Query 033437
Match_columns 119
No_of_seqs 112 out of 178
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 13:52:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033437.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033437hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1128 Uncharacterized conser 100.0 7.1E-35 1.5E-39 255.7 8.9 118 1-118 325-442 (777)
2 COG2956 Predicted N-acetylgluc 87.5 5.6 0.00012 34.0 8.9 73 20-113 74-167 (389)
3 PF13176 TPR_7: Tetratricopept 85.4 1.4 3.1E-05 24.3 3.1 21 79-99 4-24 (36)
4 PF07035 Mic1: Colon cancer-as 82.7 2.7 5.8E-05 31.9 4.5 91 15-115 7-104 (167)
5 PF13424 TPR_12: Tetratricopep 78.9 5.7 0.00012 24.6 4.5 43 72-114 3-53 (78)
6 PF13174 TPR_6: Tetratricopept 78.3 3.5 7.5E-05 21.2 2.9 22 79-100 5-26 (33)
7 cd00189 TPR Tetratricopeptide 76.5 9.2 0.0002 21.9 4.7 41 75-115 35-83 (100)
8 TIGR02552 LcrH_SycD type III s 75.8 4.8 0.0001 27.1 3.7 48 70-117 47-102 (135)
9 PF14559 TPR_19: Tetratricopep 74.6 5.2 0.00011 23.9 3.3 47 37-102 7-53 (68)
10 KOG1128 Uncharacterized conser 74.5 2.2 4.7E-05 39.4 2.2 83 17-109 652-765 (777)
11 PF07719 TPR_2: Tetratricopept 73.7 6.2 0.00013 20.4 3.1 23 78-100 5-27 (34)
12 PF13428 TPR_14: Tetratricopep 73.2 7.6 0.00017 22.0 3.6 25 76-100 3-27 (44)
13 KOG3060 Uncharacterized conser 72.0 34 0.00073 28.4 8.2 74 4-101 108-181 (289)
14 PLN03098 LPA1 LOW PSII ACCUMUL 70.9 11 0.00024 32.9 5.6 48 70-117 71-129 (453)
15 PF13374 TPR_10: Tetratricopep 70.0 7.4 0.00016 20.8 3.0 23 78-100 6-28 (42)
16 PF13371 TPR_9: Tetratricopept 68.6 8.7 0.00019 23.2 3.4 30 71-100 26-55 (73)
17 PF13181 TPR_8: Tetratricopept 68.2 8.9 0.00019 19.9 3.0 22 79-100 6-27 (34)
18 PF13432 TPR_16: Tetratricopep 66.1 17 0.00037 21.5 4.3 47 35-100 11-57 (65)
19 PF05997 Nop52: Nucleolar prot 64.8 7.3 0.00016 30.3 3.0 59 29-87 9-70 (217)
20 PF00515 TPR_1: Tetratricopept 64.4 12 0.00025 19.6 3.0 21 79-99 6-26 (34)
21 PF12854 PPR_1: PPR repeat 63.2 21 0.00045 19.4 3.9 23 78-100 11-33 (34)
22 PF00637 Clathrin: Region in C 62.9 2 4.3E-05 29.9 -0.5 36 78-113 74-109 (143)
23 PF13432 TPR_16: Tetratricopep 62.4 26 0.00056 20.7 4.6 38 79-116 2-47 (65)
24 PRK15359 type III secretion sy 60.7 27 0.00059 24.7 5.2 47 71-117 55-109 (144)
25 PRK10803 tol-pal system protei 60.0 52 0.0011 26.2 7.2 66 35-116 157-233 (263)
26 PF11817 Foie-gras_1: Foie gra 59.3 23 0.0005 27.6 4.9 41 76-117 180-235 (247)
27 TIGR03302 OM_YfiO outer membra 58.4 41 0.00089 24.9 6.0 27 75-101 204-230 (235)
28 PLN03081 pentatricopeptide (PP 58.3 18 0.0004 31.9 4.7 52 65-116 351-407 (697)
29 PRK11788 tetratricopeptide rep 57.4 31 0.00067 27.3 5.5 24 77-100 110-133 (389)
30 TIGR02552 LcrH_SycD type III s 56.6 24 0.00052 23.6 4.1 64 36-100 32-111 (135)
31 PF10602 RPN7: 26S proteasome 56.6 26 0.00056 26.2 4.6 47 41-100 16-62 (177)
32 PF09797 NatB_MDM20: N-acetylt 55.9 60 0.0013 26.5 7.0 36 67-102 210-245 (365)
33 PF00637 Clathrin: Region in C 55.1 13 0.00028 25.7 2.7 27 90-116 73-99 (143)
34 PF09295 ChAPs: ChAPs (Chs5p-A 54.0 1.4E+02 0.003 25.5 10.2 49 69-117 229-285 (395)
35 PRK14064 exodeoxyribonuclease 53.9 16 0.00034 24.2 2.7 30 33-62 4-33 (75)
36 PF04118 Dopey_N: Dopey, N-ter 53.9 12 0.00025 31.0 2.5 28 88-115 10-37 (307)
37 PLN03077 Protein ECB2; Provisi 52.8 35 0.00076 30.9 5.6 53 64-116 313-370 (857)
38 TIGR03504 FimV_Cterm FimV C-te 52.3 24 0.00053 20.9 3.1 25 77-101 2-26 (44)
39 PF13414 TPR_11: TPR repeat; P 52.1 22 0.00047 21.2 3.0 37 78-114 7-51 (69)
40 TIGR03302 OM_YfiO outer membra 51.2 28 0.0006 25.8 4.1 39 79-117 171-220 (235)
41 TIGR00756 PPR pentatricopeptid 51.2 19 0.00042 18.1 2.4 20 82-101 8-27 (35)
42 PF09145 Ubiq-assoc: Ubiquitin 50.4 16 0.00036 22.3 2.2 31 79-110 9-40 (46)
43 PLN03077 Protein ECB2; Provisi 50.2 44 0.00095 30.3 5.8 51 65-115 415-470 (857)
44 PRK14067 exodeoxyribonuclease 49.7 19 0.00042 24.1 2.7 31 32-62 4-34 (80)
45 PF01535 PPR: PPR repeat; Int 49.2 23 0.00049 17.6 2.4 19 82-100 8-26 (31)
46 PRK10866 outer membrane biogen 49.1 27 0.00058 27.3 3.8 59 37-99 140-200 (243)
47 PF02262 Cbl_N: CBL proto-onco 48.8 14 0.00031 27.2 2.0 22 33-54 6-27 (130)
48 PRK14069 exodeoxyribonuclease 48.6 20 0.00044 25.0 2.7 33 30-62 3-35 (95)
49 smart00028 TPR Tetratricopepti 48.3 27 0.00059 15.9 2.6 21 79-99 6-26 (34)
50 PF12895 Apc3: Anaphase-promot 48.1 23 0.00049 22.3 2.8 47 37-100 5-51 (84)
51 TIGR00990 3a0801s09 mitochondr 47.8 23 0.00051 30.7 3.6 41 77-117 130-177 (615)
52 smart00299 CLH Clathrin heavy 47.2 50 0.0011 22.7 4.6 30 81-110 76-105 (140)
53 PF07721 TPR_4: Tetratricopept 47.1 26 0.00056 17.9 2.4 23 77-99 4-26 (26)
54 PF12895 Apc3: Anaphase-promot 46.5 38 0.00083 21.2 3.7 25 75-99 59-83 (84)
55 PLN03081 pentatricopeptide (PP 44.8 52 0.0011 29.1 5.3 50 67-116 151-205 (697)
56 KOG0686 COP9 signalosome, subu 44.5 48 0.001 29.2 4.9 58 39-109 125-196 (466)
57 TIGR02521 type_IV_pilW type IV 44.1 83 0.0018 21.8 5.4 25 76-100 101-125 (234)
58 PF13812 PPR_3: Pentatricopept 43.2 44 0.00095 16.9 3.0 22 80-101 7-28 (34)
59 smart00299 CLH Clathrin heavy 43.0 33 0.00071 23.6 3.2 39 76-114 84-123 (140)
60 PF03704 BTAD: Bacterial trans 42.8 81 0.0018 21.6 5.2 75 36-117 21-113 (146)
61 PF13041 PPR_2: PPR repeat fam 41.5 29 0.00064 19.8 2.3 21 82-102 11-31 (50)
62 PLN03218 maturation of RBCL 1; 41.0 75 0.0016 30.5 6.0 51 66-116 676-735 (1060)
63 PRK14068 exodeoxyribonuclease 41.0 32 0.00069 22.8 2.7 30 34-63 5-34 (76)
64 PLN03218 maturation of RBCL 1; 40.0 1.4E+02 0.0031 28.6 7.7 45 71-115 576-629 (1060)
65 PF14561 TPR_20: Tetratricopep 39.8 67 0.0015 21.4 4.2 45 71-115 19-73 (90)
66 PF05843 Suf: Suppressor of fo 38.9 1.9E+02 0.0042 22.8 9.2 71 7-100 26-96 (280)
67 KOG2076 RNA polymerase III tra 37.3 72 0.0016 30.3 5.2 48 69-116 409-465 (895)
68 PF14938 SNAP: Soluble NSF att 36.5 55 0.0012 25.7 3.8 41 75-115 156-211 (282)
69 PRK14574 hmsH outer membrane p 36.4 99 0.0021 28.9 5.9 69 30-100 260-353 (822)
70 PF04184 ST7: ST7 protein; In 36.1 79 0.0017 28.4 5.0 46 70-115 255-310 (539)
71 PF02985 HEAT: HEAT repeat; I 35.3 45 0.00097 17.6 2.3 21 2-24 2-22 (31)
72 PRK14063 exodeoxyribonuclease 34.6 47 0.001 21.9 2.7 30 33-62 3-32 (76)
73 PF13525 YfiO: Outer membrane 33.1 60 0.0013 24.2 3.4 80 31-116 100-194 (203)
74 PRK14066 exodeoxyribonuclease 32.5 48 0.001 21.9 2.4 28 35-62 4-31 (75)
75 PRK10370 formate-dependent nit 31.7 78 0.0017 23.7 3.8 45 71-115 70-123 (198)
76 PF10366 Vps39_1: Vacuolar sor 31.5 95 0.0021 21.5 4.0 39 78-116 43-95 (108)
77 PRK11788 tetratricopeptide rep 31.4 2.6E+02 0.0056 22.0 10.0 46 71-116 211-265 (389)
