109 AARLLAKKKPEEPEQEEEKESEVAQELKAICQALGLPKPPPNITA-S---QLFSKIEAKIEELLSKL----PPGHMGKPL 180 (318)
T ss_pred HHHHHHhccCCccccccccccHHHHHHHHHHHHhCCCCCCCCCCH-H---HHHHHHHHHHHHHHHhc----CccccCCCC
Confidence 11 1111 02222222222 23444333 11111 1 34455555555555432 223344455
Q ss_pred CCCccChhHHHHHHHHHHHHH
Q 008594 191 ILPTLDKGQALKIQEQENLLR 211 (560)
Q Consensus 191 ~~pT~dkadaaki~eqt~lL~ 211 (560)
....++.++-++|++-...|.
T Consensus 181 l~~~L~~~Qw~~Le~i~~~L~ 201 (318)
T PF10239_consen 181 LKKSLTDEQWEKLEKINQALS 201 (318)
T ss_pred cCCCCCHHHHHHHHHHHHHHH
Confidence 555677777777766555554
No 59
>PF15368 BioT2: Spermatogenesis family BioT2
Probab=21.63 E-value=2.3e+02 Score=28.16 Aligned_cols=64 Identities=22% Similarity=0.310 Sum_probs=45.9
Q ss_pred CCcchhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCC
Q 008594 114 ATILPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQG 188 (560)
Q Consensus 114 a~IVPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqG 188 (560)
-.|=|+-||+ -|-.|+ ++.-|.-+|... ++.+-..-++|.++..|+.-|++..-|+|+...--|
T Consensus 46 dkiEpMVLrs--PPTgES--------ivryALPIPssk-tkell~~de~irkitkhLkmvVstLEeTyG~~~~~g 109 (170)
T PF15368_consen 46 DKIEPMVLRS--PPTGES--------IVRYALPIPSSK-TKELLSEDEMIRKITKHLKMVVSTLEETYGLDIQNG 109 (170)
T ss_pred cccccccccC--CCCchh--------HHHhhcCCCchh-hhhhhhHHHHHHHHHHHHHHHHHHHHHHhCcccccc
Confidence 3567888888 444544 333355554443 444567788999999999999999999999976666
No 60
>PF05546 She9_MDM33: She9 / Mdm33 family; InterPro: IPR008839 Members of this family are mitochondrial inner membrane proteins with a role in inner mitochondrial membrane organisation and biogenesis []. The yeast Mdm33 protein assembles into an oligomeric complex in the inner membrane where it performs homotypic protein-protein interactions. It has been suggested that Mdm33 plays a distinct role, possibly involved in fission of the mitochondrial inner membrane [].
Probab=21.50 E-value=1.5e+02 Score=30.02 Aligned_cols=41 Identities=27% Similarity=0.356 Sum_probs=34.8
Q ss_pred hcCCCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh
Q 008594 143 GMQNLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCF 183 (560)
Q Consensus 143 kA~nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~ 183 (560)
+.+.+.=-..||+|++.|+.....++.+-+-+.++|++|..
T Consensus 24 ~lNd~TGYs~Ie~LK~~i~~~E~~l~~~r~~~~~aK~~Y~~ 64 (207)
T PF05546_consen 24 ALNDVTGYSEIEKLKKSIEELEDELEAARQEVREAKAAYDD 64 (207)
T ss_pred HHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344335689999999999999999999999999999987
No 61
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=21.39 E-value=1.1e+02 Score=31.59 Aligned_cols=98 Identities=16% Similarity=0.303 Sum_probs=53.4
Q ss_pred HHHHHHHHHhhhhhcccCCCC-Chhhhhhhhhhcchh-hhhhH--HHHhhhhcceEeeeccCCCCCCCcchhhhhcccCc
Q 008594 52 FKAISRILEDFDAYARTNTTP-KWQDILGQYSMVNLE-LFNIV--DEIRKVSKAFVVHPKNVNAENATILPVMLSSKLLP 127 (560)
Q Consensus 52 kkaIsriI~~LE~e~~tN~t~-kWpDVLdqFSVIS~Q-L~nLv--EEIkpvLr~FvVlPlnVnaeNa~IVPdmLRTKLlP 127 (560)
.+++.++..+|.-..+.++++ .|.+|.|-+.-+.-+ +..++ +|-..+...+ +..-+.
