Query psy3489
Match_columns 129
No_of_seqs 107 out of 116
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 18:00:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3489.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3489hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1464|consensus 100.0 1.7E-53 3.7E-58 357.4 10.9 127 1-128 121-355 (440)
2 PF03704 BTAD: Bacterial trans 90.2 4.7 0.0001 28.7 9.1 87 22-120 59-146 (146)
3 KOG1464|consensus 89.5 0.21 4.5E-06 43.4 1.7 19 102-120 219-237 (440)
4 PRK05685 fliS flagellar protei 89.3 2.1 4.6E-05 31.6 6.8 78 27-127 37-121 (132)
5 TIGR00208 fliS flagellar biosy 88.9 2.3 5E-05 31.2 6.8 78 27-127 33-117 (124)
6 TIGR03504 FimV_Cterm FimV C-te 87.5 0.76 1.6E-05 28.5 2.9 28 27-54 1-28 (44)
7 KOG1463|consensus 83.0 3.3 7.1E-05 36.6 5.7 90 20-117 121-212 (411)
8 PF09976 TPR_21: Tetratricopep 81.1 18 0.00038 25.9 8.5 66 19-97 79-144 (145)
9 PF14938 SNAP: Soluble NSF att 76.5 38 0.00082 27.2 11.4 112 6-125 136-247 (282)
10 TIGR02795 tol_pal_ybgF tol-pal 76.4 18 0.0004 23.5 8.4 71 19-98 33-103 (119)
11 COG1516 FliS Flagellin-specifi 75.2 32 0.00069 26.2 8.3 76 29-127 35-117 (132)
12 PF13374 TPR_10: Tetratricopep 74.6 5.2 0.00011 22.0 3.1 36 26-61 3-38 (42)
13 PF04049 APC8: Anaphase promot 65.9 4 8.7E-05 30.6 1.7 38 29-78 78-115 (142)
14 PF13432 TPR_16: Tetratricopep 64.7 29 0.00063 21.0 6.9 57 30-98 2-58 (65)
15 PF14357 DUF4404: Domain of un 63.8 36 0.00078 23.5 6.1 74 43-123 1-80 (85)
16 PF10602 RPN7: 26S proteasome 59.1 68 0.0015 24.5 7.4 62 27-97 38-99 (177)
17 PF14938 SNAP: Soluble NSF att 56.5 1E+02 0.0022 24.7 11.7 111 6-123 95-207 (282)
18 PF07319 DnaI_N: Primosomal pr 56.4 11 0.00023 26.3 2.3 28 86-118 13-40 (94)
19 PF13174 TPR_6: Tetratricopept 54.5 26 0.00057 18.1 3.3 28 29-56 4-31 (33)
20 KOG1861|consensus 51.3 27 0.00058 32.1 4.6 63 25-97 348-413 (540)
21 PF13176 TPR_7: Tetratricopept 50.9 19 0.00041 20.2 2.4 24 29-52 3-26 (36)
22 KOG1937|consensus 45.8 1.1E+02 0.0024 28.1 7.5 69 41-125 447-520 (521)
23 PF13428 TPR_14: Tetratricopep 44.3 39 0.00086 19.5 3.2 29 28-56 4-32 (44)
24 COG2739 Uncharacterized protei 43.7 1.3E+02 0.0027 22.2 6.3 49 64-124 54-102 (105)
25 PRK10747 putative protoheme IX 43.6 2E+02 0.0043 24.3 8.5 57 30-98 158-214 (398)
26 PF02561 FliS: Flagellar prote 39.7 1.4E+02 0.003 21.3 8.2 76 29-127 33-115 (122)
27 PF10304 DUF2411: Domain of un 39.6 56 0.0012 19.2 3.3 21 103-123 13-33 (36)
28 PF13181 TPR_8: Tetratricopept 38.4 60 0.0013 17.1 3.2 28 27-54 3-30 (34)
29 PF11817 Foie-gras_1: Foie gra 37.8 78 0.0017 25.2 4.9 50 7-56 160-209 (247)
30 PF07719 TPR_2: Tetratricopept 37.0 65 0.0014 16.7 3.6 29 27-55 3-31 (34)
31 PF08631 SPO22: Meiosis protei 36.6 2.2E+02 0.0049 22.8 9.4 93 22-125 81-174 (278)
32 KOG1173|consensus 35.7 3.1E+02 0.0067 25.9 8.9 84 5-100 434-518 (611)
33 PF01399 PCI: PCI domain; Int 35.6 28 0.00061 22.8 1.8 27 102-128 25-51 (105)
34 cd00189 TPR Tetratricopeptide 35.1 89 0.0019 17.7 8.8 56 30-97 5-60 (100)
35 COG5159 RPN6 26S proteasome re 34.9 51 0.0011 29.1 3.6 61 27-93 127-187 (421)
36 TIGR00540 hemY_coli hemY prote 34.6 2.8E+02 0.0061 23.4 8.7 58 29-98 157-214 (409)
37 PF14559 TPR_19: Tetratricopep 33.8 1.1E+02 0.0023 18.3 5.9 52 35-98 1-52 (68)
38 PF13040 DUF3901: Protein of u 33.5 31 0.00067 21.2 1.5 28 94-122 8-35 (40)
39 PF13429 TPR_15: Tetratricopep 32.6 2.4E+02 0.0052 22.0 7.6 74 31-121 186-259 (280)
40 PF14669 Asp_Glu_race_2: Putat 31.9 56 0.0012 27.1 3.2 64 34-97 4-77 (233)
41 PF11537 DUF3227: Protein of u 31.6 80 0.0017 23.2 3.7 54 5-59 47-101 (102)
42 TIGR02521 type_IV_pilW type IV 30.5 1.9E+02 0.0042 20.2 6.6 61 25-97 31-91 (234)
43 PF08771 Rapamycin_bind: Rapam 29.8 1.8E+02 0.0039 20.5 5.2 59 32-91 21-84 (100)
44 PF07721 TPR_4: Tetratricopept 28.6 47 0.001 17.4 1.6 21 29-49 5-25 (26)
45 PF13424 TPR_12: Tetratricopep 28.5 1.5E+02 0.0033 18.3 7.2 67 27-98 7-73 (78)
46 KOG2908|consensus 27.0 3.5E+02 0.0076 24.1 7.4 58 27-88 117-174 (380)
47 PF10163 EnY2: Transcription f 26.5 2.1E+02 0.0046 19.4 7.2 77 31-126 6-84 (86)
48 PF13429 TPR_15: Tetratricopep 26.2 3.1E+02 0.0067 21.4 6.5 71 14-98 103-173 (280)
49 PF13106 DUF3961: Domain of un 25.8 21 0.00046 22.1 -0.1 12 15-26 9-20 (40)
50 KOG0584|consensus 25.5 84 0.0018 29.6 3.6 50 69-122 222-283 (632)
51 PF12895 Apc3: Anaphase-promot 24.9 1.3E+02 0.0028 19.2 3.5 21 30-50 30-50 (84)
52 PF03592 Terminase_2: Terminas 24.9 51 0.0011 23.9 1.7 23 102-124 35-57 (144)
53 PF10421 OAS1_C: 2'-5'-oligoad 24.8 3.7E+02 0.0079 21.6 6.9 116 6-125 7-138 (190)
54 PF01535 PPR: PPR repeat; Int 24.1 1.1E+02 0.0024 15.3 3.0 26 73-98 2-27 (31)
55 PF07240 Turandot: Stress-indu 23.6 2.5E+02 0.0054 19.8 4.9 40 81-125 6-45 (85)
56 TIGR02521 type_IV_pilW type IV 23.0 2.7E+02 0.0059 19.4 7.4 58 29-98 139-196 (234)
57 PF08632 Zds_C: Activator of m 22.9 61 0.0013 21.1 1.6 15 91-111 18-32 (53)
58 smart00147 RasGEF Guanine nucl 22.3 2.5E+02 0.0054 21.8 5.3 88 25-120 78-167 (242)
59 PF07870 DUF1657: Protein of u 21.1 2.2E+02 0.0048 17.7 4.0 22 70-98 15-36 (50)
60 PF13453 zf-TFIIB: Transcripti 21.0 41 0.00088 19.8 0.4 14 32-45 26-39 (41)
61 TIGR03302 OM_YfiO outer membra 20.8 3.7E+02 0.0079 20.1 6.8 60 29-97 170-229 (235)
62 KOG0575|consensus 20.4 25 0.00055 32.7 -0.8 73 25-97 140-230 (592)
63 smart00028 TPR Tetratricopepti 20.2 1.1E+02 0.0024 13.9 2.9 26 28-53 4-29 (34)
No 1
>KOG1464|consensus
Probab=100.00 E-value=1.7e-53 Score=357.36 Aligned_cols=127 Identities=83% Similarity=1.246 Sum_probs=123.5
Q ss_pred ChHHHHHHHHHHHHHhhCCcccchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHH
Q psy3489 1 MELLQDFYETTLEALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQM 80 (129)
Q Consensus 1 ~~~l~~fYe~TL~aL~~~~NeRLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQm 80 (129)
|+++|.||++||+||++++|||||||||+|||+||||++||.++++++++||.||+.+||+||++||||||||||+||||
T Consensus 121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm 200 (440)
T KOG1464|consen 121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM 200 (440)
T ss_pred hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhchHHHHHH-------------------------------------------------------------------
Q psy3489 81 YTAQKNNKKLKKL------------------------------------------------------------------- 93 (129)
Q Consensus 81 yt~~kn~kkLk~l------------------------------------------------------------------- 93 (129)
||++||||+||.+
T Consensus 201 YT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLAN 280 (440)
T KOG1464|consen 201 YTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLAN 280 (440)
T ss_pred hhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHH
Confidence 9999999999988
Q ss_pred -----------------------------------------HHHHHhhhcccccCCChHHHHHHHHHHHHHhhhhc
Q psy3489 94 -----------------------------------------YELIQVKSSEQNIMDDPFIREHIEDLLRNIRTQVM 128 (129)
Q Consensus 94 -----------------------------------------Y~~i~~~~n~~~~~~~PfI~~~I~e~~~~~r~~~~ 128 (129)
|++|+ ++|+++||+|||||+||||||||||||||
T Consensus 281 MLmkS~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~NdI~eFE~Il-~~~~~~IM~DpFIReh~EdLl~niRTQVL 355 (440)
T KOG1464|consen 281 MLMKSGINPFDSQEAKPYKNDPEILAMTNLVAAYQNNDIIEFERIL-KSNRSNIMDDPFIREHIEDLLRNIRTQVL 355 (440)
T ss_pred HHHHcCCCCCcccccCCCCCCHHHHHHHHHHHHHhcccHHHHHHHH-HhhhccccccHHHHHHHHHHHHHHHHHHH
Confidence 77884 88999999999999999999999999997
No 2
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=90.20 E-value=4.7 Score=28.65 Aligned_cols=87 Identities=20% Similarity=0.287 Sum_probs=62.8
Q ss_pred cchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhh
Q psy3489 22 RLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKS 101 (129)
Q Consensus 22 RLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~ 101 (129)
+.++.+-.+++..+++.|+|+.+....+.+-..-. +-=++|..-|+.|...++...-.+.|++.....