78 PRK10803 tol-pal system protei 31.2 2E+02 0.0044 22.9 6.3 51 34-100 193-243 (263)
79 PRK15363 pathogenicity island 30.9 1.1E+02 0.0025 22.9 4.6 36 79-114 40-96 (157)
80 PF13515 FUSC_2: Fusaric acid 30.7 42 0.0009 22.5 2.0 42 2-43 2-43 (128)
81 PF02609 Exonuc_VII_S: Exonucl 29.9 51 0.0011 19.9 2.1 23 38-60 2-24 (53)
82 TIGR02917 PEP_TPR_lipo putativ 29.4 1.4E+02 0.003 25.5 5.3 45 71-115 564-616 (899)
83 PRK00977 exodeoxyribonuclease 29.1 58 0.0012 21.7 2.4 29 33-61 8-36 (80)
84 TIGR02917 PEP_TPR_lipo putativ 29.1 1.5E+02 0.0032 25.3 5.4 30 71-100 53-82 (899)
85 TIGR01280 xseB exodeoxyribonuc 28.9 61 0.0013 20.8 2.4 27 36-62 2-28 (67)
86 PF12688 TPR_5: Tetratrico pep 28.8 2E+02 0.0044 20.2 5.4 48 36-99 53-100 (120)
87 PF08060 NOSIC: NOSIC (NUC001) 28.3 14 0.0003 22.6 -0.7 31 42-72 3-33 (53)
88 KOG3911 Nucleolar protein NOP5 27.2 1.2E+02 0.0025 26.1 4.4 59 28-86 15-78 (378)
89 KOG1475 Ribosomal protein RPL1 27.1 71 0.0015 27.1 3.1 33 83-115 156-188 (363)
90 PF13429 TPR_15: Tetratricopep 27.0 45 0.00098 25.6 1.9 93 23-117 149-265 (280)
91 TIGR02521 type_IV_pilW type IV 26.2 2.2E+02 0.0048 19.5 5.3 27 73-99 134-160 (234)
92 PF12569 NARP1: NMDA receptor- 25.1 4.2E+02 0.0091 23.4 7.7 62 19-100 3-64 (517)
93 COG0082 AroC Chorismate syntha 25.0 70 0.0015 27.4 2.7 52 39-91 185-242 (369)
94 PF05008 V-SNARE: Vesicle tran 24.5 55 0.0012 20.8 1.6 28 35-62 28-57 (79)
95 PF09976 TPR_21: Tetratricopep 23.9 2E+02 0.0043 19.9 4.6 42 60-101 69-112 (145)
96 KOG2076 RNA polymerase III tra 23.8 1E+02 0.0022 29.4 3.7 43 60-102 224-269 (895)
97 KOG1538 Uncharacterized conser 23.4 1E+02 0.0022 29.1 3.7 35 78-112 649-683 (1081)
98 PF13512 TPR_18: Tetratricopep 22.4 3.3E+02 0.007 20.1 5.9 61 24-100 13-73 (142)
99 PF04910 Tcf25: Transcriptiona 22.2 2.6E+02 0.0056 23.3 5.6 65 35-100 61-129 (360)
100 PTZ00091 40S ribosomal protein 22.0 1.4E+02 0.003 23.4 3.7 68 44-113 98-173 (193)
101 KOG3060 Uncharacterized conser 22.0 1.2E+02 0.0026 25.2 3.5 31 70-100 82-112 (289)
102 PF13429 TPR_15: Tetratricopep 21.9 59 0.0013 24.9 1.6 31 70-100 244-274 (280)
103 PF09681 Phage_rep_org_N: N-te 21.8 50 0.0011 23.6 1.2 26 77-102 56-82 (121)
104 PF06578 YscK: YOP proteins tr 21.7 88 0.0019 24.7 2.6 64 21-86 124-191 (206)
105 PF12668 DUF3791: Protein of u 21.5 1.1E+02 0.0023 19.0 2.5 24 90-113 19-42 (62)
106 PRK11447 cellulose synthase su 21.5 7.2E+02 0.016 23.7 9.5 106 4-115 484-652 (1157)
107 PRK02603 photosystem I assembl 21.1 3.1E+02 0.0068 19.4 6.9 27 74-100 72-98 (172)
108 COG4105 ComL DNA uptake lipopr 20.4 3E+02 0.0066 22.3 5.5 81 12-99 105-192 (254)
109 KOG1785 Tyrosine kinase negati 20.2 2.3E+02 0.0049 25.2 4.9 36 33-68 43-92 (563)
110 TIGR01714 phage_rep_org_N phag 20.1 58 0.0013 23.4 1.2 27 76-102 53-80 (119)
111 COG4001 Predicted metal-bindin 20.0 97 0.0021 21.8 2.2 24 76-99 12-45 (102)
No 1
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=100.00 E-value=7.1e-35 Score=255.68 Aligned_cols=118 Identities=33% Similarity=0.449 Sum_probs=115.0
Q ss_pred ChhHHHHHHhccCCchHHHHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHH
Q 033437 1 MAPYIEAIDSQQSSCFILKFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEY 80 (119)
Q Consensus 1 m~pyi~~vl~~~~~~w~v~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~el 80 (119)
|.||++++|+|+..+|+|+.+|||+|+++|++++||||||+.|||.+|++++..++++.+|+.|+|+..+||+|++++++
T Consensus 325 l~p~~~~iL~q~~~~w~i~~salllr~~~E~~~~RtveR~~~q~q~lv~~iq~~e~~v~nRlsy~ya~~lpp~Wq~q~~l 404 (777)
T KOG1128|consen 325 LEPLTSTLLSQTEKYWSIQASALLLRFLLESTRSRTVERALSQMQFLVKAIQMKEYSVLNRLSYIYAPHLPPIWQLQRLL 404 (777)
T ss_pred HHHHHHHHhhccCCceeeehHHHHHHHHHHhcCccchhhHHHHHHHHHHHHhhccHhHHhcccccccCCCCCcchHHHHH
Confidence 57999999999977999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccHHHHHHHHHHhhcHHHHHHHhHhhcccCC
Q 033437 81 AKLLVSCGLIGEAIKNFEDLVLWDSLILQLPIGEESSS 118 (119)
Q Consensus 81 a~~~~slG~~~sAl~ife~LemWe~vI~Cy~~l~~~~~ 118 (119)
|+.++|+|++|||++|||||+||++||.||..+|+++|
T Consensus 405 aell~slGitksAl~I~Erlemw~~vi~CY~~lg~~~k 442 (777)
T KOG1128|consen 405 AELLLSLGITKSALVIFERLEMWDPVILCYLLLGQHGK 442 (777)
T ss_pred HHHHHHcchHHHHHHHHHhHHHHHHHHHHHHHhcccch
Confidence 99999999999999999999999999999999998765
No 2
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=87.54 E-value=5.6 Score=33.97 Aligned_cols=73 Identities=25% Similarity=0.311 Sum_probs=57.2
Q ss_pred HHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHH
Q 033437 20 FFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 20 s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~ 99 (119)
+.+=|.|||=| |+||+.-=|.|++ .++-+..+|+.-++ +||+-|++-|.+.-|-+||..
T Consensus 74 tLGnLfRsRGE------vDRAIRiHQ~L~~---spdlT~~qr~lAl~------------qL~~Dym~aGl~DRAE~~f~~ 132 (389)
T COG2956 74 TLGNLFRSRGE------VDRAIRIHQTLLE---SPDLTFEQRLLALQ------------QLGRDYMAAGLLDRAEDIFNQ 132 (389)
T ss_pred HHHHHHHhcch------HHHHHHHHHHHhc---CCCCchHHHHHHHH------------HHHHHHHHhhhhhHHHHHHHH
Confidence 55778888877 6899999999984 34445667775544 899999999999999888888
Q ss_pred hhc---------------------HHHHHHHhHhh
Q 033437 100 LVL---------------------WDSLILQLPIG 113 (119)
Q Consensus 100 Lem---------------------We~vI~Cy~~l 113 (119)
|-- |+.+|+|-..+
T Consensus 133 L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L 167 (389)
T COG2956 133 LVDEGEFAEGALQQLLNIYQATREWEKAIDVAERL 167 (389)
T ss_pred HhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 765 99999986543
No 3
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=85.44 E-value=1.4 Score=24.32 Aligned_cols=21 Identities=19% Similarity=0.332 Sum_probs=16.7
Q ss_pred HHHHHHHhcccHHHHHHHHHH
Q 033437 79 EYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~ 99 (119)
.||+.+...|-...|+++|++
T Consensus 4 ~Lg~~~~~~g~~~~Ai~~y~~ 24 (36)
T PF13176_consen 4 NLGRIYRQQGDYEKAIEYYEQ 24 (36)
T ss_dssp HHHHHHHHCT-HHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHH
Confidence 578888888888888888887
No 4
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=82.67 E-value=2.7 Score=31.90 Aligned_cols=91 Identities=14% Similarity=0.160 Sum_probs=58.6
Q ss_pred chHHHHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhh-cCCCcHhHHHHHHHHHHHhccc----
Q 033437 15 CFILKFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYV-ICIPTIPALRKEYAKLLVSCGL---- 89 (119)
Q Consensus 15 ~w~v~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~-~~~pp~W~l~~ela~~~~slG~---- 89 (119)
.|.+....-++||..+.+-. ++..+- .-||+.+-+..- ..++..+-. --+|+ .+++|-.++|+|.