T Consensus 190 ~~a~~~~~~~l~~~~~~g~~~~s~re~~d~Wi~~ae~~~~~~~~S~ef~~~~g~~------------------~~a~m~- 250 (293)
T PF09712_consen 190 MKAFERMMEKLQERAEEGEQIKSWREFYDIWIDAAEEAYEELFRSEEFAQAYGQL------------------VNALMD- 250 (293)
T ss_pred HHHHHHHHHHHHHhhccCCCCcCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH------------------HHHHHH-
Confidence 677778888884333233444 588888776544322 22222 3333333222 211000
Q ss_pred chhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHhH
Q 008594 128 EMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRIDMIGAACESA 170 (560)
Q Consensus 128 EmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId~iNkacE~a 170 (560)
+-....++.+. .-+..|||-...+|.+.|||..|.+-+..+
T Consensus 251 -~r~~~~~~~e~-~L~~l~lPTr~evd~l~k~l~eLrre~r~L 291 (293)
T PF09712_consen 251 -LRKQQQEVVEE-YLRSLNLPTRSEVDELYKRLHELRREVRAL 291 (293)
T ss_pred -HHHHHHHHHHH-HHHHCCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 00111222222 234468999999999999999998877654
No 62
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=21.20 E-value=9e+02 Score=25.61 Aligned_cols=103 Identities=17% Similarity=0.230 Sum_probs=64.2
Q ss_pred hcchhhhhhHHHHhhhhcceEeeeccCCCCCCCc-chhhhhcccCcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHHH
Q 008594 83 MVNLELFNIVDEIRKVSKAFVVHPKNVNAENATI-LPVMLSSKLLPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRID 161 (560)
Q Consensus 83 VIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~I-VPdmLRTKLlPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRId 161 (560)
+|-..+..+...|+.---.+||+--.|+|..--. +|++++.+=.|-......+.+-....+-...-+... +--...-.
T Consensus 132 ~vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkktraVVAIt-dV~~EDk~ 210 (266)
T PTZ00365 132 MLKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQKTAAVVAID-NVRKEDQA 210 (266)
T ss_pred HHHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHHHHHHHhCCCCceEEEec-ccCHHHHH
Confidence 4556777778888887788999999988775544 599999999998888877743333332110000000 11112334
Q ss_pred HHHHHHHhHHHHH---HHHHHhhhhccC
Q 008594 162 MIGAACESAEKVL---ADTRKAYCFGTR 186 (560)
Q Consensus 162 ~iNkacE~aekvI---a~aRk~~e~gtR 186 (560)
.++++|+.+...+ .+.|+.|+-|..
T Consensus 211 ~l~~lv~~~~~~~nd~~e~rr~wGG~~~ 238 (266)
T PTZ00365 211 EFDNLCKNFRAMFNDNSELRRRWGGGIM 238 (266)
T ss_pred HHHHHHHHHHHhccccHhhhhhcCCCcc
Confidence 5666666666555 577888976543
No 63
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=21.17 E-value=2.2e+02 Score=27.98 Aligned_cols=36 Identities=17% Similarity=0.357 Sum_probs=25.3
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhh
Q 008594 146 NLPIPSQIEKLKSRIDMIGAACESAEKVLADTRKAY 181 (560)
Q Consensus 146 nLP~~~qiEklqKRId~iNkacE~aekvIa~aRk~~ 181 (560)
.-|.-..++.+.|+||++|.-...+-...-+.-++|
T Consensus 79 ~dP~RkEv~~vRkkID~vNreLkpl~~~cqKKEkEy 114 (159)
T PF04949_consen 79 ADPMRKEVEMVRKKIDSVNRELKPLGQSCQKKEKEY 114 (159)
T ss_pred ccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 348889999999999999987555544444444444
No 64
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=20.83 E-value=2.1e+02 Score=23.24 Aligned_cols=29 Identities=17% Similarity=0.187 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHhhh
Q 008594 154 EKLKSRIDMIGAACESAEKVLADTRKAYC 182 (560)
Q Consensus 154 EklqKRId~iNkacE~aekvIa~aRk~~e 182 (560)
+.+...|+...+.++.+++.+..+|+.|-
T Consensus 55 ~~l~~~i~~~~~~~~~~~~~~~~~r~~l~ 83 (123)
T PF02050_consen 55 SALEQAIQQQQQELERLEQEVEQAREELQ 83 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555555555553
No 65
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=20.51 E-value=2.2e+02 Score=33.96 Aligned_cols=43 Identities=23% Similarity=0.411 Sum_probs=34.8
Q ss_pred ChhhhhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCCcchhhhhcccCcchhhh
Q 008594 73 KWQDILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENATILPVMLSSKLLPEMEID 132 (560)
Q Consensus 73 kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~IVPdmLRTKLlPEmEte 132 (560)
.|.++|+.|.+-..+....+.|++.- .+|.|++....+.|-+.