T Consensus 59 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP------------~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l 126 (146)
T PF03704_consen 59 ELYLDALERLAEALLEAGDYEEALRLLQRALALDP------------YDEEAYRLLMRALAAQGRRAEALRVYERYRRRL 126 (146)
T ss_dssp HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST------------T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCC------------CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 56788899999999999999999988887777643 334578888999999999999999999852111
Q ss_pred -cccccCCChHHHHHHHHHH
Q psy3489 102 -SEQNIMDDPFIREHIEDLL 120 (129)
Q Consensus 102 -n~~~~~~~PfI~~~I~e~~ 120 (129)
..-.+-+.|.+.+..+++|
T Consensus 127 ~~elg~~Ps~~~~~l~~~il 146 (146)
T PF03704_consen 127 REELGIEPSPETRALYREIL 146 (146)
T ss_dssp HHHHS----HHHHHHHHHHH
T ss_pred HHHhCcCcCHHHHHHHHHhC
Confidence 2346778888888877765
No 3
>KOG1464|consensus
Probab=89.45 E-value=0.21 Score=43.41 Aligned_cols=19 Identities=16% Similarity=0.198 Sum_probs=17.3
Q ss_pred cccccCCChHHHHHHHHHH
Q psy3489 102 SEQNIMDDPFIREHIEDLL 120 (129)
Q Consensus 102 n~~~~~~~PfI~~~I~e~~ 120 (129)
++.++++||.|+|+|+||=
T Consensus 219 hiKSAIPHPlImGvIRECG 237 (440)
T KOG1464|consen 219 HIKSAIPHPLIMGVIRECG 237 (440)
T ss_pred HhhccCCchHHHhHHHHcC
Confidence 6789999999999999983
No 4
>PRK05685 fliS flagellar protein FliS; Validated
Probab=89.28 E-value=2.1 Score=31.63 Aligned_cols=78 Identities=23% Similarity=0.333 Sum_probs=49.7
Q ss_pred hhhhhHHHhhchhhhh-------HHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHh
Q psy3489 27 TNTKLGKLYFDREDFN-------KLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQV 99 (129)
Q Consensus 27 tnlKLakL~ld~~ey~-------~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~ 99 (129)
..++.|+..++.+++. |+..+|.+|..++..+.|++=. .+|..+|. -+..
T Consensus 37 ~~l~~A~~ai~~~~~~~~~~~l~ka~~Ii~eL~~sLd~e~ggeiA---~~L~~LY~--------------------y~~~ 93 (132)
T PRK05685 37 SFLAQAKLAIEQGDIEAKGEYLSKAINIINGLRNSLDMEKGGEVA---KNLSALYD--------------------YMIR 93 (132)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhcCCccccHHH---HHHHHHHH--------------------HHHH
Confidence 3567888888888887 7888999999999766553221 23444443 3222
Q ss_pred hhcccccCCChHHHHHHHHHHHHHhhhh
Q psy3489 100 KSSEQNIMDDPFIREHIEDLLRNIRTQV 127 (129)
Q Consensus 100 ~~n~~~~~~~PfI~~~I~e~~~~~r~~~ 127 (129)
.....++=.||.....+..++..||.-|
T Consensus 94 ~L~~A~~~~d~~~l~ev~~il~~LreaW 121 (132)
T PRK05685 94 RLLEANLRNDVQAIDEVEGLLREIKEAW 121 (132)
T ss_pred HHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 2223334456777777777777777644
No 5
>TIGR00208 fliS flagellar biosynthetic protein FliS. The function of this protein in flagellar biosynthesis is unknown, but appears to be regulatory. The member of this family in Vibrio parahaemolyticus is designated FlaJ (creating a synonym for FliS) and was shown essential for flagellin biosynthesis.
Probab=88.91 E-value=2.3 Score=31.20 Aligned_cols=78 Identities=18% Similarity=0.280 Sum_probs=52.2
Q ss_pred hhhhhHHHhhchhhh-------hHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHh
Q psy3489 27 TNTKLGKLYFDREDF-------NKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQV 99 (129)
Q Consensus 27 tnlKLakL~ld~~ey-------~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~ 99 (129)
..++.|+..++.+++ .+...+|.+|..++..+.|++=. .+ |..||.-+..
T Consensus 33 ~~l~~a~~ai~~~d~~~~~~~i~ka~~Ii~eL~~~Ld~e~ggeiA---~n--------------------L~~LY~y~~~ 89 (124)
T TIGR00208 33 KFIRLAAQAIENDDIERKNENLIKAQNIIQELNFTLDREKNIELS---AS--------------------LGALYDYMYR 89 (124)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhcCCccchHHH---HH--------------------HHHHHHHHHH
Confidence 366788888988888 56678899999998755543211 12 3444444332
Q ss_pred hhcccccCCChHHHHHHHHHHHHHhhhh
Q psy3489 100 KSSEQNIMDDPFIREHIEDLLRNIRTQV 127 (129)
Q Consensus 100 ~~n~~~~~~~PfI~~~I~e~~~~~r~~~ 127 (129)
.....++=.||.+...+..++..||.-|
T Consensus 90 ~L~~An~~~d~~~l~ev~~~l~~Lr~aW 117 (124)
T TIGR00208 90 RLVQANIKNDTSKLAEVEGYVRDFRDAW 117 (124)
T ss_pred HHHHHHhhCCHHHHHHHHHHHHHHHHHH
Confidence 3344555668888888888888888655
No 6
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=87.49 E-value=0.76 Score=28.46 Aligned_cols=28 Identities=18% Similarity=0.408 Sum_probs=25.3
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHh
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQS 54 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~ 54 (129)
+++.||+.|++.|+++....+|.++-..
T Consensus 1 ~kLdLA~ayie~Gd~e~Ar~lL~evl~~ 28 (44)
T TIGR03504 1 TKLDLARAYIEMGDLEGARELLEEVIEE 28 (44)
T ss_pred CchHHHHHHHHcCChHHHHHHHHHHHHc
Confidence 4688999999999999999999999853
No 7
>KOG1463|consensus
Probab=83.00 E-value=3.3 Score=36.61 Aligned_cols=90 Identities=20% Similarity=0.343 Sum_probs=68.0
Q ss_pred cccchhhh--hhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 20 NDRLWFKT--NTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 20 NeRLWfKt--nlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
+.|-+++- -.||+.||+|.++|...-.++.+|-+.+..=|+ .-.|.||+-+|--.|-+.+|.+|=|.---..
T Consensus 121 ekRtFLRq~Learli~Ly~d~~~YteAlaL~~~L~rElKKlDD------K~lLvev~llESK~y~~l~Nl~KakasLTsA 194 (411)
T KOG1463|consen 121 EKRTFLRQSLEARLIRLYNDTKRYTEALALINDLLRELKKLDD------KILLVEVHLLESKAYHALRNLPKAKASLTSA 194 (411)
T ss_pred HhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhccc------ccceeeehhhhhHHHHHHhcchhHHHHHHHH
Confidence 44555543 358999999999999998888888777764443 2379999999999999999999877655444
Q ss_pred HhhhcccccCCChHHHHHHH
Q psy3489 98 QVKSSEQNIMDDPFIREHIE 117 (129)
Q Consensus 98 ~~~~n~~~~~~~PfI~~~I~ 117 (129)
+++...|-.-|..-+-+.
T Consensus 195 --RT~AnaiYcpPqlQa~lD 212 (411)
T KOG1463|consen 195 --RTTANAIYCPPQLQATLD 212 (411)
T ss_pred --HHhhcccccCHHHHHHHH
Confidence 345667777887777653
No 8
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=81.08 E-value=18 Score=25.94 Aligned_cols=66 Identities=15% Similarity=0.199 Sum_probs=37.5
Q ss_pred CcccchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 19 KNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 19 ~NeRLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
+++.+---..+.||+++++.|+|+.....+..+. + +.+.-.+..+.=+.|...++..+=+..|++.
T Consensus 79 ~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~----------~---~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 79 PDPELKPLARLRLARILLQQGQYDEALATLQQIP----------D---EAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc----------C---cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 3444444456667777777777776665553311 0 1123334455556677777777777777654
No 9
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=76.51 E-value=38 Score=27.21 Aligned_cols=112 Identities=16% Similarity=0.164 Sum_probs=79.7
Q ss_pred HHHHHHHHHHhhCCcccchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhh
Q psy3489 6 DFYETTLEALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQK 85 (129)
Q Consensus 6 ~fYe~TL~aL~~~~NeRLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~k 85 (129)
++|+-.++.++..+..+.--++-.++|.++...++|...-.+..++-..|.......-+.++. .| -|+- .+-..+
T Consensus 136 ~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~-~l--~a~l--~~L~~~ 210 (282)
T PF14938_consen 136 EYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY-FL--KAIL--CHLAMG 210 (282)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH-HH--HHHH--HHHHTT
T ss_pred HHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH-HH--HHHH--HHHHcC
Confidence 578888888888887788888999999999999999999999999988886333322222221 11 1222 444457
Q ss_pred chHHHHHHHHHHHhhhcccccCCChHHHHHHHHHHHHHhh
Q psy3489 86 NNKKLKKLYELIQVKSSEQNIMDDPFIREHIEDLLRNIRT 125 (129)
Q Consensus 86 n~kkLk~lY~~i~~~~n~~~~~~~PfI~~~I~e~~~~~r~ 125 (129)
|.-.-...+++.. +..+-..+++=...+++|+..++.