T Consensus 7 ~yli~vllEYirSl~~~~i~--~~~~L~--~lli~lLi~~~~--~~~L~qllq~~Vi~D----Sk~lA~~LLs~~~~~~~ 76 (167)
T PF07035_consen 7 RYLIAVLLEYIRSLNQHNIP--VQHELY--ELLIDLLIRNGQ--FSQLHQLLQYHVIPD----SKPLACQLLSLGNQYPP 76 (167)
T ss_pred HHHHHHHHHHHHHHHHcCCC--CCHHHH--HHHHHHHHHcCC--HHHHHHHHhhcccCC----cHHHHHHHHHhHccChH
Confidence 67888888899998886643 444421 113333332221 223322211 12222 2788999999976
Q ss_pred -HHHHHHHHHHhh-cHHHHHHHhHhhcc
Q 033437 90 -IGEAIKNFEDLV-LWDSLILQLPIGEE 115 (119)
Q Consensus 90 -~~sAl~ife~Le-mWe~vI~Cy~~l~~ 115 (119)
..-|+|++.||+ .-|++|.|+-.-|+
T Consensus 77 ~~Ql~lDMLkRL~~~~~~iievLL~~g~ 104 (167)
T PF07035_consen 77 AYQLGLDMLKRLGTAYEEIIEVLLSKGQ 104 (167)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHhCCC
Confidence 788999999999 99999999877665
No 5
>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=78.86 E-value=5.7 Score=24.55 Aligned_cols=43 Identities=14% Similarity=0.066 Sum_probs=28.8
Q ss_pred cHhHHHHHHHHHHHhcccHHHHHHHHHHhh--------cHHHHHHHhHhhc
Q 033437 72 TIPALRKEYAKLLVSCGLIGEAIKNFEDLV--------LWDSLILQLPIGE 114 (119)
Q Consensus 72 p~W~l~~ela~~~~slG~~~sAl~ife~Le--------mWe~vI~Cy~~l~ 114 (119)
..-..-..+|..+...|-..+|++.|++-- -..+++.||..+|
T Consensus 3 ~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg 53 (78)
T PF13424_consen 3 DTANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLG 53 (78)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence 344555789999999999999998887632 2235566665554
No 6
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=78.34 E-value=3.5 Score=21.20 Aligned_cols=22 Identities=32% Similarity=0.391 Sum_probs=19.3
Q ss_pred HHHHHHHhcccHHHHHHHHHHh
Q 033437 79 EYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~L 100 (119)
.+|..+...|-...|.++|+++
T Consensus 5 ~~a~~~~~~g~~~~A~~~~~~~ 26 (33)
T PF13174_consen 5 RLARCYYKLGDYDEAIEYFQRL 26 (33)
T ss_dssp HHHHHHHHHCHHHHHHHHHHHH
T ss_pred HHHHHHHHccCHHHHHHHHHHH
Confidence 5788889999999999999876
No 7
>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=76.54 E-value=9.2 Score=21.87 Aligned_cols=41 Identities=17% Similarity=0.087 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhcccHHHHHHHHHHh--------hcHHHHHHHhHhhcc
Q 033437 75 ALRKEYAKLLVSCGLIGEAIKNFEDL--------VLWDSLILQLPIGEE 115 (119)
Q Consensus 75 ~l~~ela~~~~slG~~~sAl~ife~L--------emWe~vI~Cy~~l~~ 115 (119)
.....+|..+...|....|.+.|++. ..|-....+|...|+
T Consensus 35 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (100)
T cd00189 35 DAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGK 83 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHh
Confidence 44566777788888888888888764 356666677766655
No 8
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=75.80 E-value=4.8 Score=27.13 Aligned_cols=48 Identities=15% Similarity=-0.125 Sum_probs=34.5
Q ss_pred CCcHhHHHHHHHHHHHhcccHHHHHHHHHHh--------hcHHHHHHHhHhhcccC
Q 033437 70 IPTIPALRKEYAKLLVSCGLIGEAIKNFEDL--------VLWDSLILQLPIGEESS 117 (119)
Q Consensus 70 ~pp~W~l~~ela~~~~slG~~~sAl~ife~L--------emWe~vI~Cy~~l~~~~ 117 (119)
-|........+|..+...|-...|.++|++. +.|-....||...|+.+
T Consensus 47 ~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~ 102 (135)
T TIGR02552 47 DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPE 102 (135)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHH
Confidence 4666677778888888888888888888877 33555667777776643
No 9
>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=74.64 E-value=5.2 Score=23.93 Aligned_cols=47 Identities=23% Similarity=0.270 Sum_probs=34.7
Q ss_pred hhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhhc
Q 033437 37 KGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLVL 102 (119)
Q Consensus 37 vERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Lem 102 (119)
.+.|+..++.+++..+ ...++.-.+|+.++..|-+..|.++++++-.
T Consensus 7 ~~~A~~~~~~~l~~~p-------------------~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 7 YDEAIELLEKALQRNP-------------------DNPEARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HHHHHHHHHHHHHHTT-------------------TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred HHHHHHHHHHHHHHCC-------------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4566666666665543 4556667899999999999999999998743
No 10
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=74.54 E-value=2.2 Score=39.38 Aligned_cols=83 Identities=6% Similarity=-0.149 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCC----------------------C--C-------Ccccchhhh
Q 033437 17 ILKFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNS----------------------S--P-------GVTQRIPFC 65 (119)
Q Consensus 17 ~v~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~----------------------~--~-------~~~~Rl~~~ 65 (119)
....++..++-+.+ |.|++-++++ +++..+. + + .-..|..++
T Consensus 652 ~kelmg~~~~qv~~-----s~~~wrL~a~--l~~~~~~ek~~~~eka~~~l~k~~~~~s~~~~w~~d~~~~~~~v~~a~~ 724 (777)
T KOG1128|consen 652 LKELLGKVLSQVTN-----SPETWRLYAL--LYGNGSSEKLDENEKAYRALSKAYKCDTGSNVWEKDITLFKEVVQAALG 724 (777)
T ss_pred HHHHHHHHHHHHhC-----chhhhHhHhh--hccccchhcccccHHHHhhhhhCccccccccCCccchhHHHHHHHHHHH
Confidence 34577888888777 7888888876 4333210 0 1 123688899
Q ss_pred hhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhhcHHHHHHH
Q 033437 66 YVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLVLWDSLILQ 109 (119)
Q Consensus 66 ~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~LemWe~vI~C 109 (119)
++--+|.+|.+..+.++ +.|.+++++.++++..+|+-+..|
T Consensus 725 l~~v~~e~~~~i~s~~e---~~~t~rl~Lk~~~~~~~~~~~d~~ 765 (777)
T KOG1128|consen 725 LAHVAIECSKNISSSQE---MLSTVRLNLKGLLSKAKVSFTDSA 765 (777)
T ss_pred HHHHHHHHhhhhHHHHH---HHHHHHHHHHHHHHHhccchhhhh
Confidence 99999999999999999 889999999999999999998888
No 11
>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=73.72 E-value=6.2 Score=20.39 Aligned_cols=23 Identities=26% Similarity=0.225 Sum_probs=18.0
Q ss_pred HHHHHHHHhcccHHHHHHHHHHh
Q 033437 78 KEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~L 100 (119)
-.+|..+...|-.++|++.|++.
T Consensus 5 ~~lg~~~~~~~~~~~A~~~~~~a 27 (34)
T PF07719_consen 5 YYLGQAYYQLGNYEEAIEYFEKA 27 (34)
T ss_dssp HHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHhCCHHHHHHHHHHH
Confidence 46788899999999999888763
No 12
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=73.20 E-value=7.6 Score=22.03 Aligned_cols=25 Identities=16% Similarity=0.025 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 76 LRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 76 l~~ela~~~~slG~~~sAl~ife~L 100 (119)
....+|+.+...|-...|.++|++.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~ 27 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRA 27 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 4467899999999999999999875
No 13
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.96 E-value=34 Score=28.35 Aligned_cols=74 Identities=15% Similarity=0.232 Sum_probs=47.2
Q ss_pred HHHHHHhccCCchHHHHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHH
Q 033437 4 YIEAIDSQQSSCFILKFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKL 83 (119)
Q Consensus 4 yi~~vl~~~~~~w~v~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~ 83 (119)
|.+++|+....|..+|-.= --+=+..+|++ -|+.-+.+..|.|.++ -+.=.|||++
T Consensus 108 ~y~~lL~ddpt~~v~~KRK----lAilka~GK~l-~aIk~ln~YL~~F~~D-------------------~EAW~eLaei 163 (289)
T KOG3060|consen 108 YYESLLEDDPTDTVIRKRK----LAILKAQGKNL-EAIKELNEYLDKFMND-------------------QEAWHELAEI 163 (289)
T ss_pred HHHHHhccCcchhHHHHHH----HHHHHHcCCcH-HHHHHHHHHHHHhcCc-------------------HHHHHHHHHH
Confidence 5566666555566666522 22334455555 3555555555555433 3344799999
Q ss_pred HHhcccHHHHHHHHHHhh
Q 033437 84 LVSCGLIGEAIKNFEDLV 101 (119)
Q Consensus 84 ~~slG~~~sAl~ife~Le 101 (119)
|+|+|.++.|.=.||++=
T Consensus 164 Y~~~~~f~kA~fClEE~l 181 (289)
T KOG3060|consen 164 YLSEGDFEKAAFCLEELL 181 (289)
T ss_pred HHhHhHHHHHHHHHHHHH
Confidence 999999999998888763
No 14
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=70.90 E-value=11 Score=32.95 Aligned_cols=48 Identities=21% Similarity=0.139 Sum_probs=40.8
Q ss_pred CCcHhHHHHHHHHHHHhcccHHHHHHHHHH-hhc----------HHHHHHHhHhhcccC
Q 033437 70 IPTIPALRKEYAKLLVSCGLIGEAIKNFED-LVL----------WDSLILQLPIGEESS 117 (119)
Q Consensus 70 ~pp~W~l~~ela~~~~slG~~~sAl~ife~-Lem----------We~vI~Cy~~l~~~~ 117 (119)
=|..-..--.+|..|..+|-+.+|++.|++ |++ |-+..-||..+|+.+
T Consensus 71 dP~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~d 129 (453)
T PLN03098 71 DVKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGK 129 (453)
T ss_pred CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHH
Confidence 355566778899999999999999999988 554 999999999999754
No 15
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=69.97 E-value=7.4 Score=20.80 Aligned_cols=23 Identities=22% Similarity=0.254 Sum_probs=19.2
Q ss_pred HHHHHHHHhcccHHHHHHHHHHh
Q 033437 78 KEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~L 100 (119)
..+|..+...|-..+|+++|++.
T Consensus 6 ~~la~~~~~~g~~~~A~~~~~~a 28 (42)
T PF13374_consen 6 NNLANAYRAQGRYEEALELLEEA 28 (42)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHhhhhcchhhHHHHHH
Confidence 57899999999999999998763
No 16
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=68.56 E-value=8.7 Score=23.25 Aligned_cols=30 Identities=30% Similarity=0.414 Sum_probs=25.9
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
|..+.+....|..+...|....|++.|++.