T Consensus 417 ~W~~mi~ky~L~~n~WL~~LY~~Rek-----------------WapaY~k~~F~agm~sT 459 (846)
T PLN03097 417 RWWKILDRFELKEDEWMQSLYEDRKQ-----------------WVPTYMRDAFLAGMSTV 459 (846)
T ss_pred HHHHHHHhhcccccHHHHHHHHhHhh-----------------hhHHHhcccccCCcccc
Confidence 89999999999988887777777653 48889998888888443
No 66
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=20.49 E-value=1.1e+02 Score=28.52 Aligned_cols=26 Identities=31% Similarity=0.489 Sum_probs=22.9
Q ss_pred CCCCchhHHHHHHHHHHHHHHHHhHH
Q 008594 146 NLPIPSQIEKLKSRIDMIGAACESAE 171 (560)
Q Consensus 146 nLP~~~qiEklqKRId~iNkacE~ae 171 (560)
++|-...+|+|.+|||.|++.++.+.
T Consensus 104 gvPs~~dv~~L~~rId~L~~~v~~l~ 129 (132)
T PF05597_consen 104 GVPSRKDVEALSARIDQLTAQVERLA 129 (132)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 57888899999999999999988764
No 67
>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences. Exchangeable apolipoproteins constitute a functionally important family of proteins that play critical roles in lipid transport and lipoprotein metabolism. Apolipophorin III (apoLp-III) is a prototypical exchangeable apolipoprotein found in many insect species that functions in transport of diacylglycerol (DAG) from the fat body lipid storage depot to flight muscles in the adult life stage [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0005576 extracellular region; PDB: 1EQ1_A.
Probab=20.45 E-value=1.1e+02 Score=29.36 Aligned_cols=52 Identities=27% Similarity=0.353 Sum_probs=30.3
Q ss_pred CcchhhhhhHHHHHHHhhcCCCCCchhHHHHHHHH----------------HHHHHHHHhHHHHHHHHHH
Q 008594 126 LPEMEIDDNSKREQLLLGMQNLPIPSQIEKLKSRI----------------DMIGAACESAEKVLADTRK 179 (560)
Q Consensus 126 lPEmEtee~q~~~ql~~kA~nLP~~~qiEklqKRI----------------d~iNkacE~aekvIa~aRk 179 (560)
-||+|....++++.+-++..+| -...+++.+.| .+|..++++++++.....+
T Consensus 83 ~Pev~~qa~~l~e~lQ~~vq~l--~~E~qk~~k~v~~~~~~~~e~l~~~~K~~~D~~~k~~~~~~~~l~~ 150 (155)
T PF07464_consen 83 NPEVEKQANELQEKLQSAVQSL--VQESQKLAKEVSENSEGANEKLQPAIKQAYDDAVKAAQKVQKQLHE 150 (155)
T ss_dssp SHHHHHT-SSSHHHHHHHHHHH--HHHHHHHHHHHHS---SS-GGGHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888888888888887776655 33333433333 3455555555555554443
No 68
>smart00721 BAR BAR domain.
Probab=20.36 E-value=2.3e+02 Score=26.42 Aligned_cols=26 Identities=19% Similarity=0.266 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhc
Q 008594 41 LEAVKTRAISLFKAISRILEDFDAYA 66 (560)
Q Consensus 41 LEAVraRA~DLkkaIsriI~~LE~e~ 66 (560)
++.+..|++++++.+.+|+.+.+.|-
T Consensus 29 f~~le~~~~~~~~~~~kl~k~~~~y~ 54 (239)
T smart00721 29 FEELERRFDTTEAEIEKLQKDTKLYL 54 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 55666666777777776666666664
No 69
>PRK10869 recombination and repair protein; Provisional
Probab=20.30 E-value=3.3e+02 Score=30.33 Aligned_cols=34 Identities=18% Similarity=0.297 Sum_probs=17.1
Q ss_pred ChhhhhhhhhhcchhhhhhHHHHhhhhcceEeee
Q 008594 73 KWQDILGQYSMVNLELFNIVDEIRKVSKAFVVHP 106 (560)
Q Consensus 73 kWpDVLdqFSVIS~QL~nLvEEIkpvLr~FvVlP 106 (560)
.+.++++...=+.-+|..+.+|+...+..+.+-|
T Consensus 262 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~dp 295 (553)
T PRK10869 262 KLSGVLDMLEEALIQIQEASDELRHYLDRLDLDP 295 (553)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCH
Confidence 4445555555555555555555555555443333
No 70
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=20.27 E-value=1.3e+02 Score=31.15 Aligned_cols=107 Identities=15% Similarity=0.161 Sum_probs=66.6
Q ss_pred HHHHHHHHHhhhhhcccCCCCChh--hhhhhhhhcchhhhhhHHHHhhhhcceEeeeccCCCCCCCcchhhhhcccCcch
Q 008594 52 FKAISRILEDFDAYARTNTTPKWQ--DILGQYSMVNLELFNIVDEIRKVSKAFVVHPKNVNAENATILPVMLSSKLLPEM 129 (560)
Q Consensus 52 kkaIsriI~~LE~e~~tN~t~kWp--DVLdqFSVIS~QL~nLvEEIkpvLr~FvVlPlnVnaeNa~IVPdmLRTKLlPEm 129 (560)
|.++.|.|..||..-. +.+... ++++.. ++..+.+++.=|..+|-++|-.---||-+.-|+..+-..--|.