T Consensus 211 D~v~A~~~~~~~~---~~~~~F~~s~E~~~~~~l~~A~~~ 247 (282)
T PF14938_consen 211 DYVAARKALERYC---SQDPSFASSREYKFLEDLLEAYEE 247 (282)
T ss_dssp -HHHHHHHHHHHG---TTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHH---hhCCCCCCcHHHHHHHHHHHHHHh
Confidence 7777888888875 566777888888889999887764
No 10
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=76.42 E-value=18 Score=23.54 Aligned_cols=71 Identities=7% Similarity=0.079 Sum_probs=52.0
Q ss_pred CcccchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 19 KNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 19 ~NeRLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
.+..........+|.+++..++|+.....++.+..... + +.+..+++...-.+|...++...-...|+++.
T Consensus 33 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p--~-------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~ 103 (119)
T TIGR02795 33 PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYP--K-------SPKAPDALLKLGMSLQELGDKEKAKATLQQVI 103 (119)
T ss_pred CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCC--C-------CCcccHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence 34445566778899999999999999999998887653 1 11234445555566778889888888898875
No 11
>COG1516 FliS Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=75.16 E-value=32 Score=26.17 Aligned_cols=76 Identities=22% Similarity=0.316 Sum_probs=47.0
Q ss_pred hhhHHHhhchhhh-------hHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhh
Q psy3489 29 TKLGKLYFDREDF-------NKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKS 101 (129)
Q Consensus 29 lKLakL~ld~~ey-------~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~ 101 (129)
++.|+..++.+++ +|+..||.+|...+..|+|++= +.+|.-+|.--++ +|++.-+
T Consensus 35 l~~A~~aie~~~i~~k~~~i~ka~~Ii~eL~~~Ld~E~Ggei---a~nL~~LY~y~~~------------rL~~ANl--- 96 (132)
T COG1516 35 LKRAKEAIEQEDIEEKNESIDKAIDIITELRASLDYEKGGEI---AQNLDALYDYMVR------------RLVQANL--- 96 (132)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHhcCHhhcchH---HHHHHHHHHHHHH------------HHHHHHh---
Confidence 4567777776665 4677888999999987777532 3366666665553 3333321
Q ss_pred cccccCCChHHHHHHHHHHHHHhhhh
Q psy3489 102 SEQNIMDDPFIREHIEDLLRNIRTQV 127 (129)
Q Consensus 102 n~~~~~~~PfI~~~I~e~~~~~r~~~ 127 (129)
--||-+..-++++++++|.-|
T Consensus 97 -----~nd~~~i~eV~~ll~~l~eaW 117 (132)
T COG1516 97 -----KNDASKIDEVIGLLRELREAW 117 (132)
T ss_pred -----ccCHHHHHHHHHHHHHHHHHH
Confidence 235666666666666666433
No 12
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=74.58 E-value=5.2 Score=21.96 Aligned_cols=36 Identities=11% Similarity=0.150 Sum_probs=25.3
Q ss_pred hhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCC
Q psy3489 26 KTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGE 61 (129)
Q Consensus 26 KtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~ 61 (129)
.+--.||..|..+|+|+...++..+...-++.--|.
T Consensus 3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~G~ 38 (42)
T PF13374_consen 3 SALNNLANAYRAQGRYEEALELLEEALEIRERLLGP 38 (42)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHHHH------
T ss_pred HHHHHHHHHHHhhhhcchhhHHHHHHHHHHHHHhcc
Confidence 355679999999999999999999888887754443
No 13
>PF04049 APC8: Anaphase promoting complex subunit 8 / Cdc23 ; InterPro: IPR007192 The anaphase-promoting complex is composed of eight protein subunits, including BimE (APC1), CDC27 (APC3), CDC16 (APC6), and CDC23 (APC8). This entry is for CDC23.; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0005680 anaphase-promoting complex
Probab=65.85 E-value=4 Score=30.63 Aligned_cols=38 Identities=26% Similarity=0.622 Sum_probs=27.2
Q ss_pred hhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHH
Q psy3489 29 TKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEI 78 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEI 78 (129)
.-+|+-|||.+||+|+.-+++. |. +.....|=.||.=+
T Consensus 78 yllAksyFD~kEy~RaA~~L~~----~~--------s~~~~FL~lYs~YL 115 (142)
T PF04049_consen 78 YLLAKSYFDCKEYDRAAHVLKD----CK--------SPKALFLRLYSRYL 115 (142)
T ss_pred HHHHHHHhchhHHHHHHHHHcc----CC--------CchHHHHHHHHHHH
Confidence 3499999999999999977765 43 22335577777533
No 14
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=64.71 E-value=29 Score=21.01 Aligned_cols=57 Identities=14% Similarity=0.156 Sum_probs=45.3
Q ss_pred hhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 30 KLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 30 KLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
.+|..+++.|+|+.....++++.+.-. .-.++.-.--.++..+++...=.+.|++..
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P------------~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~ 58 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDP------------DNPEAWYLLGRILYQQGRYDEALAYYERAL 58 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCST------------THHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 579999999999999999999887732 245666666678889999998889999874
No 15
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=63.85 E-value=36 Score=23.53 Aligned_cols=74 Identities=20% Similarity=0.357 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhh-----hchHHH-HHHHHHHHhhhcccccCCChHHHHHH
Q psy3489 43 KLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQ-----KNNKKL-KKLYELIQVKSSEQNIMDDPFIREHI 116 (129)
Q Consensus 43 ~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~-----kn~kkL-k~lY~~i~~~~n~~~~~~~PfI~~~I 116 (129)
++...|.+||..++.-++.|+..+.. |.-..-+|+---.. .+.+.+ ..+=..+ ..=-.+||.+-+.+
T Consensus 1 kL~~~L~~L~~eL~~~~~ld~~~~~~--L~~l~~dIe~~L~~~~~~~~~~~~l~d~l~~av-----~~FE~~HP~l~~~l 73 (85)
T PF14357_consen 1 KLQELLEKLHQELEQNPPLDEETRAE--LSSLDDDIEAQLAEEDEAEAEDESLVDRLNEAV-----ERFEASHPKLAGIL 73 (85)
T ss_pred CHHHHHHHHHHHHhcCCCCCHHHHHH--HHHHHHHHHHHHhcCCcccccchhHHHHHHHHH-----HHHHHhCCcHHHHH
Confidence 36678889999998777777776654 33333344432222 122222 2222222 11126899999999
Q ss_pred HHHHHHH
Q psy3489 117 EDLLRNI 123 (129)
Q Consensus 117 ~e~~~~~ 123 (129)
++++..+
T Consensus 74 r~i~~sL 80 (85)
T PF14357_consen 74 RNIMDSL 80 (85)
T ss_pred HHHHHHH
Confidence 9888754
No 16
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=59.13 E-value=68 Score=24.54 Aligned_cols=62 Identities=11% Similarity=0.142 Sum_probs=54.1
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
....+|..|++.||++..-+.....+..|. -..+.++++-.-|.+....+|...+..-..++
T Consensus 38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~---------~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka 99 (177)
T PF10602_consen 38 ALEDLADHYCKIGDLEEALKAYSRARDYCT---------SPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA 99 (177)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHhhhcC---------CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 456789999999999999999999999996 24479999999999999999999988887776
No 17
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=56.54 E-value=1e+02 Score=24.70 Aligned_cols=111 Identities=15% Similarity=0.228 Sum_probs=73.5
Q ss_pred HHHHHHHHHHhhCCcccchhhhhhhhHHHhhch-hhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhh
Q psy3489 6 DFYETTLEALKDAKNDRLWFKTNTKLGKLYFDR-EDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQ 84 (129)
Q Consensus 6 ~fYe~TL~aL~~~~NeRLWfKtnlKLakL~ld~-~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~ 84 (129)
+.|+...+.+.+.++-+.+-++..++|++|-+. +++.+.-....+--...+.++ ......+++--=..++.+.
T Consensus 95 ~~~~~A~~~y~~~G~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~------~~~~a~~~~~~~A~l~~~l 168 (282)
T PF14938_consen 95 ECYEKAIEIYREAGRFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG------SPHSAAECLLKAADLYARL 168 (282)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-------HHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC------ChhhHHHHHHHHHHHHHHh
Confidence 467777777778888888899999999999998 899888877776666655222 2234455555555678888
Q ss_pred hchHHHHHHHHHHHhhhcccccCCChHHHHH-HHHHHHHH
Q psy3489 85 KNNKKLKKLYELIQVKSSEQNIMDDPFIREH-IEDLLRNI 123 (129)
Q Consensus 85 kn~kkLk~lY~~i~~~~n~~~~~~~PfI~~~-I~e~~~~~ 123 (129)
++..+=.++|+++. +....+.+..+-++++ ..-+|+-+
T Consensus 169 ~~y~~A~~~~e~~~-~~~l~~~l~~~~~~~~~l~a~l~~L 207 (282)
T PF14938_consen 169 GRYEEAIEIYEEVA-KKCLENNLLKYSAKEYFLKAILCHL 207 (282)
T ss_dssp T-HHHHHHHHHHHH-HTCCCHCTTGHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH-HHhhcccccchhHHHHHHHHHHHHH
Confidence 99998899999983 4334445555556554 44444433
No 18
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=56.43 E-value=11 Score=26.34 Aligned_cols=28 Identities=18% Similarity=0.604 Sum_probs=19.2
Q ss_pred chHHHHHHHHHHHhhhcccccCCChHHHHHHHH
Q psy3489 86 NNKKLKKLYELIQVKSSEQNIMDDPFIREHIED 118 (129)
Q Consensus 86 n~kkLk~lY~~i~~~~n~~~~~~~PfI~~~I~e 118 (129)
+.+.+.+=|+++ ...+++||-|+.+|++
T Consensus 13 ~~~~~~~~~~~l-----~~~vl~dp~V~~Fl~~ 40 (94)
T PF07319_consen 13 KRRNFEERYEQL-----KQEVLSDPEVQAFLQE 40 (94)
T ss_dssp ---HHHHHHHHH-----HHHHTT-HHHHHHHHH
T ss_pred hcccHHHHHHHH-----HHHHHcCHHHHHHHHH
Confidence 455677778887 4567999999998875
No 19
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=54.46 E-value=26 Score=18.14 Aligned_cols=28 Identities=14% Similarity=0.408 Sum_probs=24.2
Q ss_pred hhhHHHhhchhhhhHHHHHHHHHHHhcc
Q psy3489 29 TKLGKLYFDREDFNKLSRILKQLHQSCQ 56 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~~L~~~c~ 56 (129)
.++|.++...|++++....++++.+...