T Consensus 26 p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~ 55 (73)
T PF13371_consen 26 PDDPELWLQRARCLFQLGRYEEALEDLERA 55 (73)
T ss_pred cccchhhHHHHHHHHHhccHHHHHHHHHHH
Confidence 456667788999999999999999999875
No 17
>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=68.24 E-value=8.9 Score=19.94 Aligned_cols=22 Identities=27% Similarity=0.362 Sum_probs=18.0
Q ss_pred HHHHHHHhcccHHHHHHHHHHh
Q 033437 79 EYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~L 100 (119)
.+|..+..+|-...|++.|++-
T Consensus 6 ~lg~~y~~~~~~~~A~~~~~~a 27 (34)
T PF13181_consen 6 NLGKIYEQLGDYEEALEYFEKA 27 (34)
T ss_dssp HHHHHHHHTTSHHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHH
Confidence 5788888889888888888763
No 18
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=66.10 E-value=17 Score=21.54 Aligned_cols=47 Identities=17% Similarity=0.244 Sum_probs=35.9
Q ss_pred chhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 35 RTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 35 rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
+..+.|...++.+++.. |-.......+|..+...|-..+|+..|++.
T Consensus 11 g~~~~A~~~~~~~l~~~-------------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a 57 (65)
T PF13432_consen 11 GDYDEAIAAFEQALKQD-------------------PDNPEAWYLLGRILYQQGRYDEALAYYERA 57 (65)
T ss_dssp THHHHHHHHHHHHHCCS-------------------TTHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 44567777777777543 446677788999999999999999999875
No 19
>PF05997 Nop52: Nucleolar protein,Nop52; InterPro: IPR010301 Nop52 is believed to be involved in the generation of 28S rRNA [].; GO: 0006364 rRNA processing, 0030688 preribosome, small subunit precursor
Probab=64.83 E-value=7.3 Score=30.27 Aligned_cols=59 Identities=22% Similarity=0.294 Sum_probs=42.9
Q ss_pred HhhcCcchhhHHHHHHHHHHhhhcCC-CCCcccch--hhhhhcCCCcHhHHHHHHHHHHHhc
Q 033437 29 WESTRSRTKGRALEMMDKLVEGISNS-SPGVTQRI--PFCYVICIPTIPALRKEYAKLLVSC 87 (119)
Q Consensus 29 lE~~r~rtvERa~lQmq~LVd~~~~~-~~~~~~Rl--~~~~~~~~pp~W~l~~ela~~~~sl 87 (119)
|=++..+|.+||+..+..-...-... +...-.++ -+||+.++-...-.|.++|+.+.++
T Consensus 9 LAs~d~~~R~~al~~l~~~l~~~~~~~~~~~~~kLWKGLfy~mWmsDkpl~Q~~la~~la~l 70 (217)
T PF05997_consen 9 LASNDKKTRDRALKSLRKWLSKRSQLLTELDMLKLWKGLFYCMWMSDKPLVQEELAEELASL 70 (217)
T ss_pred hhcCChhHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHH
Confidence 34677889999999888877655443 22222333 4899999999999999999987654
No 20
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 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. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=64.36 E-value=12 Score=19.61 Aligned_cols=21 Identities=14% Similarity=0.256 Sum_probs=11.6
Q ss_pred HHHHHHHhcccHHHHHHHHHH
Q 033437 79 EYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~ 99 (119)
.+|..+..+|....|++.|++
T Consensus 6 ~~g~~~~~~~~~~~A~~~~~~ 26 (34)
T PF00515_consen 6 NLGNAYFQLGDYEEALEYYQR 26 (34)
T ss_dssp HHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHhCCchHHHHHHHH
Confidence 345566666666666665554
No 21
>PF12854 PPR_1: PPR repeat
Probab=63.22 E-value=21 Score=19.45 Aligned_cols=23 Identities=17% Similarity=0.358 Sum_probs=18.7
Q ss_pred HHHHHHHHhcccHHHHHHHHHHh
Q 033437 78 KEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~L 100 (119)
.-+-+-|.+.|.+.+|+++|++.
T Consensus 11 ~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 11 NTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHCCCHHHHHHHHHhC
Confidence 34556788899999999999875
No 22
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=62.87 E-value=2 Score=29.89 Aligned_cols=36 Identities=22% Similarity=0.135 Sum_probs=27.7
Q ss_pred HHHHHHHHhcccHHHHHHHHHHhhcHHHHHHHhHhh
Q 033437 78 KEYAKLLVSCGLIGEAIKNFEDLVLWDSLILQLPIG 113 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~LemWe~vI~Cy~~l 113 (119)
...++....-|.+.+|.-+|.++++|++++.++..+
T Consensus 74 ~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i~~~~ 109 (143)
T PF00637_consen 74 DKALRLCEKHGLYEEAVYLYSKLGNHDEALEILHKL 109 (143)
T ss_dssp THHHHHHHTTTSHHHHHHHHHCCTTHTTCSSTSSST
T ss_pred HHHHHHHHhcchHHHHHHHHHHcccHHHHHHHHHHH
Confidence 467777888888888888888888888887764433
No 23
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=62.39 E-value=26 Score=20.71 Aligned_cols=38 Identities=29% Similarity=0.208 Sum_probs=30.1
Q ss_pred HHHHHHHhcccHHHHHHHHHHh--------hcHHHHHHHhHhhccc
Q 033437 79 EYAKLLVSCGLIGEAIKNFEDL--------VLWDSLILQLPIGEES 116 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~L--------emWe~vI~Cy~~l~~~ 116 (119)
.+|..++..|-+..|+++|+++ +.|-....||...|+-
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~ 47 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRY 47 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-H
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH
Confidence 4789999999999999999975 5677777777776653
No 24
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=60.70 E-value=27 Score=24.69 Aligned_cols=47 Identities=13% Similarity=-0.110 Sum_probs=36.9
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHh--------hcHHHHHHHhHhhcccC
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDL--------VLWDSLILQLPIGEESS 117 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~L--------emWe~vI~Cy~~l~~~~ 117 (119)
|..+..-..+|..+...|-+..|++.|.+. +.|-....||..+|+.+
T Consensus 55 P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~ 109 (144)
T PRK15359 55 PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPG 109 (144)
T ss_pred CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHH
Confidence 445666688999999999999999999875 45777788888777643
No 25
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=60.01 E-value=52 Score=26.21 Aligned_cols=66 Identities=12% Similarity=0.073 Sum_probs=43.1
Q ss_pred chhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh-----------cH
Q 033437 35 RTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV-----------LW 103 (119)
Q Consensus 35 rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Le-----------mW 103 (119)
+.-++|+..++.+++.++++.-...- .-.+|+.+...|-..+|+..|+++- .|
T Consensus 157 ~~y~~Ai~af~~fl~~yP~s~~a~~A----------------~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl 220 (263)
T PRK10803 157 SRQDDAIVAFQNFVKKYPDSTYQPNA----------------NYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM 220 (263)
T ss_pred CCHHHHHHHHHHHHHHCcCCcchHHH----------------HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence 55679999999999999876411111 1257777777777777777777652 23
Q ss_pred HHHHHHhHhhccc
Q 033437 104 DSLILQLPIGEES 116 (119)
Q Consensus 104 e~vI~Cy~~l~~~ 116 (119)
-.+..||..+|+.
T Consensus 221 ~klg~~~~~~g~~ 233 (263)
T PRK10803 221 FKVGVIMQDKGDT 233 (263)
T ss_pred HHHHHHHHHcCCH
Confidence 3355566655554
No 26
>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=59.26 E-value=23 Score=27.60 Aligned_cols=41 Identities=20% Similarity=0.055 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhcccHHHHHHHHHHhhcHH---------------HHHHHhHhhcccC
Q 033437 76 LRKEYAKLLVSCGLIGEAIKNFEDLVLWD---------------SLILQLPIGEESS 117 (119)
Q Consensus 76 l~~ela~~~~slG~~~sAl~ife~LemWe---------------~vI~Cy~~l~~~~ 117 (119)
+..++|+-++..|....|++.|+.+ .|. .+..|+..+|+.+
T Consensus 180 l~~~~A~ey~~~g~~~~A~~~l~~~-~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~ 235 (247)
T PF11817_consen 180 LSLEMAEEYFRLGDYDKALKLLEPA-ASSYRREGWWSLLTEVLWRLLECAKRLGDVE 235 (247)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHH-HHHHHhCCcHHHHHHHHHHHHHHHHHhCCHH
Confidence 4579999999999999999999998 322 3567888887654
No 27
>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=58.44 E-value=41 Score=24.85 Aligned_cols=27 Identities=15% Similarity=-0.009 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHhcccHHHHHHHHHHhh
Q 033437 75 ALRKEYAKLLVSCGLIGEAIKNFEDLV 101 (119)
Q Consensus 75 ~l~~ela~~~~slG~~~sAl~ife~Le 101 (119)
+..-.+|..+..+|-..+|.++|+.|.
T Consensus 204 ~a~~~l~~~~~~lg~~~~A~~~~~~l~ 230 (235)
T TIGR03302 204 EALARLVEAYLKLGLKDLAQDAAAVLG 230 (235)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 444455666666666666666655543
No 28
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=58.33 E-value=18 Score=31.87 Aligned_cols=52 Identities=15% Similarity=0.221 Sum_probs=42.0
Q ss_pred hhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh-----hcHHHHHHHhHhhccc
Q 033437 65 CYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL-----VLWDSLILQLPIGEES 116 (119)
Q Consensus 65 ~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L-----emWe~vI~Cy~~l~~~ 116 (119)
+-..+++|-=.+-.-|.+-|...|.+..|.++|++. ..|..+|.+|...|+-
T Consensus 351 m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~ 407 (697)
T PLN03081 351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRG 407 (697)
T ss_pred HHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCH
Confidence 334566666666778889999999999999999975 4799999999988864
No 29
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=57.44 E-value=31 Score=27.28 Aligned_cols=24 Identities=25% Similarity=0.337 Sum_probs=13.9
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHh
Q 033437 77 RKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 77 ~~ela~~~~slG~~~sAl~ife~L 100 (119)
-..+|..+...|-...|+..|++.