T Consensus 41 KSTlLRclN~LE~~~~--G~I~i~g~~~~~~~-----~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~v~~~~k~eA 113 (240)
T COG1126 41 KSTLLRCLNGLEEPDS--GSITVDGEDVGDKK-----DILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVKVKKLSKAEA 113 (240)
T ss_pred HHHHHHHHHCCcCCCC--ceEEECCEeccchh-----hHHHHHHhcCeecccccccccchHHHHHHhhhHHHcCCCHHHH
Confidence 6788899999998642 332222 232222 6777888999999999999988767888888887766555566
Q ss_pred hhhhhHHHHHH--HhhcCCCCCchhHHHHHHHHHHHHHH
Q 008594 130 EIDDNSKREQL--LLGMQNLPIPSQIEKLKSRIDMIGAA 166 (560)
Q Consensus 130 Etee~q~~~ql--~~kA~nLP~~~qiEklqKRId~iNka 166 (560)
|.+..++++.+ .+++..-|-...=-. +.|++.-.+.
T Consensus 114 ~~~A~~lL~~VGL~~ka~~yP~qLSGGQ-qQRVAIARAL 151 (240)
T COG1126 114 REKALELLEKVGLADKADAYPAQLSGGQ-QQRVAIARAL 151 (240)
T ss_pred HHHHHHHHHHcCchhhhhhCccccCcHH-HHHHHHHHHH
Confidence 65555544431 233333333222222 4566665554
No 71
>PRK14154 heat shock protein GrpE; Provisional
Probab=20.17 E-value=86 Score=31.45 Aligned_cols=64 Identities=9% Similarity=0.176 Sum_probs=44.2
Q ss_pred chhhhhcHHHHhhhcHHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcchhhhhhHHHHhhhhcce
Q 008594 26 VAVERLNQAVVQQLNLEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNLELFNIVDEIRKVSKAF 102 (560)
Q Consensus 26 ~~~e~ln~~V~~QlNLEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~QL~nLvEEIkpvLr~F 102 (560)
|+++.|... |+.++.++.+|+....|+.-+||.|-+ -+-+=-.-+..|++-+ +++++-|++++|
T Consensus 52 ~~~~~l~~e------l~~le~e~~elkd~~lRl~ADfeNyRK--R~~kE~e~~~~~a~e~-----~~~~LLpVlDnL 115 (208)
T PRK14154 52 PSREKLEGQ------LTRMERKVDEYKTQYLRAQAEMDNLRK--RIEREKADIIKFGSKQ-----LITDLLPVADSL 115 (208)
T ss_pred cchhhHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH-----HHHHHhhHHhHH
Confidence 455666543 568999999999999999999999863 1111223345555544 788888888776
No 72
>PF00221 Lyase_aromatic: Aromatic amino acid lyase; InterPro: IPR001106 This entry represents phenylalanine ammonia-lyase (PAL; 4.3.1.24 from EC) and the mechanistically related protein histidine ammonia lyase (HAL; 4.3.1.3 from EC). Both contain a catalytic Ala-Ser-Gly triad that is post-translationally cyclised []. PAL is a key biosynthetic catalyst in phenylpropanoid assembly in plants and fungi, and is involved in the biosynthesis of a wide variety of secondary metabolites such as flavanoids, furanocoumarin phytoalexins and cell wall components. These compounds are important for normal growth and in responses to environmental stress. HAL catalyses the first step in histidine degradation, the removal of an ammonia group from histidine to produce urocanic acid. The core domain in PAL and Hal share about 30% sequence identity, with PAL containing an additional approximately 160 residues extending from the common fold [].; GO: 0016841 ammonia-lyase activity, 0009058 biosynthetic process; PDB: 2RJR_A 2RJS_A 2OHY_B 3KDZ_B 2QVE_A 3KDY_A 2NYF_A 2YII_B 1Y2M_B 1T6P_B ....