T Consensus 4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~P 31 (33)
T PF13174_consen 4 YRLARCYYKLGDYDEAIEYFQRLIKRYP 31 (33)
T ss_dssp HHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred HHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence 4689999999999999999999887653
No 20
>KOG1861|consensus
Probab=51.26 E-value=27 Score=32.11 Aligned_cols=63 Identities=27% Similarity=0.360 Sum_probs=44.6
Q ss_pred hhhhhhhHHHhh---chhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 25 FKTNTKLGKLYF---DREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 25 fKtnlKLakL~l---d~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
.+..=-.|++-| |.+||.+|+.-|+-|.+. | -.|. .+|..|--|-+|+-++|...+..+-..+
T Consensus 348 veVYEtHARIALEkGD~~EfNQCQtQLk~LY~e-----g----ipg~-~~EF~AYriLY~i~tkN~~di~sll~~l 413 (540)
T KOG1861|consen 348 VEVYETHARIALEKGDLEEFNQCQTQLKALYSE-----G----IPGA-YLEFTAYRILYYIFTKNYPDILSLLRDL 413 (540)
T ss_pred eeeehhhhHHHHhcCCHHHHHHHHHHHHHHHcc-----C----CCCc-hhhHHHHHHHHHHHhcCchHHHHHHHhc
Confidence 344444577777 577788888888877732 2 2345 8999999999999999988666554443
No 21
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=50.86 E-value=19 Score=20.22 Aligned_cols=24 Identities=25% Similarity=0.487 Sum_probs=19.2
Q ss_pred hhhHHHhhchhhhhHHHHHHHHHH
Q psy3489 29 TKLGKLYFDREDFNKLSRILKQLH 52 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~~L~ 52 (129)
..||++|.+.|+|++....-++.-
T Consensus 3 ~~Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 3 NNLGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHH
Confidence 569999999999999997776644
No 22
>KOG1937|consensus
Probab=45.85 E-value=1.1e+02 Score=28.09 Aligned_cols=69 Identities=26% Similarity=0.371 Sum_probs=44.7
Q ss_pred hhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhh-----hchHHHHHHHHHHHhhhcccccCCChHHHHH
Q psy3489 41 FNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQ-----KNNKKLKKLYELIQVKSSEQNIMDDPFIREH 115 (129)
Q Consensus 41 y~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~-----kn~kkLk~lY~~i~~~~n~~~~~~~PfI~~~ 115 (129)
+-+.-+.+..||..|..--. --..-|+..=||--+|-|+|++. ++.-+|.+=|++| +-+
T Consensus 447 vR~aykllt~iH~nc~ei~E-~i~~tg~~~revrdlE~qI~~E~~k~~l~slEkl~~Dyqai---------------rqe 510 (521)
T KOG1937|consen 447 VRLAYKLLTRIHLNCMEILE-MIRETGALKREVRDLESQIYVEEQKQYLKSLEKLHQDYQAI---------------RQE 510 (521)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHcchHHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHHH---------------HHH
Confidence 34566888899999972100 00223566667778999999964 2555666666665 557
Q ss_pred HHHHHHHHhh
Q psy3489 116 IEDLLRNIRT 125 (129)
Q Consensus 116 I~e~~~~~r~ 125 (129)
++.|...||-
T Consensus 511 n~~L~~~iR~ 520 (521)
T KOG1937|consen 511 NDQLFSEIRL 520 (521)
T ss_pred HHHHHHHHhc
Confidence 7777777773
No 23
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=44.29 E-value=39 Score=19.49 Aligned_cols=29 Identities=14% Similarity=0.099 Sum_probs=25.5
Q ss_pred hhhhHHHhhchhhhhHHHHHHHHHHHhcc
Q psy3489 28 NTKLGKLYFDREDFNKLSRILKQLHQSCQ 56 (129)
Q Consensus 28 nlKLakL~ld~~ey~~l~~~l~~L~~~c~ 56 (129)
-..+|..|.+.|++++..+.++...+.+.
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P 32 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDP 32 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence 35689999999999999999999988764
No 24
>COG2739 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.72 E-value=1.3e+02 Score=22.24 Aligned_cols=49 Identities=27% Similarity=0.593 Sum_probs=35.1
Q ss_pred ccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhhcccccCCChHHHHHHHHHHHHHh
Q psy3489 64 LKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKSSEQNIMDDPFIREHIEDLLRNIR 124 (129)
Q Consensus 64 ~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~n~~~~~~~PfI~~~I~e~~~~~r 124 (129)
-+++..+||-|--=.+||...+ .=+++|.+.... ++|| +-+.+.+.+|+
T Consensus 54 IKr~~~~L~~YE~KL~l~~k~~---~R~el~d~lk~~------~~~~---~~l~~~l~~l~ 102 (105)
T COG2739 54 IKRTEKILEDYEEKLKLYEKYK---IRKELYDKLKEL------ITDP---EELREILEDLD 102 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH------cCCH---HHHHHHHHHhH
Confidence 4567789999999999998877 336889986433 7888 44555555554
No 25
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=43.58 E-value=2e+02 Score=24.26 Aligned_cols=57 Identities=12% Similarity=0.126 Sum_probs=47.1
Q ss_pred hhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 30 KLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 30 KLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
-.+.++++.|+|+.....++.+.+.-. ...+++.+..+.|...++.....+++++..
T Consensus 158 ~~a~l~l~~g~~~~Al~~l~~~~~~~P------------~~~~al~ll~~~~~~~gdw~~a~~~l~~l~ 214 (398)
T PRK10747 158 TRVRIQLARNENHAARHGVDKLLEVAP------------RHPEVLRLAEQAYIRTGAWSSLLDILPSMA 214 (398)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHhcCC------------CCHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 458899999999999988888876632 234778888899999999999999999984
No 26
>PF02561 FliS: Flagellar protein FliS; InterPro: IPR003713 The fliD operon of several bacteria consists of three flagellar genes, fliD, fliS, and fliT, and is transcribed in this order []. In Bacillus subtilis the operon encoding the flagellar proteins FliD, FliS, and FliT is sigma D-dependent [].; GO: 0009296 flagellum assembly, 0009288 bacterial-type flagellum; PDB: 1VH6_A 3IQC_B 3K1I_B 1ORJ_B 1ORY_A.
Probab=39.69 E-value=1.4e+02 Score=21.27 Aligned_cols=76 Identities=20% Similarity=0.336 Sum_probs=41.8
Q ss_pred hhhHHHhhchhhh-------hHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhh
Q psy3489 29 TKLGKLYFDREDF-------NKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKS 101 (129)
Q Consensus 29 lKLakL~ld~~ey-------~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~ 101 (129)
++.|+...+.+++ .++..+|.+|..++..+.|.+=. ..|..+| .-+....
T Consensus 33 l~~a~~a~~~~~~~~~~~~l~ka~~Ii~~L~~~Ld~e~g~eia---~~L~~lY--------------------~y~~~~L 89 (122)
T PF02561_consen 33 LKQAKEAIEQGDIEEKNEALQKAQDIITELQSSLDFEKGGEIA---DNLFRLY--------------------DYMIRQL 89 (122)
T ss_dssp HHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHTCCTTTTHHHH---HHHHHHH--------------------HHHHHHH
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHhhcCCCCCcHHH---HHHHHHH--------------------HHHHHHH
Confidence 3455555555555 46678889999998766553211 2333333 3221111
Q ss_pred cccccCCChHHHHHHHHHHHHHhhhh
Q psy3489 102 SEQNIMDDPFIREHIEDLLRNIRTQV 127 (129)
Q Consensus 102 n~~~~~~~PfI~~~I~e~~~~~r~~~ 127 (129)
...++=.||.....+..++..+|.-|
T Consensus 90 ~~A~~~~d~~~l~~v~~~l~~l~~aW 115 (122)
T PF02561_consen 90 VQANLKKDPERLDEVIRILEELRDAW 115 (122)
T ss_dssp HHHHHTT-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 22233456777777777777777644
No 27
>PF10304 DUF2411: Domain of unknown function (DUF2411); InterPro: IPR019414 This entry represents a 38 residue domain of unknown function that is found at the extreme C-terminal end of some HEAT repeats.
Probab=39.64 E-value=56 Score=19.22 Aligned_cols=21 Identities=29% Similarity=0.559 Sum_probs=16.8
Q ss_pred ccccCCChHHHHHHHHHHHHH
Q psy3489 103 EQNIMDDPFIREHIEDLLRNI 123 (129)
Q Consensus 103 ~~~~~~~PfI~~~I~e~~~~~ 123 (129)
....=+||.+|+|++.++..|
T Consensus 13 V~~~D~D~lvr~hA~~~Le~L 33 (36)
T PF10304_consen 13 VESTDNDDLVREHAQDALEEL 33 (36)
T ss_pred HHHhCCcHHHHHHHHHHHHHH
Confidence 444456999999999999876
No 28
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=38.43 E-value=60 Score=17.05 Aligned_cols=28 Identities=18% Similarity=0.311 Sum_probs=22.6
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHh
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQS 54 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~ 54 (129)
+...+|.+|.+.|+|+.....+++..+-
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~ 30 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 4567899999999999998877766554
No 29
>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []. Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.