T Consensus 110 ~~~La~~~~~~g~~~~A~~~~~~~ 133 (389)
T PRK11788 110 LQELGQDYLKAGLLDRAEELFLQL 133 (389)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHH
Confidence 345555566666666666666555
No 30
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=56.63 E-value=24 Score=23.58 Aligned_cols=64 Identities=17% Similarity=0.048 Sum_probs=42.5
Q ss_pred hhhHHHHHHHHHHhhhcCCCCCcccc--------------hhhhhh--cCCCcHhHHHHHHHHHHHhcccHHHHHHHHHH
Q 033437 36 TKGRALEMMDKLVEGISNSSPGVTQR--------------IPFCYV--ICIPTIPALRKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 36 tvERa~lQmq~LVd~~~~~~~~~~~R--------------l~~~~~--~~~pp~W~l~~ela~~~~slG~~~sAl~ife~ 99 (119)
..+.|..+++.+++.-++. +.+..+ ..++-. -..|..+.....+|..+...|-...|+..|++
T Consensus 32 ~~~~A~~~~~~~~~~~p~~-~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~ 110 (135)
T TIGR02552 32 RYDEALKLFQLLAAYDPYN-SRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALDL 110 (135)
T ss_pred cHHHHHHHHHHHHHhCCCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 4577888888887754432 111100 111111 13577899999999999999999999999876
Q ss_pred h
Q 033437 100 L 100 (119)
Q Consensus 100 L 100 (119)
.
T Consensus 111 a 111 (135)
T TIGR02552 111 A 111 (135)
T ss_pred H
Confidence 4
No 31
>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=56.60 E-value=26 Score=26.18 Aligned_cols=47 Identities=17% Similarity=0.279 Sum_probs=32.4
Q ss_pred HHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 41 LEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 41 ~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
+.+|+.-.+.+.++.-....|.-+ .++|+.+.++|-..+|++.|.+.
T Consensus 16 ~~~Le~elk~~~~n~~kesir~~~-------------~~l~~~~~~~Gd~~~A~k~y~~~ 62 (177)
T PF10602_consen 16 LEKLEAELKDAKSNLGKESIRMAL-------------EDLADHYCKIGDLEEALKAYSRA 62 (177)
T ss_pred HHHHHHHHHHHHhccchHHHHHHH-------------HHHHHHHHHhhhHHHHHHHHHHH
Confidence 444444444444444444445433 78999999999999999999873
No 32
>PF09797 NatB_MDM20: N-acetyltransferase B complex (NatB) non catalytic subunit; InterPro: IPR019183 This is the non-catalytic subunit of the N-terminal acetyltransferase B complex (NatB). The NatB complex catalyses the acetylation of the amino-terminal methionine residue of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met. In Saccharomyces cerevisiae (Baker's yeast) this subunit is called MDM20 and in Schizosaccharomyces pombe (Fission yeast) it is called Arm1. NatB acetylates the Tpm1 protein and regulates and tropomyocin-actin interactions. This subunit is required by the NatB complex for the N-terminal acetylation of Tpm1 [].
Probab=55.92 E-value=60 Score=26.54 Aligned_cols=36 Identities=19% Similarity=0.182 Sum_probs=32.1
Q ss_pred hcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhhc
Q 033437 67 VICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLVL 102 (119)
Q Consensus 67 ~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Lem 102 (119)
...-|..++++--+..+|.-+|+...|.++|..|+.
T Consensus 210 l~~s~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~i 245 (365)
T PF09797_consen 210 LKKSPHNYQLKLLLVRLYSLLGAGSLALEHYESLDI 245 (365)
T ss_pred HHcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHhcCh
Confidence 345588899999999999999999999999999875
No 33
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=55.10 E-value=13 Score=25.67 Aligned_cols=27 Identities=11% Similarity=0.153 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhhcHHHHHHHhHhhccc
Q 033437 90 IGEAIKNFEDLVLWDSLILQLPIGEES 116 (119)
Q Consensus 90 ~~sAl~ife~LemWe~vI~Cy~~l~~~ 116 (119)
+..|+++.++-++|++.+..|..+|+.
T Consensus 73 ~~~~~~~c~~~~l~~~a~~Ly~~~~~~ 99 (143)
T PF00637_consen 73 LDKALRLCEKHGLYEEAVYLYSKLGNH 99 (143)
T ss_dssp CTHHHHHHHTTTSHHHHHHHHHCCTTH
T ss_pred HHHHHHHHHhcchHHHHHHHHHHcccH
Confidence 345666666666666666666665554
No 34
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=53.99 E-value=1.4e+02 Score=25.48 Aligned_cols=49 Identities=16% Similarity=0.013 Sum_probs=42.6
Q ss_pred CCCcHhHHHHHHHHHHHhcccHHHHHHHHHH--------hhcHHHHHHHhHhhcccC
Q 033437 69 CIPTIPALRKEYAKLLVSCGLIGEAIKNFED--------LVLWDSLILQLPIGEESS 117 (119)
Q Consensus 69 ~~pp~W~l~~ela~~~~slG~~~sAl~ife~--------LemWe~vI~Cy~~l~~~~ 117 (119)
..|-...+-...|+.+++-|-.+.|+.+..+ .+-|...+.||..+|+-+
T Consensus 229 ~~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e 285 (395)
T PF09295_consen 229 ENPQDSELLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFE 285 (395)
T ss_pred hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHH
Confidence 3455688889999999999999999999986 578999999999999754
No 35
>PRK14064 exodeoxyribonuclease VII small subunit; Provisional
Probab=53.94 E-value=16 Score=24.24 Aligned_cols=30 Identities=20% Similarity=0.431 Sum_probs=24.8
Q ss_pred CcchhhHHHHHHHHHHhhhcCCCCCcccch
Q 033437 33 RSRTKGRALEMMDKLVEGISNSSPGVTQRI 62 (119)
Q Consensus 33 r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl 62 (119)
+..|.|-++.+|+.+|+++.+++.|..+=+
T Consensus 4 k~~sfEe~l~~LE~IV~~LE~~~l~Leesl 33 (75)
T PRK14064 4 KKKTFEEAIAELETIVEALENGSASLEDSL 33 (75)
T ss_pred CcCCHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence 446899999999999999999887765444
No 36
>PF04118 Dopey_N: Dopey, N-terminal; InterPro: IPR007249 DopA is the founding member of the Dopey family and is required for correct cell morphology and spatiotemporal organisation of multicellular structures in the filamentous fungus Emericella nidulans (Aspergillus nidulans). DopA homologues are found in mammals. Saccharomyces cerevisiae DOP1 is essential for viability and, affects cellular morphogenesis [].
Probab=53.85 E-value=12 Score=30.96 Aligned_cols=28 Identities=25% Similarity=0.284 Sum_probs=25.1
Q ss_pred ccHHHHHHHHHHhhcHHHHHHHhHhhcc
Q 033437 88 GLIGEAIKNFEDLVLWDSLILQLPIGEE 115 (119)
Q Consensus 88 G~~~sAl~ife~LemWe~vI~Cy~~l~~ 115 (119)
..+..||.-||+.+-|.|.|.|...+.|
T Consensus 10 ~~v~k~L~~Fe~~~EWAD~is~L~kL~k 37 (307)
T PF04118_consen 10 AEVEKALKSFESSSEWADYISFLGKLLK 37 (307)
T ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 3678899999999999999999998865
No 37
>PLN03077 Protein ECB2; Provisional
Probab=52.79 E-value=35 Score=30.90 Aligned_cols=53 Identities=17% Similarity=0.228 Sum_probs=44.5
Q ss_pred hhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh-----cHHHHHHHhHhhccc
Q 033437 64 FCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV-----LWDSLILQLPIGEES 116 (119)
Q Consensus 64 ~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Le-----mWe~vI~Cy~~l~~~ 116 (119)
+....+++|--..-..|.+.|.+.|.+.+|..+|+++. .|..+|.+|...|+-
T Consensus 313 ~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~ 370 (857)
T PLN03077 313 YVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLP 370 (857)
T ss_pred HHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCH
Confidence 34456778888888899999999999999999999864 699999999888763
No 38
>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=52.32 E-value=24 Score=20.93 Aligned_cols=25 Identities=16% Similarity=0.332 Sum_probs=21.6
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHhh
Q 033437 77 RKEYAKLLVSCGLIGEAIKNFEDLV 101 (119)
Q Consensus 77 ~~ela~~~~slG~~~sAl~ife~Le 101 (119)
+-.||..|+.+|-..+|-++-+++-
T Consensus 2 kLdLA~ayie~Gd~e~Ar~lL~evl 26 (44)
T TIGR03504 2 KLDLARAYIEMGDLEGARELLEEVI 26 (44)
T ss_pred chHHHHHHHHcCChHHHHHHHHHHH
Confidence 3479999999999999999988763
No 39
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=52.05 E-value=22 Score=21.20 Aligned_cols=37 Identities=22% Similarity=0.137 Sum_probs=29.5
Q ss_pred HHHHHHHHhcccHHHHHHHHHH--------hhcHHHHHHHhHhhc
Q 033437 78 KEYAKLLVSCGLIGEAIKNFED--------LVLWDSLILQLPIGE 114 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~--------LemWe~vI~Cy~~l~ 114 (119)
..+|..++..|-...|++.|++ -+.|-..-.||..+|
T Consensus 7 ~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~ 51 (69)
T PF13414_consen 7 YNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLG 51 (69)
T ss_dssp HHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhC
Confidence 5678888999999999998875 356777777777776
No 40
>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=51.24 E-value=28 Score=25.77 Aligned_cols=39 Identities=18% Similarity=0.107 Sum_probs=32.2
Q ss_pred HHHHHHHhcccHHHHHHHHHHh-----------hcHHHHHHHhHhhcccC
Q 033437 79 EYAKLLVSCGLIGEAIKNFEDL-----------VLWDSLILQLPIGEESS 117 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~L-----------emWe~vI~Cy~~l~~~~ 117 (119)
.+|+.+...|-...|++.|+++ +.|-.+...|..+|+.+
T Consensus 171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~ 220 (235)
T TIGR03302 171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKD 220 (235)
T ss_pred HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHH
Confidence 6789999999999999999886 46777888888877753
No 41
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=51.18 E-value=19 Score=18.07 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=13.7
Q ss_pred HHHHhcccHHHHHHHHHHhh
Q 033437 82 KLLVSCGLIGEAIKNFEDLV 101 (119)
Q Consensus 82 ~~~~slG~~~sAl~ife~Le 101 (119)
.-|..-|.+..|.++|.++.