Probab=20.16 E-value=1.1e+02 Score=33.62 Aligned_cols=65 Identities=26% Similarity=0.300 Sum_probs=42.8
Q ss_pred CCchhHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhccCCCCCCCCccChhHHHHHHHHHHHHHH-HHhcCC
Q 008594 148 PIPSQIEKLKSRIDMIGAACESAEKVLADTRKAYCFGTRQGPQILPTLDKGQALKIQEQENLLRA-AVNSGE 218 (560)
Q Consensus 148 P~~~qiEklqKRId~iNkacE~aekvIa~aRk~~e~gtRqGp~~~pT~dkadaaki~eqt~lL~A-AVn~Ge 218 (560)
++....|. .+|| .+..+-+++++.+-+..|++-|=-|+....++++.+....+ .++|+. |++.|+
T Consensus 22 ~v~l~~~a-~~ri---~~sr~~l~~~~~~~~~iYGvnTG~G~~~~~~i~~~~~~~~q--~nll~~h~~gvG~ 87 (473)
T PF00221_consen 22 KVELSPEA-RERI---EASRAFLEDILASGKPIYGVNTGFGALKDVRIPPEELAELQ--RNLLRSHAAGVGP 87 (473)
T ss_dssp EEEE-HHH-HHHH---HHHHHHHHHHHHTTCTCTTTSBSSGGGTTSBC-GHHHHHHH--HHHHHHH---EEE
T ss_pred cEEECHHH-HHHH---HHHHHHHHHHHhcCCceeccccCCccccCCcCCHHHHHHHH--HHHHHhhcccccc
Confidence 34445333 5555 45566677788888889999888887777777777755555 899988 888887
No 73
>COG4453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.15 E-value=91 Score=28.15 Aligned_cols=17 Identities=47% Similarity=0.685 Sum_probs=15.5
Q ss_pred HHHHHHHhHHHHHHHHH
Q 008594 162 MIGAACESAEKVLADTR 178 (560)
Q Consensus 162 ~iNkacE~aekvIa~aR 178 (560)
++++||++|++||.+.|
T Consensus 40 vl~aA~~~A~~vi~~~~ 56 (95)
T COG4453 40 VLSAALEAAEDVIEDQR 56 (95)
T ss_pred HHHHHHHHHHHHHHhhH
Confidence 68999999999999877
No 74
>PRK10280 dipeptidyl carboxypeptidase II; Provisional
Probab=20.08 E-value=1.1e+03 Score=27.43 Aligned_cols=20 Identities=10% Similarity=0.134 Sum_probs=14.4
Q ss_pred CCChhhhhhhhhhcchhhhh
Q 008594 71 TPKWQDILGQYSMVNLELFN 90 (560)
Q Consensus 71 t~kWpDVLdqFSVIS~QL~n 90 (560)
.++|.+++.-+.-++..|..
T Consensus 52 ~~t~~n~i~~ld~~~~~l~~ 71 (681)
T PRK10280 52 APDFNNTILALEQSGELLTR 71 (681)
T ss_pred CCCHHHHHHHHHHHHHHHHH
Confidence 45899998888777755533
No 75
>PRK13824 replication initiation protein RepC; Provisional
Probab=20.05 E-value=2.8e+02 Score=30.13 Aligned_cols=43 Identities=12% Similarity=0.271 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhcccCCCCChhhhhhhhhhcch
Q 008594 41 LEAVKTRAISLFKAISRILEDFDAYARTNTTPKWQDILGQYSMVNL 86 (560)
Q Consensus 41 LEAVraRA~DLkkaIsriI~~LE~e~~tN~t~kWpDVLdqFSVIS~ 86 (560)
+..+|.|+--++.-|..+|.....+. .+..|..+.+.|..|-.
T Consensus 165 ~r~lr~~it~~rRdi~~li~~a~~~~---~~~~w~~~~~~~~~i~~ 207 (404)
T PRK13824 165 LRRLRERLTLCRRDIAKLIEAAIEEG---VPGDWEGVEQRFRAIVA 207 (404)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc---CCCcHHHHHHHHHHHHH
Confidence 55667777777777777777665544 35579999999987654
Done!