Probab=37.75 E-value=78 Score=25.19 Aligned_cols=50 Identities=20% Similarity=0.338 Sum_probs=41.1
Q ss_pred HHHHHHHHHhhCCcccchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhcc
Q psy3489 7 FYETTLEALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQ 56 (129)
Q Consensus 7 fYe~TL~aL~~~~NeRLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~ 56 (129)
..+...+.++..+..|+--.....+|+-|+..|+|++..+.++.+-....
T Consensus 160 lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr 209 (247)
T PF11817_consen 160 LLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYR 209 (247)
T ss_pred HHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 34444555666678899999999999999999999999999999966665
No 30
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=37.04 E-value=65 Score=16.72 Aligned_cols=29 Identities=10% Similarity=0.218 Sum_probs=22.2
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHhc
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQSC 55 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~c 55 (129)
....+|.+++..|+|.+.....++..+.+
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKALELD 31 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence 34568999999999999998887766654
No 31
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=36.59 E-value=2.2e+02 Score=22.83 Aligned_cols=93 Identities=14% Similarity=0.266 Sum_probs=57.7
Q ss_pred cchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhh
Q psy3489 22 RLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKS 101 (129)
Q Consensus 22 RLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~ 101 (129)
-|-+++-.=||+.|++.++++...+.++-+... +.+-| .-.++|.+-++......+.....+...++. .
T Consensus 81 elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l-~~e~~--------~~~~~~~L~l~il~~~~~~~~~~~~L~~mi-~- 149 (278)
T PF08631_consen 81 ELRLSILRLLANAYLEWDTYESVEKALNALRLL-ESEYG--------NKPEVFLLKLEILLKSFDEEEYEEILMRMI-R- 149 (278)
T ss_pred HHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH-HHhCC--------CCcHHHHHHHHHHhccCChhHHHHHHHHHH-H-
Confidence 467888888999999888877776655544443 21112 345677777777777666666666666653 2
Q ss_pred ccc-ccCCChHHHHHHHHHHHHHhh
Q psy3489 102 SEQ-NIMDDPFIREHIEDLLRNIRT 125 (129)
Q Consensus 102 n~~-~~~~~PfI~~~I~e~~~~~r~ 125 (129)
+.. +-.+=.+|.++|.++...=+.
T Consensus 150 ~~~~~e~~~~~~l~~i~~l~~~~~~ 174 (278)
T PF08631_consen 150 SVDHSESNFDSILHHIKQLAEKSPE 174 (278)
T ss_pred hcccccchHHHHHHHHHHHHhhCcH
Confidence 222 333334677888877765444
No 32
>KOG1173|consensus
Probab=35.74 E-value=3.1e+02 Score=25.88 Aligned_cols=84 Identities=15% Similarity=0.199 Sum_probs=64.1
Q ss_pred HHHHHHHHHHHhhCCcccc-hhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHh
Q psy3489 5 QDFYETTLEALKDAKNDRL-WFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTA 83 (129)
Q Consensus 5 ~~fYe~TL~aL~~~~NeRL-WfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~ 83 (129)
.++|+.+|.-.++..|+.. |--++.+||.++-..+.|...-.-.+.-...|+ +-.++||--==.|..
T Consensus 434 ~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~------------k~~~~~asig~iy~l 501 (611)
T KOG1173|consen 434 LKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP------------KDASTHASIGYIYHL 501 (611)
T ss_pred HHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC------------CchhHHHHHHHHHHH
Confidence 3567777777777777776 999999999999888888776655555555544 456677766668888
Q ss_pred hhchHHHHHHHHHHHhh
Q psy3489 84 QKNNKKLKKLYELIQVK 100 (129)
Q Consensus 84 ~kn~kkLk~lY~~i~~~ 100 (129)
+||..+=.+-|.+++..
T Consensus 502 lgnld~Aid~fhKaL~l 518 (611)
T KOG1173|consen 502 LGNLDKAIDHFHKALAL 518 (611)
T ss_pred hcChHHHHHHHHHHHhc
Confidence 99999888999998633
No 33
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=35.57 E-value=28 Score=22.83 Aligned_cols=27 Identities=30% Similarity=0.639 Sum_probs=23.0
Q ss_pred cccccCCChHHHHHHHHHHHHHhhhhc
Q psy3489 102 SEQNIMDDPFIREHIEDLLRNIRTQVM 128 (129)
Q Consensus 102 n~~~~~~~PfI~~~I~e~~~~~r~~~~ 128 (129)
+......+|++..+++.+.+++|...+
T Consensus 25 ~~~~~~~~~~l~~~~~~l~~~i~~~~l 51 (105)
T PF01399_consen 25 HSESLFKDPFLAEYVEQLKEKIRRRNL 51 (105)
T ss_dssp TCHHHHHCTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCccHHHHHHHHHHHHHHHHH
Confidence 457778899999999999999998764
No 34
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=35.09 E-value=89 Score=17.74 Aligned_cols=56 Identities=16% Similarity=0.240 Sum_probs=26.4
Q ss_pred hhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 30 KLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 30 KLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
.+|..++..++|......+.+..+... . +. +++..-..+|...++..+=.+.|+++
T Consensus 5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~---~--~~-------~~~~~~~~~~~~~~~~~~a~~~~~~~ 60 (100)
T cd00189 5 NLGNLYYKLGDYDEALEYYEKALELDP---D--NA-------DAYYNLAAAYYKLGKYEEALEDYEKA 60 (100)
T ss_pred HHHHHHHHHhcHHHHHHHHHHHHhcCC---c--cH-------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555666666555555544443321 0 00 33333444455555555545555554
No 35
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=34.86 E-value=51 Score=29.10 Aligned_cols=61 Identities=21% Similarity=0.291 Sum_probs=47.1
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHH
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKL 93 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~l 93 (129)
-..|++-++++.+.|...-.+|..|...+..-| |- -.|.+|+-+|--.|-+.+|.+|=|.-
T Consensus 127 Le~Kli~l~y~~~~YsdalalIn~ll~ElKk~D---DK---~~Li~vhllESKvyh~irnv~KskaS 187 (421)
T COG5159 127 LECKLIYLLYKTGKYSDALALINPLLHELKKYD---DK---INLITVHLLESKVYHEIRNVSKSKAS 187 (421)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHHHHHHHhhc---Cc---cceeehhhhhHHHHHHHHhhhhhhhH
Confidence 456899999999999887777766666555333 32 26899999999999999999976543
No 36
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=34.58 E-value=2.8e+02 Score=23.36 Aligned_cols=58 Identities=9% Similarity=0.175 Sum_probs=46.6
Q ss_pred hhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 29 TKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
+-.+.++++.|+|+.....+..+.+.-. .-..+..+..++|..++|.....+++++..
T Consensus 157 ~~~a~l~l~~~~~~~Al~~l~~l~~~~P------------~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~ 214 (409)
T TIGR00540 157 IARTRILLAQNELHAARHGVDKLLEMAP------------RHKEVLKLAEEAYIRSGAWQALDDIIDNMA 214 (409)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHhCC------------CCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 3358999999999999888888887732 122567788889999999999999999984
No 37
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=33.83 E-value=1.1e+02 Score=18.34 Aligned_cols=52 Identities=19% Similarity=0.225 Sum_probs=40.6
Q ss_pred hhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 35 YFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 35 ~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
+++.|+|+.....++++...-. .-.++...-.+.|.++++..+=.++++++.
T Consensus 1 ll~~~~~~~A~~~~~~~l~~~p------------~~~~~~~~la~~~~~~g~~~~A~~~l~~~~ 52 (68)
T PF14559_consen 1 LLKQGDYDEAIELLEKALQRNP------------DNPEARLLLAQCYLKQGQYDEAEELLERLL 52 (68)
T ss_dssp HHHTTHHHHHHHHHHHHHHHTT------------TSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred ChhccCHHHHHHHHHHHHHHCC------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 3678999999999999887743 134566667889999999999899998874
No 38
>PF13040 DUF3901: Protein of unknown function (DUF3901)
Probab=33.54 E-value=31 Score=21.19 Aligned_cols=28 Identities=21% Similarity=0.450 Sum_probs=21.1
Q ss_pred HHHHHhhhcccccCCChHHHHHHHHHHHH
Q psy3489 94 YELIQVKSSEQNIMDDPFIREHIEDLLRN 122 (129)
Q Consensus 94 Y~~i~~~~n~~~~~~~PfI~~~I~e~~~~ 122 (129)
|+... .-|...+|.||.-++.|++=+..
T Consensus 8 FeeLV-~eNK~ell~d~~~me~Ieerie~ 35 (40)
T PF13040_consen 8 FEELV-RENKQELLNDKEAMEKIEERIEE 35 (40)
T ss_pred HHHHH-HHHHHHHHcCHHHHHHHHHHHHH
Confidence 45543 34788999999999999986643
No 39
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=32.65 E-value=2.4e+02 Score=21.98 Aligned_cols=74 Identities=26% Similarity=0.308 Sum_probs=47.9
Q ss_pred hHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhhcccccCCCh
Q psy3489 31 LGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKSSEQNIMDDP 110 (129)
Q Consensus 31 LakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~n~~~~~~~P 110 (129)
++.++++.|+++++..+++.+.+... +|+ .+.+.+| ..|...++.++=-..|++.. +.+ =.||
T Consensus 186 l~~~li~~~~~~~~~~~l~~~~~~~~-----~~~----~~~~~la---~~~~~lg~~~~Al~~~~~~~-~~~----p~d~ 248 (280)
T PF13429_consen 186 LAWLLIDMGDYDEAREALKRLLKAAP-----DDP----DLWDALA---AAYLQLGRYEEALEYLEKAL-KLN----PDDP 248 (280)
T ss_dssp HHHHHCTTCHHHHHHHHHHHHHHH-H-----TSC----CHCHHHH---HHHHHHT-HHHHHHHHHHHH-HHS----TT-H
T ss_pred HHHHHHHCCChHHHHHHHHHHHHHCc-----CHH----HHHHHHH---HHhccccccccccccccccc-ccc----cccc
Confidence 67778888888888888888877762 111 2444443 46777788887777788873 322 3588
Q ss_pred HHHHHHHHHHH
Q psy3489 111 FIREHIEDLLR 121 (129)
Q Consensus 111 fI~~~I~e~~~ 121 (129)
.++-+.=+++.