T Consensus 8 ~~~~~~~~~~~a~~~~~~M~ 27 (35)
T TIGR00756 8 DGLCKAGRVEEALELFKEML 27 (35)
T ss_pred HHHHHCCCHHHHHHHHHHHH
Confidence 34566777777777777653
No 42
>PF09145 Ubiq-assoc: Ubiquitin-associated; InterPro: IPR015228 Ubiquitin-associated domains contain approximately 40 residues and bind ubiquitin noncovalently. They adopt a secondary structure consisting of three alpha-helices, and have been identified in various modular proteins involved in protein trafficking, clathrin assembly/disassembly, DNA repair, proteasomal degradation, and cell cycle regulation []. ; PDB: 1PGY_A.
Probab=50.44 E-value=16 Score=22.30 Aligned_cols=31 Identities=42% Similarity=0.573 Sum_probs=22.7
Q ss_pred HHHHHHHhccc-HHHHHHHHHHhhcHHHHHHHh
Q 033437 79 EYAKLLVSCGL-IGEAIKNFEDLVLWDSLILQL 110 (119)
Q Consensus 79 ela~~~~slG~-~~sAl~ife~LemWe~vI~Cy 110 (119)
|+| ++||+|. +..|-+.|++=-+.|++|.=.
T Consensus 9 EiA-kLMSLGLsid~A~~yYe~Gi~Ye~~~~~~ 40 (46)
T PF09145_consen 9 EIA-KLMSLGLSIDKANDYYERGILYEDLIEKL 40 (46)
T ss_dssp HHH-HHHHH---SHHHHHHHHHH-SSHHHHHHH
T ss_pred HHH-HHHHccCCHHHHHHHHHcCchHHHHHHHH
Confidence 455 5678995 799999999999999988643
No 43
>PLN03077 Protein ECB2; Provisional
Probab=50.15 E-value=44 Score=30.28 Aligned_cols=51 Identities=16% Similarity=0.333 Sum_probs=41.2
Q ss_pred hhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh-----cHHHHHHHhHhhcc
Q 033437 65 CYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV-----LWDSLILQLPIGEE 115 (119)
Q Consensus 65 ~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Le-----mWe~vI~Cy~~l~~ 115 (119)
.-..++.|.-.+-.-|.+.|...|.+.+|.++|+++. .|..+|.+|...|+
T Consensus 415 ~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~ 470 (857)
T PLN03077 415 AERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNR 470 (857)
T ss_pred HHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCC
Confidence 3345666777777788899999999999999999875 48889998887765
No 44
>PRK14067 exodeoxyribonuclease VII small subunit; Provisional
Probab=49.73 E-value=19 Score=24.12 Aligned_cols=31 Identities=6% Similarity=0.262 Sum_probs=25.5
Q ss_pred cCcchhhHHHHHHHHHHhhhcCCCCCcccch
Q 033437 32 TRSRTKGRALEMMDKLVEGISNSSPGVTQRI 62 (119)
Q Consensus 32 ~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl 62 (119)
.+..|.|-++.+|+.+|+++.+++.+..+=+
T Consensus 4 ~k~~sfEeal~~LEeIV~~LE~~~l~Lees~ 34 (80)
T PRK14067 4 KKTADFEQQLARLQEIVDALEGGDLPLEESV 34 (80)
T ss_pred cccCCHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence 4557899999999999999999887765444
No 45
>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=49.20 E-value=23 Score=17.61 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=11.1
Q ss_pred HHHHhcccHHHHHHHHHHh
Q 033437 82 KLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 82 ~~~~slG~~~sAl~ife~L 100 (119)
+-+...|.+..|.++|.++
T Consensus 8 ~~~~~~~~~~~a~~~~~~M 26 (31)
T PF01535_consen 8 SGYCKMGQFEEALEVFDEM 26 (31)
T ss_pred HHHHccchHHHHHHHHHHH
Confidence 3455556666666666654
No 46
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=49.13 E-value=27 Score=27.32 Aligned_cols=59 Identities=22% Similarity=0.202 Sum_probs=38.5
Q ss_pred hhHHHHHHHHHHhhhcCCC--CCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHH
Q 033437 37 KGRALEMMDKLVEGISNSS--PGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 37 vERa~lQmq~LVd~~~~~~--~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~ 99 (119)
...|+..++.+|+.++++. +.+..||..+.. .-..-+ -+.|+.|...|...+|+.=|+.
T Consensus 140 ~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~--~la~~e--~~ia~~Y~~~~~y~AA~~r~~~ 200 (243)
T PRK10866 140 ARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKD--RLAKYE--LSVAEYYTKRGAYVAVVNRVEQ 200 (243)
T ss_pred HHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHH--HHHHHH--HHHHHHHHHcCchHHHHHHHHH
Confidence 5679999999999999886 445566655421 111111 1456677778888887766654
No 47
>PF02262 Cbl_N: CBL proto-oncogene N-terminal domain 1; InterPro: IPR003153 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the N-terminal four-helical bundle domain.; GO: 0004871 signal transducer activity, 0007166 cell surface receptor linked signaling pathway, 0005634 nucleus; PDB: 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B 1B47_C 3BUO_D ....
Probab=48.76 E-value=14 Score=27.21 Aligned_cols=22 Identities=32% Similarity=0.489 Sum_probs=18.9
Q ss_pred CcchhhHHHHHHHHHHhhhcCC
Q 033437 33 RSRTKGRALEMMDKLVEGISNS 54 (119)
Q Consensus 33 r~rtvERa~lQmq~LVd~~~~~ 54 (119)
-.||++|+...||.||++..++
T Consensus 6 D~r~~~k~~klldkl~~lC~~p 27 (130)
T PF02262_consen 6 DRRTLDKAVKLLDKLVKLCQDP 27 (130)
T ss_dssp CHHHHHHHHHHHHHHHHHHT-G
T ss_pred HHHHHHHHHHHHHHHHHHhCCC
Confidence 4699999999999999998764
No 48
>PRK14069 exodeoxyribonuclease VII small subunit; Provisional
Probab=48.59 E-value=20 Score=24.97 Aligned_cols=33 Identities=12% Similarity=0.226 Sum_probs=26.6
Q ss_pred hhcCcchhhHHHHHHHHHHhhhcCCCCCcccch
Q 033437 30 ESTRSRTKGRALEMMDKLVEGISNSSPGVTQRI 62 (119)
Q Consensus 30 E~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl 62 (119)
|+...-+.|-++.+|+.+|.++.+++.+..+=+
T Consensus 3 ~~~~~~sFEeal~~LEeIV~~LEsgdl~LEesl 35 (95)
T PRK14069 3 EKKSKISFEDALRELEQIAEKLERQDFSLEESL 35 (95)
T ss_pred cccCCCCHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence 445667899999999999999999887755433
No 49
>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=48.32 E-value=27 Score=15.87 Aligned_cols=21 Identities=19% Similarity=0.338 Sum_probs=14.6
Q ss_pred HHHHHHHhcccHHHHHHHHHH
Q 033437 79 EYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife~ 99 (119)
.+|..+...|-...|...|.+
T Consensus 6 ~~a~~~~~~~~~~~a~~~~~~ 26 (34)
T smart00028 6 NLGNAYLKLGDYDEALEYYEK 26 (34)
T ss_pred HHHHHHHHHhhHHHHHHHHHH
Confidence 456777777777777777654
No 50
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=48.15 E-value=23 Score=22.34 Aligned_cols=47 Identities=23% Similarity=0.310 Sum_probs=31.8
Q ss_pred hhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 37 KGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 37 vERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
.+.|+...+.+++.-+.+. .-.+.| .+|..+...|-.+.|++++.++
T Consensus 5 y~~Ai~~~~k~~~~~~~~~-----~~~~~~------------~la~~~~~~~~y~~A~~~~~~~ 51 (84)
T PF12895_consen 5 YENAIKYYEKLLELDPTNP-----NSAYLY------------NLAQCYFQQGKYEEAIELLQKL 51 (84)
T ss_dssp HHHHHHHHHHHHHHHCGTH-----HHHHHH------------HHHHHHHHTTHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHCCCCh-----hHHHHH------------HHHHHHHHCCCHHHHHHHHHHh
Confidence 4677777777777665310 111222 3799999999999999999663
No 51
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=47.84 E-value=23 Score=30.73 Aligned_cols=41 Identities=15% Similarity=-0.004 Sum_probs=32.6
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHh-------hcHHHHHHHhHhhcccC
Q 033437 77 RKEYAKLLVSCGLIGEAIKNFEDL-------VLWDSLILQLPIGEESS 117 (119)
Q Consensus 77 ~~ela~~~~slG~~~sAl~ife~L-------emWe~vI~Cy~~l~~~~ 117 (119)
-++.|..++..|-+..|++.|++. ..|-+...||..+|+-+
T Consensus 130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~ 177 (615)
T TIGR00990 130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWE 177 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHH
Confidence 357899999999999999999982 44777777888877654
No 52
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=47.20 E-value=50 Score=22.67 Aligned_cols=30 Identities=23% Similarity=0.261 Sum_probs=14.0
Q ss_pred HHHHHhcccHHHHHHHHHHhhcHHHHHHHh
Q 033437 81 AKLLVSCGLIGEAIKNFEDLVLWDSLILQL 110 (119)
Q Consensus 81 a~~~~slG~~~sAl~ife~LemWe~vI~Cy 110 (119)
+.....-|...+|.-+|.+.++|++++..+
T Consensus 76 ~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~ 105 (140)
T smart00299 76 GKLCEKAKLYEEAVELYKKDGNFKDAIVTL 105 (140)
T ss_pred HHHHHHcCcHHHHHHHHHhhcCHHHHHHHH
Confidence 333344444444555555555554444443
No 53
>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=47.10 E-value=26 Score=17.86 Aligned_cols=23 Identities=26% Similarity=0.237 Sum_probs=19.9
Q ss_pred HHHHHHHHHhcccHHHHHHHHHH
Q 033437 77 RKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 77 ~~ela~~~~slG~~~sAl~ife~ 99 (119)
.-.+|..+...|-..+|..++++
T Consensus 4 ~~~la~~~~~~G~~~eA~~~l~~ 26 (26)
T PF07721_consen 4 RLALARALLAQGDPDEAERLLRR 26 (26)
T ss_pred HHHHHHHHHHcCCHHHHHHHHhC
Confidence 45689999999999999998874
No 54
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=46.48 E-value=38 Score=21.24 Aligned_cols=25 Identities=32% Similarity=0.377 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhcccHHHHHHHHHH
Q 033437 75 ALRKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 75 ~l~~ela~~~~slG~~~sAl~ife~ 99 (119)
...-.+|+-+..+|-..+|++.|++
T Consensus 59 ~~~~l~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 59 DIHYLLARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHhc
Confidence 3344669999999999999999886
No 55
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=44.83 E-value=52 Score=29.09 Aligned_cols=50 Identities=16% Similarity=0.262 Sum_probs=41.5
Q ss_pred hcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh-----cHHHHHHHhHhhccc
Q 033437 67 VICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV-----LWDSLILQLPIGEES 116 (119)
Q Consensus 67 ~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Le-----mWe~vI~Cy~~l~~~ 116 (119)
..++.|.-..-..+...|.+.|.+..|.++|+++. .|.-+|.+|...|+-
T Consensus 151 ~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~ 205 (697)
T PLN03081 151 SSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNY 205 (697)
T ss_pred HhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCH
Confidence 45666666677788899999999999999999866 499999999988864
No 56
>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=44.49 E-value=48 Score=29.15 Aligned_cols=58 Identities=17% Similarity=0.355 Sum_probs=41.2
Q ss_pred HHHHHHHHHHhhhc---CCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHH-----------hhcHH
Q 033437 39 RALEMMDKLVEGIS---NSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFED-----------LVLWD 104 (119)
Q Consensus 39 Ra~lQmq~LVd~~~---~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~-----------LemWe 104 (119)
++.++++.|=.+++ +..-..+.|.-+ .++|+.|..+|.+..|+.-|-| ++||=
T Consensus 125 ~a~~~le~L~~eLk~yK~n~iKEsiRra~-------------~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~l 191 (466)
T KOG0686|consen 125 KAVLKLEKLDNELKSYKDNLIKESIRRAL-------------EDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCL 191 (466)
T ss_pred HHHHHHHHHHHHHHHhhcchhhHHHHHHH-------------HHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHH
Confidence 45556666655554 333333345432 8999999999999999999999 78888
Q ss_pred HHHHH
Q 033437 105 SLILQ 109 (119)
Q Consensus 105 ~vI~C 109 (119)
++|.=
T Consensus 192 n~i~V 196 (466)
T KOG0686|consen 192 NLILV 196 (466)
T ss_pred HHHHH
Confidence 87753
No 57
>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=44.07 E-value=83 Score=21.75 Aligned_cols=25 Identities=24% Similarity=0.476 Sum_probs=14.1
Q ss_pred HHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 76 LRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 76 l~~ela~~~~slG~~~sAl~ife~L 100 (119)
....+|..+...|-...|++.|++.