T Consensus 249 ~~~~~~a~~l~ 259 (280)
T PF13429_consen 249 LWLLAYADALE 259 (280)
T ss_dssp HHHHHHHHHHT
T ss_pred ccccccccccc
Confidence 88888777764
No 40
>PF14669 Asp_Glu_race_2: Putative aspartate racemase
Probab=31.93 E-value=56 Score=27.06 Aligned_cols=64 Identities=30% Similarity=0.329 Sum_probs=41.4
Q ss_pred HhhchhhhhHHHHHHHHHHHhccCCCCC---------ccccchhH-HHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 34 LYFDREDFNKLSRILKQLHQSCQTDDGE---------DDLKKGTQ-LLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 34 L~ld~~ey~~l~~~l~~L~~~c~~~dg~---------dd~~kgt~-lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
+.||-+-++-+.+++-+|+.+=+.-|.. ..+.++-. -+...-.||+.|.+.+|..+|..+|-..
T Consensus 4 m~l~~Eh~~yiiklL~qlq~s~qEi~~vl~~KsR~~~~~~~~~~~~~l~~~~~eie~Ckek~DW~klg~ly~nv 77 (233)
T PF14669_consen 4 MVLDPEHFNYIIKLLYQLQASKQEIDAVLEIKSRLQARQFKKNWLSDLASAVVEIEHCKEKGDWTKLGNLYINV 77 (233)
T ss_pred ccCCHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhhhccHHHHhhHHhhH
Confidence 4556666666666666666654422111 12222222 4566789999999999999999998654
No 41
>PF11537 DUF3227: Protein of unknown function (DUF3227); InterPro: IPR021609 This archaeal family of proteins has no known function. ; PDB: 2P9X_C.
Probab=31.62 E-value=80 Score=23.18 Aligned_cols=54 Identities=20% Similarity=0.338 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhhCCcccchhhhhhhhHHHhh-chhhhhHHHHHHHHHHHhccCCC
Q psy3489 5 QDFYETTLEALKDAKNDRLWFKTNTKLGKLYF-DREDFNKLSRILKQLHQSCQTDD 59 (129)
Q Consensus 5 ~~fYe~TL~aL~~~~NeRLWfKtnlKLakL~l-d~~ey~~l~~~l~~L~~~c~~~d 59 (129)
.+||++.-+.|-+. +-||.+-.=+.-.++.+ .+.|-+.+.+++.+|++--.-+|
T Consensus 47 ~~F~~avsklfGe~-sA~l~~~~ii~~l~~~~~~~~ei~~le~~ve~~kk~~g~~~ 101 (102)
T PF11537_consen 47 KKFYEAVSKLFGEY-SARLFEMMIINELKLKVGKEEEIEDLEELVEELKKIYGVED 101 (102)
T ss_dssp HHHHHHHHHHH-HH-HHHHHHHHHHHHHHHHC-TT---SSHHHHHHHHHHHCT---
T ss_pred HHHHHHHHHHHHHh-HHHHHHHHHHHHHHhcccccccHhhHHHHHHHHHHHhCccC
Confidence 47888888888877 67888777777777777 56788888888888887654443
No 42
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=30.49 E-value=1.9e+02 Score=20.20 Aligned_cols=61 Identities=15% Similarity=0.122 Sum_probs=38.4
Q ss_pred hhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 25 FKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 25 fKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
......+|..++..++|.+....+.+..+.-. + ..+.+..-...|..+++..+-.+.|++.
T Consensus 31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p--~----------~~~~~~~la~~~~~~~~~~~A~~~~~~a 91 (234)
T TIGR02521 31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDP--D----------DYLAYLALALYYQQLGELEKAEDSFRRA 91 (234)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc--c----------cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 34556789999999999998888777655421 0 1234444455566666666555566655
No 43
>PF08771 Rapamycin_bind: Rapamycin binding domain; InterPro: IPR009076 Rapamycin and FK506 are potent immunosuppressive agents that bind to the FK506-binding protein (FKBP12), inhibiting its peptidyl-prolyl isomerase activity. The rapamycin-FKBP12 complex can then bind to and inhibit the FKBP12-rapamycin-associated protein (FRAP) in humans and RAFT1 in rats, causing cell-cycle arrest []. The FK506-FKBP12 complex cannot bind FRAP, but can bind to and inhibit calcineurin. Rapamycin is able to bind to two proteins, FKBP12 and FRAP, by simultaneously occupying two hydrophobic binding pockets, thereby linking these two proteins together to form a dimer []. The structure of the FKBP12-rapamycin-binding domain of FRAP consists of a core bundle of four helices arranged up-and-down in a left-handed twist. FRAP has been shown to interact in vitro with CLIP-170, a protein involved in microtubule organisation and function []. FRAP is thought to act as a kinase to phosphorylate CLIP-170, thereby regulating its binding to microtubules. FRAP is also thought to cooperate with p85/p110 phosphatidylinositol 3-kinase (PI3K) to induce the activation of the serine/threonine kinase p70 S6 kinase (p70S6K), which in turn phosphorylates the 40S ribosomal protein S6, thereby altering the translation of ribosomal proteins and translation elongation factors [].; GO: 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 2NPU_A 2RSE_B 4FAP_B 1AUE_A 2GAQ_A 1FAP_B 2FAP_B 3FAP_B 1NSG_B.
Probab=29.78 E-value=1.8e+02 Score=20.47 Aligned_cols=59 Identities=22% Similarity=0.423 Sum_probs=33.6
Q ss_pred HHHhhchhhhhHHHHHHHHHHHhccCCCCC-cc----ccchhHHHHHHHHHHHHHHhhhchHHHH
Q psy3489 32 GKLYFDREDFNKLSRILKQLHQSCQTDDGE-DD----LKKGTQLLEIYALEIQMYTAQKNNKKLK 91 (129)
Q Consensus 32 akL~ld~~ey~~l~~~l~~L~~~c~~~dg~-dd----~~kgt~lLEiyALEIQmyt~~kn~kkLk 91 (129)
.++|+..+++..+-++|..||+....+..+ .| ..=|..|-+.... .+=|.+++|..-|.
T Consensus 21 s~~y~~~~n~~~m~~~L~pLh~~l~k~PeT~~E~~F~~~fg~~L~~A~~~-~~~y~~t~~~~~l~ 84 (100)
T PF08771_consen 21 SRLYFGENNVEKMFKILEPLHEMLEKGPETLREVSFAQAFGRDLQEAREW-LKRYERTGDETDLN 84 (100)
T ss_dssp HHHHHTTT-HHHHHHHHHHHHHHHHHS-SSHHHHHHHHHHHHHHHHHHHH-HHHHHHH--HHHHH
T ss_pred HHHHHhhcCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHH-HHHHhhhCCHhhHH
Confidence 467788899999999999999998863332 22 2233444444333 22445555555444
No 44
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=28.57 E-value=47 Score=17.40 Aligned_cols=21 Identities=19% Similarity=0.385 Sum_probs=17.5
Q ss_pred hhhHHHhhchhhhhHHHHHHH
Q psy3489 29 TKLGKLYFDREDFNKLSRILK 49 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~ 49 (129)
+.||..++..|+++.....++
T Consensus 5 ~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 5 LALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHcCCHHHHHHHHh
Confidence 468999999999998887664
No 45
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=28.46 E-value=1.5e+02 Score=18.33 Aligned_cols=67 Identities=7% Similarity=0.092 Sum_probs=49.4
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
+-..+|.+|.+.|+|++..+..++--.-++ ..|. ....+..++..=-..|...++..+=.+.|++++
T Consensus 7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~----~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 7 AYNNLARVYRELGRYDEALDYYEKALDIEE-QLGD----DHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHHH-HTTT----HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-HHCC----CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 445789999999999999988877766643 2222 233567777777788999999998888888874
No 46
>KOG2908|consensus
Probab=26.96 E-value=3.5e+02 Score=24.08 Aligned_cols=58 Identities=19% Similarity=0.324 Sum_probs=46.3
Q ss_pred hhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchH
Q psy3489 27 TNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNK 88 (129)
Q Consensus 27 tnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~k 88 (129)
.-+-.|+++|+.+|...+.++|.++.+....-+|.+..-.++| |.+=-|+|-..+|..
T Consensus 117 ~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~f----Y~lssqYyk~~~d~a 174 (380)
T KOG2908|consen 117 ILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSF----YSLSSQYYKKIGDFA 174 (380)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhH----HHHHHHHHHHHHhHH
Confidence 4555677788999999999999999999988888776555553 777778887777665
No 47
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=26.52 E-value=2.1e+02 Score=19.43 Aligned_cols=77 Identities=21% Similarity=0.336 Sum_probs=47.8
Q ss_pred hHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHH--HHHHHHHHHhhhchHHHHHHHHHHHhhhcccccCC
Q psy3489 31 LGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEI--YALEIQMYTAQKNNKKLKKLYELIQVKSSEQNIMD 108 (129)
Q Consensus 31 LakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEi--yALEIQmyt~~kn~kkLk~lY~~i~~~~n~~~~~~ 108 (129)
+-.-+.+.|+|.++...|++-...|+ ..=+| ++-|+ +-....++-..-+++..+. - .....||
T Consensus 6 i~~~L~~sGe~~~L~~~L~~rL~e~G------------W~d~vr~~~re~-i~~~g~~~~~~~~l~~~i~-P-~Ar~~VP 70 (86)
T PF10163_consen 6 IQQRLVESGEYERLKELLRQRLIECG------------WRDEVRQLCREI-IRERGIDNLTFEDLLEEIT-P-KARAMVP 70 (86)
T ss_dssp HHHHHHHCTHHHHHHHHHHHHHHHTT------------HHHHHHHHHHHH-HHHH-TTTSBHHHHHHHHH-H-HHHHCS-
T ss_pred HHHHHHHcCcHHHHHHHHHHHHHHCC------------hHHHHHHHHHHH-HHhhCCCCCCHHHHHHHHH-H-HHHHHCC
Confidence 34457789999999999988888775 22233 44444 2223345666788888884 2 3445555
Q ss_pred ChHHHHHHHHHHHHHhhh
Q psy3489 109 DPFIREHIEDLLRNIRTQ 126 (129)
Q Consensus 109 ~PfI~~~I~e~~~~~r~~ 126 (129)
+. +=+|++..||+.
T Consensus 71 ~~----vk~ell~~Ir~~ 84 (86)
T PF10163_consen 71 DE----VKKELLQRIRAF 84 (86)
T ss_dssp HH----HHHHHHHHHHHH
T ss_pred HH----HHHHHHHHHHHH
Confidence 53 446677777764
No 48
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=26.20 E-value=3.1e+02 Score=21.37 Aligned_cols=71 Identities=14% Similarity=0.245 Sum_probs=34.6
Q ss_pred HHhhCCcccchhhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHH
Q psy3489 14 ALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKL 93 (129)
Q Consensus 14 aL~~~~NeRLWfKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~l 93 (129)
+++..++.+.|.. .+.++...++|+++..+++.+......+ .-..++..-..+|.+.++.++=.+.
T Consensus 103 ~~~~~~~~~~l~~----~l~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~~~~~~~~a~~~~~~G~~~~A~~~ 168 (280)
T PF13429_consen 103 AYERDGDPRYLLS----ALQLYYRLGDYDEAEELLEKLEELPAAP----------DSARFWLALAEIYEQLGDPDKALRD 168 (280)
T ss_dssp -------------------H-HHHTT-HHHHHHHHHHHHH-T-------------T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred ccccccccchhhH----HHHHHHHHhHHHHHHHHHHHHHhccCCC----------CCHHHHHHHHHHHHHcCCHHHHHHH
Confidence 3444455555532 5677788899999998888877533211 1233444445567777777777777
Q ss_pred HHHHH
Q psy3489 94 YELIQ 98 (129)
Q Consensus 94 Y~~i~ 98 (129)
|++.+
T Consensus 169 ~~~al 173 (280)
T PF13429_consen 169 YRKAL 173 (280)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 77774
No 49
>PF13106 DUF3961: Domain of unknown function (DUF3961)
Probab=25.81 E-value=21 Score=22.06 Aligned_cols=12 Identities=33% Similarity=1.093 Sum_probs=9.3
Q ss_pred HhhCCcccchhh
Q psy3489 15 LKDAKNDRLWFK 26 (129)
Q Consensus 15 L~~~~NeRLWfK 26 (129)
++++++||+||=
T Consensus 9 ie~~~sdqIWFY 20 (40)
T PF13106_consen 9 IEECKSDQIWFY 20 (40)
T ss_pred ccccccccEEEe
Confidence 456889999974
No 50
>KOG0584|consensus
Probab=25.54 E-value=84 Score=29.62 Aligned_cols=50 Identities=30% Similarity=0.541 Sum_probs=32.1
Q ss_pred HHHHHHH---HHHHHHHhhh-----chHHHHHHHHHHHhhhccc----ccCCChHHHHHHHHHHHH
Q psy3489 69 QLLEIYA---LEIQMYTAQK-----NNKKLKKLYELIQVKSSEQ----NIMDDPFIREHIEDLLRN 122 (129)
Q Consensus 69 ~lLEiyA---LEIQmyt~~k-----n~kkLk~lY~~i~~~~n~~----~~~~~PfI~~~I~e~~~~ 122 (129)
-+.+||| +=++|.|--- .|+ -++|.+.. +.+. .=+.||-+|++||-||+.
T Consensus 222 E~VDVYaFGMCmLEMvT~eYPYsEC~n~--AQIYKKV~--SGiKP~sl~kV~dPevr~fIekCl~~ 283 (632)
T KOG0584|consen 222 ELVDVYAFGMCMLEMVTSEYPYSECTNP--AQIYKKVT--SGIKPAALSKVKDPEVREFIEKCLAT 283 (632)
T ss_pred hhhhhhhhhHHHHHHHhccCChhhhCCH--HHHHHHHH--cCCCHHHhhccCCHHHHHHHHHHhcC
Confidence 3566777 3344433321 333 68999964 3332 237899999999999976
No 51
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=24.90 E-value=1.3e+02 Score=19.21 Aligned_cols=21 Identities=19% Similarity=0.581 Sum_probs=18.7
Q ss_pred hhHHHhhchhhhhHHHHHHHH
Q psy3489 30 KLGKLYFDREDFNKLSRILKQ 50 (129)
Q Consensus 30 KLakL~ld~~ey~~l~~~l~~ 50 (129)
.+|..++..|+|.+...+++.
T Consensus 30 ~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 30 NLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp HHHHHHHHTTHHHHHHHHHHC
T ss_pred HHHHHHHHCCCHHHHHHHHHH
Confidence 389999999999999988876
No 52
>PF03592 Terminase_2: Terminase small subunit ; InterPro: IPR005335 Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].; GO: 0006323 DNA packaging; PDB: 3ZQP_B 2CMP_A 3ZQO_C 3ZQN_B 3ZQQ_B 3ZQM_D.
Probab=24.85 E-value=51 Score=23.93 Aligned_cols=23 Identities=17% Similarity=0.515 Sum_probs=19.5
Q ss_pred cccccCCChHHHHHHHHHHHHHh
Q psy3489 102 SEQNIMDDPFIREHIEDLLRNIR 124 (129)
Q Consensus 102 n~~~~~~~PfI~~~I~e~~~~~r 124 (129)
+-+.++.+|.|++.|++++..++
T Consensus 35 ~asrLL~n~~V~~~I~~~~~e~~ 57 (144)
T PF03592_consen 35 NASRLLRNPKVKAYIEELMKERE 57 (144)
T ss_dssp HHHHHTTSHHHHHHHHHHHHHHS
T ss_pred HHHHHHcCCchHHHHHHHHHHHH
Confidence 56678999999999999987665
No 53
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat. It carries the region of enzymic activity between residues 320 and 344 at the extreme C-terminal end []. Oligoadenylate synthetases are antiviral enzymes that counteract viral attack by degrading viral RNA. The enzyme uses ATP in 2'-specific nucleotidyl transfer reactions to synthesise 2'.5'-oligoadenylates, which activate latent ribonuclease, resulting in degradation of viral RNA and inhibition of virus replication []. This domain is often associated with IPR002934 from INTERPRO. ; PDB: 1PX5_B.
Probab=24.85 E-value=3.7e+02 Score=21.58 Aligned_cols=116 Identities=15% Similarity=0.232 Sum_probs=56.7
Q ss_pred HHHHHHHHHHhhCCcccchhhhhhh-hHHHhhchhhhhHHHHHHHHHHHh---ccCCCCCccccchhHHHHH---HHHHH
Q psy3489 6 DFYETTLEALKDAKNDRLWFKTNTK-LGKLYFDREDFNKLSRILKQLHQS---CQTDDGEDDLKKGTQLLEI---YALEI 78 (129)
Q Consensus 6 ~fYe~TL~aL~~~~NeRLWfKtnlK-LakL~ld~~ey~~l~~~l~~L~~~---c~~~dg~dd~~kgt~lLEi---yALEI 78 (129)
++|...+....... .+=+|-++.- |=+=|+.. .=.++..+|+-+..+ |.......+....+|.||. ||=|+
T Consensus 7 ~vY~~Li~~~~~~~-~~gefS~cftelQ~~Fvk~-rP~klK~LIrLVKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~ 84 (190)
T PF10421_consen 7 QVYRDLIRECDMSE-KPGEFSACFTELQRNFVKH-RPTKLKNLIRLVKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQ 84 (190)
T ss_dssp HHHHHHHHHHHHHT--TTTTGGGGHHHHHHHHHT-S-HHHHHHHHHHHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCCCC-CCccchHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHh
Confidence 56777777666444 4556665543 33333333 346777777666554 4444333456667788885 88887
Q ss_pred HHHHhhhch--H-HHHHH------HHHHHhhhcccccCCChHHHHHHHHHHHHHhh
Q psy3489 79 QMYTAQKNN--K-KLKKL------YELIQVKSSEQNIMDDPFIREHIEDLLRNIRT 125 (129)
Q Consensus 79 Qmyt~~kn~--k-kLk~l------Y~~i~~~~n~~~~~~~PfI~~~I~e~~~~~r~ 125 (129)
- ....+. . -++.+ |+++..-=+..=-+.||.|+++...-|+.-|-
T Consensus 85 g--~~~~~F~~a~gfrtVLeLi~~y~~LcIyWt~~Y~f~~~~v~~~l~~qL~~~RP 138 (190)
T PF10421_consen 85 G--CGAEDFSTAEGFRTVLELIQKYEQLCIYWTVYYDFEDETVRNYLQSQLKKPRP 138 (190)
T ss_dssp H--T-SSS--HHHHHHHHHHHHHCGGG-EE---SS--SSSHHHHHHHHHHHTSSS-
T ss_pred c--CCCcCcchhhhHhHHHHHHhCcceeEEEecccCCCcCHHHHHHHHHhhccCCC
Confidence 4 222222 1 12222 33322111222336899999988777765443
No 54
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=24.10 E-value=1.1e+02 Score=15.32 Aligned_cols=26 Identities=12% Similarity=0.210 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 73 IYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 73 iyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
+|..=|+.|.+.++..+..++|++..
T Consensus 2 ~y~~li~~~~~~~~~~~a~~~~~~M~ 27 (31)
T PF01535_consen 2 TYNSLISGYCKMGQFEEALEVFDEMR 27 (31)
T ss_pred cHHHHHHHHHccchHHHHHHHHHHHh
Confidence 36777899999999999999999874
No 55
>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins. The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].