T Consensus 101 ~~~~~~~~~~~~g~~~~A~~~~~~~ 125 (234)
T TIGR02521 101 VLNNYGTFLCQQGKYEQAMQQFEQA 125 (234)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHH
Confidence 3444555556666666666665553
No 58
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=43.23 E-value=44 Score=16.94 Aligned_cols=22 Identities=14% Similarity=0.256 Sum_probs=16.8
Q ss_pred HHHHHHhcccHHHHHHHHHHhh
Q 033437 80 YAKLLVSCGLIGEAIKNFEDLV 101 (119)
Q Consensus 80 la~~~~slG~~~sAl~ife~Le 101 (119)
+-+.+.+.|....|+++|...+
T Consensus 7 ll~a~~~~g~~~~a~~~~~~M~ 28 (34)
T PF13812_consen 7 LLRACAKAGDPDAALQLFDEMK 28 (34)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
Confidence 4556778888888888888765
No 59
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=43.03 E-value=33 Score=23.63 Aligned_cols=39 Identities=18% Similarity=0.119 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhcccHHHHHHHHHHh-hcHHHHHHHhHhhc
Q 033437 76 LRKEYAKLLVSCGLIGEAIKNFEDL-VLWDSLILQLPIGE 114 (119)
Q Consensus 76 l~~ela~~~~slG~~~sAl~ife~L-emWe~vI~Cy~~l~ 114 (119)
+-.+...++..+|..+.|+++...- +.-+.++.+....+
T Consensus 84 l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~ 123 (140)
T smart00299 84 LYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQN 123 (140)
T ss_pred cHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCC
Confidence 3457777788888888888888764 67777777776644
No 60
>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=42.77 E-value=81 Score=21.65 Aligned_cols=75 Identities=15% Similarity=0.176 Sum_probs=48.3
Q ss_pred hhhHHHHHHHHHHhhhcCCCC----C------cccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh-----
Q 033437 36 TKGRALEMMDKLVEGISNSSP----G------VTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL----- 100 (119)
Q Consensus 36 tvERa~lQmq~LVd~~~~~~~----~------~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L----- 100 (119)
.-+.+...++..++.+..+-- + ..+|++-.| =..-..+++.+...|-...|+++..++
T Consensus 21 ~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP 93 (146)
T PF03704_consen 21 DPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELY-------LDALERLAEALLEAGDYEEALRLLQRALALDP 93 (146)
T ss_dssp -HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHH-------HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred CHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHH-------HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCC
Confidence 456777888888887764321 1 112222222 134567888888999999999998886
Q ss_pred ---hcHHHHHHHhHhhcccC
Q 033437 101 ---VLWDSLILQLPIGEESS 117 (119)
Q Consensus 101 ---emWe~vI~Cy~~l~~~~ 117 (119)
++|...|.||...|+..
T Consensus 94 ~~E~~~~~lm~~~~~~g~~~ 113 (146)
T PF03704_consen 94 YDEEAYRLLMRALAAQGRRA 113 (146)
T ss_dssp T-HHHHHHHHHHHHHTT-HH
T ss_pred CCHHHHHHHHHHHHHCcCHH
Confidence 58888999999988753
No 61
>PF13041 PPR_2: PPR repeat family
Probab=41.49 E-value=29 Score=19.84 Aligned_cols=21 Identities=24% Similarity=0.317 Sum_probs=16.8
Q ss_pred HHHHhcccHHHHHHHHHHhhc
Q 033437 82 KLLVSCGLIGEAIKNFEDLVL 102 (119)
Q Consensus 82 ~~~~slG~~~sAl~ife~Lem 102 (119)
.-+..-|.+.+|+++|++..-
T Consensus 11 ~~~~~~~~~~~a~~l~~~M~~ 31 (50)
T PF13041_consen 11 SGYCKAGKFEEALKLFKEMKK 31 (50)
T ss_pred HHHHHCcCHHHHHHHHHHHHH
Confidence 456778999999999988764
No 62
>PLN03218 maturation of RBCL 1; Provisional
Probab=41.01 E-value=75 Score=30.52 Aligned_cols=51 Identities=16% Similarity=0.052 Sum_probs=40.2
Q ss_pred hhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh---------cHHHHHHHhHhhccc
Q 033437 66 YVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV---------LWDSLILQLPIGEES 116 (119)
Q Consensus 66 ~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Le---------mWe~vI~Cy~~l~~~ 116 (119)
...+++|.-..-.-+...|.+.|.+.+|+++|+++. .|.-+|.+|...|+-
T Consensus 676 ~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~ 735 (1060)
T PLN03218 676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQL 735 (1060)
T ss_pred HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCH
Confidence 345667766777788888999999999999998763 688888888887764
No 63
>PRK14068 exodeoxyribonuclease VII small subunit; Provisional
Probab=40.99 E-value=32 Score=22.84 Aligned_cols=30 Identities=7% Similarity=0.325 Sum_probs=24.6
Q ss_pred cchhhHHHHHHHHHHhhhcCCCCCcccchh
Q 033437 34 SRTKGRALEMMDKLVEGISNSSPGVTQRIP 63 (119)
Q Consensus 34 ~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~ 63 (119)
.-+.|-++.+|+.+|+++.+++.|..+=++
T Consensus 5 ~~sfEeal~~Le~IV~~LE~gdl~Leesl~ 34 (76)
T PRK14068 5 TQSFEEMMQELEQIVQKLDNETVSLEESLD 34 (76)
T ss_pred ccCHHHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 458899999999999999998877655443
No 64
>PLN03218 maturation of RBCL 1; Provisional
Probab=40.00 E-value=1.4e+02 Score=28.65 Aligned_cols=45 Identities=7% Similarity=0.034 Sum_probs=26.2
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHh---------hcHHHHHHHhHhhcc
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDL---------VLWDSLILQLPIGEE 115 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~L---------emWe~vI~Cy~~l~~ 115 (119)
.|.-..-.-+-.-|...|.+..|.++|+++ ..|..+|..|...|+
T Consensus 576 ~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~ 629 (1060)
T PLN03218 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGD 629 (1060)
T ss_pred CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Confidence 333333344555666667777777777665 346666666666554
No 65
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=39.76 E-value=67 Score=21.43 Aligned_cols=45 Identities=22% Similarity=0.252 Sum_probs=31.8
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHhhc----H------HHHHHHhHhhcc
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDLVL----W------DSLILQLPIGEE 115 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~Lem----W------e~vI~Cy~~l~~ 115 (119)
|.-+..+-.+|..++.-|-...|++.+..+=. | .-++.++..+|.
T Consensus 19 P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~ 73 (90)
T PF14561_consen 19 PDDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGP 73 (90)
T ss_dssp TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-T
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCC
Confidence 56678888999999999999999999887633 2 345555555554
No 66
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=38.87 E-value=1.9e+02 Score=22.76 Aligned_cols=71 Identities=14% Similarity=0.150 Sum_probs=49.6
Q ss_pred HHHhccCCchHHHHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHh
Q 033437 7 AIDSQQSSCFILKFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVS 86 (119)
Q Consensus 7 ~vl~~~~~~w~v~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~s 86 (119)
+.+..+..+|.|+..+ +.+|....+..++|..-.+..++.+..+. ..| ..+.+.+++
T Consensus 26 ~a~~~~~~~~~vy~~~----A~~E~~~~~d~~~A~~Ife~glk~f~~~~----------------~~~---~~Y~~~l~~ 82 (280)
T PF05843_consen 26 RARKDKRCTYHVYVAY----ALMEYYCNKDPKRARKIFERGLKKFPSDP----------------DFW---LEYLDFLIK 82 (280)
T ss_dssp HHHCCCCS-THHHHHH----HHHHHHTCS-HHHHHHHHHHHHHHHTT-H----------------HHH---HHHHHHHHH
T ss_pred HHHcCCCCCHHHHHHH----HHHHHHhCCCHHHHHHHHHHHHHHCCCCH----------------HHH---HHHHHHHHH
Confidence 3445555688887765 67799999999999999999988776432 122 467778888
Q ss_pred cccHHHHHHHHHHh
Q 033437 87 CGLIGEAIKNFEDL 100 (119)
Q Consensus 87 lG~~~sAl~ife~L 100 (119)
+|-+..|-.+||+.