Probab=23.61 E-value=2.5e+02 Score=19.80 Aligned_cols=40 Identities=23% Similarity=0.331 Sum_probs=25.7
Q ss_pred HHhhhchHHHHHHHHHHHhhhcccccCCChHHHHHHHHHHHHHhh
Q psy3489 81 YTAQKNNKKLKKLYELIQVKSSEQNIMDDPFIREHIEDLLRNIRT 125 (129)
Q Consensus 81 yt~~kn~kkLk~lY~~i~~~~n~~~~~~~PfI~~~I~e~~~~~r~ 125 (129)
+|+.+|.+.|-.+|++- .+.+-..|--+.-|++.++.-|.
T Consensus 6 ~tK~rni~eLi~fY~ky-----~~~~~L~~~~r~~~d~~i~~y~~ 45 (85)
T PF07240_consen 6 ATKIRNIQELIAFYEKY-----SPRLPLTPQDRQRIDRFIRRYKE 45 (85)
T ss_pred HHHHhhHHHHHHHHHHc-----CccCCCCHHHHHHHHHHHHHHHH
Confidence 57778999999999995 22333445555555555554443
No 56
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=22.97 E-value=2.7e+02 Score=19.41 Aligned_cols=58 Identities=19% Similarity=0.147 Sum_probs=36.9
Q ss_pred hhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 29 TKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
..+|..+.+.|+++.....+.+..+... + -.+.+-.-.+.|...++..+-.+.|++..
T Consensus 139 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~---------~~~~~~~la~~~~~~~~~~~A~~~~~~~~ 196 (234)
T TIGR02521 139 ENAGLCALKAGDFDKAEKYLTRALQIDP---Q---------RPESLLELAELYYLRGQYKDARAYLERYQ 196 (234)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHhCc---C---------ChHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 3467777777777777766666555421 0 02334445567778888888888888874
No 57
>PF08632 Zds_C: Activator of mitotic machinery Cdc14 phosphatase activation C-term; InterPro: IPR013941 This region of the Zds1 protein is critical for sporulation and has also been shown to suppress the calcium sensitivity of Zds1 deletions []. The C-terminal motif is common to both Zds1 and Zds2 proteins, both of which are putative interactors of Cdc55 and are required for the completion of mitotic exit and cytokinesis. They both contribute to timely Cdc14 activation during mitotic exit and are required downstream of separase to facilitate nucleolar Cdc14 release[].
Probab=22.92 E-value=61 Score=21.11 Aligned_cols=15 Identities=27% Similarity=0.682 Sum_probs=10.0
Q ss_pred HHHHHHHHhhhcccccCCChH
Q psy3489 91 KKLYELIQVKSSEQNIMDDPF 111 (129)
Q Consensus 91 k~lY~~i~~~~n~~~~~~~Pf 111 (129)
+++|+-++.| +++|+
T Consensus 18 RaIYrlsH~K------Lanp~ 32 (53)
T PF08632_consen 18 RAIYRLSHLK------LANPK 32 (53)
T ss_pred HHHHHHHHHH------hcCCc
Confidence 5677777766 55664
No 58
>smart00147 RasGEF Guanine nucleotide exchange factor for Ras-like small GTPases.
Probab=22.29 E-value=2.5e+02 Score=21.84 Aligned_cols=88 Identities=16% Similarity=0.262 Sum_probs=50.3
Q ss_pred hhhhhhhHHHhhchhhhhHHHHHHHHHHHhccCC-CCC-ccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHHHhhhc
Q psy3489 25 FKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTD-DGE-DDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELIQVKSS 102 (129)
Q Consensus 25 fKtnlKLakL~ld~~ey~~l~~~l~~L~~~c~~~-dg~-dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i~~~~n 102 (129)
++-=++.|.-..+.++|+.+..++..|+..+=.. ..+ +..+ .-..+.|.---.+++..+|.+.+++.++++ +
T Consensus 78 i~~fI~ia~~l~~l~Nfns~~aI~~~L~~~~I~RL~~tw~~l~--~~~~~~~~~L~~l~s~~~n~~~yR~~l~~~----~ 151 (242)
T smart00147 78 LSKFIQVAKHCRELNNFNSLMAIVSALSSSPISRLKKTWEKLP--SKYKKLFEELEELLSPERNFKNYREALSSC----N 151 (242)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHhCChHHhhhHHHHHHCC--HHHHHHHHHHHHHcCChhHHHHHHHHHHhc----C
Confidence 4555678888889999999999998887653210 000 0000 011233333333455557777766665544 1
Q ss_pred ccccCCChHHHHHHHHHH
Q psy3489 103 EQNIMDDPFIREHIEDLL 120 (129)
Q Consensus 103 ~~~~~~~PfI~~~I~e~~ 120 (129)
...++ ||+.-++.|+.
T Consensus 152 ~~p~I--P~lg~~l~dl~ 167 (242)
T smart00147 152 LPPCV--PFLGVLLKDLT 167 (242)
T ss_pred CCCCc--cchHHHHHHHH
Confidence 13333 77777777765
No 59
>PF07870 DUF1657: Protein of unknown function (DUF1657); InterPro: IPR012452 This domain appears to be restricted to the Bacillales.
Probab=21.08 E-value=2.2e+02 Score=17.72 Aligned_cols=22 Identities=32% Similarity=0.551 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHhhhchHHHHHHHHHHH
Q psy3489 70 LLEIYALEIQMYTAQKNNKKLKKLYELIQ 98 (129)
Q Consensus 70 lLEiyALEIQmyt~~kn~kkLk~lY~~i~ 98 (129)
-||.||++= .++.-|++|++..
T Consensus 15 ~Le~fal~T-------~d~~AK~~y~~~a 36 (50)
T PF07870_consen 15 DLETFALQT-------QDQEAKQMYEQAA 36 (50)
T ss_pred hHHHHHhhc-------CCHHHHHHHHHHH
Confidence 366666654 7888899999974
No 60
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.00 E-value=41 Score=19.81 Aligned_cols=14 Identities=36% Similarity=0.795 Sum_probs=11.3
Q ss_pred HHHhhchhhhhHHH
Q psy3489 32 GKLYFDREDFNKLS 45 (129)
Q Consensus 32 akL~ld~~ey~~l~ 45 (129)
+-+|||.+||.++.
T Consensus 26 ~G~W~d~~el~~~~ 39 (41)
T PF13453_consen 26 GGIWFDAGELEKLL 39 (41)
T ss_pred CeEEccHHHHHHHH
Confidence 45799999998875
No 61
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=20.81 E-value=3.7e+02 Score=20.10 Aligned_cols=60 Identities=8% Similarity=0.115 Sum_probs=47.7
Q ss_pred hhhHHHhhchhhhhHHHHHHHHHHHhccCCCCCccccchhHHHHHHHHHHHHHHhhhchHHHHHHHHHH
Q psy3489 29 TKLGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKLKKLYELI 97 (129)
Q Consensus 29 lKLakL~ld~~ey~~l~~~l~~L~~~c~~~dg~dd~~kgt~lLEiyALEIQmyt~~kn~kkLk~lY~~i 97 (129)
..+|.+|+++|+|.+.......+...+.. +.+..+.+-.-...|...++..+-...++.+
T Consensus 170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~---------~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l 229 (235)
T TIGR03302 170 LYVARFYLKRGAYVAAINRFETVVENYPD---------TPATEEALARLVEAYLKLGLKDLAQDAAAVL 229 (235)
T ss_pred HHHHHHHHHcCChHHHHHHHHHHHHHCCC---------CcchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 46889999999999999998888888752 1345677777778888899988888877776
No 62
>KOG0575|consensus
Probab=20.42 E-value=25 Score=32.71 Aligned_cols=73 Identities=27% Similarity=0.428 Sum_probs=47.2
Q ss_pred hhhhhhhHHHhhc------hhhhhHHHHHHH---HHHHhccCCCCCcc--ccchhHHHH--HHHHHHHHHHhhh-----c
Q psy3489 25 FKTNTKLGKLYFD------REDFNKLSRILK---QLHQSCQTDDGEDD--LKKGTQLLE--IYALEIQMYTAQK-----N 86 (129)
Q Consensus 25 fKtnlKLakL~ld------~~ey~~l~~~l~---~L~~~c~~~dg~dd--~~kgt~lLE--iyALEIQmyt~~k-----n 86 (129)
.--.|||+||+|+ .|||+=...+=. .-..-|.+++=-.. ..|..+.+| |.|+=-=||+-.= .
T Consensus 140 iHRDLKLGNlfL~~~~~VKIgDFGLAt~le~~~Erk~TlCGTPNYIAPEVl~k~gHsfEvDiWSlGcvmYtLL~G~PPFe 219 (592)
T KOG0575|consen 140 IHRDLKLGNLFLNENMNVKIGDFGLATQLEYDGERKKTLCGTPNYIAPEVLNKSGHSFEVDIWSLGCVMYTLLVGRPPFE 219 (592)
T ss_pred eecccchhheeecCcCcEEecccceeeeecCcccccceecCCCcccChhHhccCCCCCchhhhhhhhHHHhhhhCCCCcc
Confidence 4457999999996 468886654331 12234665532211 234445555 4888888888753 7
Q ss_pred hHHHHHHHHHH
Q psy3489 87 NKKLKKLYELI 97 (129)
Q Consensus 87 ~kkLk~lY~~i 97 (129)
.+.+++.|++|
T Consensus 220 tk~vkety~~I 230 (592)
T KOG0575|consen 220 TKTVKETYNKI 230 (592)
T ss_pred cchHHHHHHHH
Confidence 77899999999
No 63
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=20.24 E-value=1.1e+02 Score=13.86 Aligned_cols=26 Identities=15% Similarity=0.313 Sum_probs=20.1
Q ss_pred hhhhHHHhhchhhhhHHHHHHHHHHH
Q psy3489 28 NTKLGKLYFDREDFNKLSRILKQLHQ 53 (129)
Q Consensus 28 nlKLakL~ld~~ey~~l~~~l~~L~~ 53 (129)
...+|.++...++|......+.+..+
T Consensus 4 ~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 4 LYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 45688999999999988877765543
Done!