T Consensus 83 ~~d~~~aR~lfer~ 96 (280)
T PF05843_consen 83 LNDINNARALFERA 96 (280)
T ss_dssp TT-HHHHHHHHHHH
T ss_pred hCcHHHHHHHHHHH
Confidence 88888888888874
No 67
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=37.31 E-value=72 Score=30.32 Aligned_cols=48 Identities=19% Similarity=0.167 Sum_probs=40.5
Q ss_pred CCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh---------cHHHHHHHhHhhccc
Q 033437 69 CIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV---------LWDSLILQLPIGEES 116 (119)
Q Consensus 69 ~~pp~W~l~~ela~~~~slG~~~sAl~ife~Le---------mWe~vI~Cy~~l~~~ 116 (119)
+.--.|.|=.++|+.|+.+|..++|++.|-.+- .|=....||..+|..
T Consensus 409 ~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~ 465 (895)
T KOG2076|consen 409 WVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY 465 (895)
T ss_pred ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence 344459999999999999999999999998763 788888999888754
No 68
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=36.47 E-value=55 Score=25.67 Aligned_cols=41 Identities=22% Similarity=0.169 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHhcccHHHHHHHHHHhh---------------cHHHHHHHhHhhcc
Q 033437 75 ALRKEYAKLLVSCGLIGEAIKNFEDLV---------------LWDSLILQLPIGEE 115 (119)
Q Consensus 75 ~l~~ela~~~~slG~~~sAl~ife~Le---------------mWe~vI~Cy~~l~~ 115 (119)
.....+|..++.+|-+..|+++|+++. .+=.+|.||-..|+
T Consensus 156 ~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D 211 (282)
T PF14938_consen 156 ECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGD 211 (282)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCC
Confidence 344789999999999999999998753 23456667766654
No 69
>PRK14574 hmsH outer membrane protein; Provisional
Probab=36.36 E-value=99 Score=28.89 Aligned_cols=69 Identities=17% Similarity=0.088 Sum_probs=49.1
Q ss_pred hhcCcchhhHHHHHHHHHHhhhcCCCCC-c---ccchhhhhh---------------------cCCCcHhHHHHHHHHHH
Q 033437 30 ESTRSRTKGRALEMMDKLVEGISNSSPG-V---TQRIPFCYV---------------------ICIPTIPALRKEYAKLL 84 (119)
Q Consensus 30 E~~r~rtvERa~lQmq~LVd~~~~~~~~-~---~~Rl~~~~~---------------------~~~pp~W~l~~ela~~~ 84 (119)
|..|.-..++|+.+++.|.+...+..+. + .-|+..+++ ..+ |.| .+.-.|+-|
T Consensus 260 ~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~-P~y-~~~a~aday 337 (822)
T PRK14574 260 ETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKM-PDY-ARRWAASAY 337 (822)
T ss_pred chhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCC-CHH-HHHHHHHHH
Confidence 5566679999999999999988742211 1 112222222 223 444 888899999
Q ss_pred HhcccHHHHHHHHHHh
Q 033437 85 VSCGLIGEAIKNFEDL 100 (119)
Q Consensus 85 ~slG~~~sAl~ife~L 100 (119)
+..+--..|+.||.++
T Consensus 338 l~~~~P~kA~~l~~~~ 353 (822)
T PRK14574 338 IDRRLPEKAAPILSSL 353 (822)
T ss_pred HhcCCcHHHHHHHHHH
Confidence 9999999999999987
No 70
>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene. The molecular function of this protein is uncertain.
Probab=36.07 E-value=79 Score=28.41 Aligned_cols=46 Identities=26% Similarity=0.277 Sum_probs=38.2
Q ss_pred CCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh----------cHHHHHHHhHhhcc
Q 033437 70 IPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV----------LWDSLILQLPIGEE 115 (119)
Q Consensus 70 ~pp~W~l~~ela~~~~slG~~~sAl~ife~Le----------mWe~vI~Cy~~l~~ 115 (119)
.-|.+-+|+.||.-.-.+|-.++|.+.|.+|= .-+++|.|+-.++.
T Consensus 255 t~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~ 310 (539)
T PF04184_consen 255 TNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQA 310 (539)
T ss_pred cchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCC
Confidence 34568899999999999999999999998872 45778889877765
No 71
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=35.34 E-value=45 Score=17.58 Aligned_cols=21 Identities=5% Similarity=-0.053 Sum_probs=15.4
Q ss_pred hhHHHHHHhccCCchHHHHHHHH
Q 033437 2 APYIEAIDSQQSSCFILKFFCDL 24 (119)
Q Consensus 2 ~pyi~~vl~~~~~~w~v~s~aLl 24 (119)
.|.+-..+.+| +|.|+.+|..
T Consensus 2 lp~l~~~l~D~--~~~VR~~a~~ 22 (31)
T PF02985_consen 2 LPILLQLLNDP--SPEVRQAAAE 22 (31)
T ss_dssp HHHHHHHHT-S--SHHHHHHHHH
T ss_pred HHHHHHHcCCC--CHHHHHHHHH
Confidence 57788888876 6889888763
No 72
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=34.61 E-value=47 Score=21.92 Aligned_cols=30 Identities=13% Similarity=0.235 Sum_probs=24.3
Q ss_pred CcchhhHHHHHHHHHHhhhcCCCCCcccch
Q 033437 33 RSRTKGRALEMMDKLVEGISNSSPGVTQRI 62 (119)
Q Consensus 33 r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl 62 (119)
+.-|.|-++.+|+.+|+.+.+++.|..+=+
T Consensus 3 ~~~sfEeal~~LE~Iv~~LE~~~l~Leesl 32 (76)
T PRK14063 3 NKLSFEEAISQLEHLVSKLEQGDVPLEEAI 32 (76)
T ss_pred cccCHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence 446889999999999999998887755433
No 73
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=33.13 E-value=60 Score=24.20 Aligned_cols=80 Identities=15% Similarity=0.078 Sum_probs=50.6
Q ss_pred hcCcchhhHHHHHHHHHHhhhcCCCC--CcccchhhhhhcCCCcHhHHH--HHHHHHHHhcccHHHHHHHHHHh------
Q 033437 31 STRSRTKGRALEMMDKLVEGISNSSP--GVTQRIPFCYVICIPTIPALR--KEYAKLLVSCGLIGEAIKNFEDL------ 100 (119)
Q Consensus 31 ~~r~rtvERa~lQmq~LVd~~~~~~~--~~~~Rl~~~~~~~~pp~W~l~--~ela~~~~slG~~~sAl~ife~L------ 100 (119)
....+..+.|+..++.|++.++++.- .+..|+..+-. .--+ -..|+.|...|...+|+.-|+.+
T Consensus 100 ~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~------~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~ 173 (203)
T PF13525_consen 100 DRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRN------RLAEHELYIARFYYKRGKYKAAIIRFQYVIENYPD 173 (203)
T ss_dssp T---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHH------HHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTT
T ss_pred ccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC
Confidence 34556778999999999999998763 34555544321 1111 23578899999999999888765
Q ss_pred -----hcHHHHHHHhHhhccc
Q 033437 101 -----VLWDSLILQLPIGEES 116 (119)
Q Consensus 101 -----emWe~vI~Cy~~l~~~ 116 (119)
+..--++..|..+|++
T Consensus 174 t~~~~~al~~l~~~y~~l~~~ 194 (203)
T PF13525_consen 174 TPAAEEALARLAEAYYKLGLK 194 (203)
T ss_dssp SHHHHHHHHHHHHHHHHTT-H
T ss_pred CchHHHHHHHHHHHHHHhCCh
Confidence 3445566666666654
No 74
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=32.47 E-value=48 Score=21.92 Aligned_cols=28 Identities=11% Similarity=0.261 Sum_probs=23.1
Q ss_pred chhhHHHHHHHHHHhhhcCCCCCcccch
Q 033437 35 RTKGRALEMMDKLVEGISNSSPGVTQRI 62 (119)
Q Consensus 35 rtvERa~lQmq~LVd~~~~~~~~~~~Rl 62 (119)
.+.|-++.+++.+|.++.+++.|..+=+
T Consensus 4 ~~fEeal~~LE~IV~~LE~g~l~Leesl 31 (75)
T PRK14066 4 EKFETALKKLEEVVKKLEGGELSLDDSL 31 (75)
T ss_pred ccHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence 4689999999999999999887755444
No 75
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=31.72 E-value=78 Score=23.75 Aligned_cols=45 Identities=11% Similarity=0.071 Sum_probs=33.3
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHh--------hcHHHHHHHh-Hhhcc
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDL--------VLWDSLILQL-PIGEE 115 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~L--------emWe~vI~Cy-~~l~~ 115 (119)
|...+.-..+|..++..|-..+|++.|++. +.|-+...++ ...|+
T Consensus 70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~ 123 (198)
T PRK10370 70 PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQ 123 (198)
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCC
Confidence 455556678999999999999999999874 4566666663 44444
No 76
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=31.51 E-value=95 Score=21.48 Aligned_cols=39 Identities=18% Similarity=0.137 Sum_probs=30.7
Q ss_pred HHHHHHHHhcccHHHHHHHHHHhhc-------------HHHH-HHHhHhhccc
Q 033437 78 KEYAKLLVSCGLIGEAIKNFEDLVL-------------WDSL-ILQLPIGEES 116 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~Lem-------------We~v-I~Cy~~l~~~ 116 (119)
.||+..|.+=|..+.||++..++.. -... |.-.+.+|.+
T Consensus 43 ~eL~~lY~~kg~h~~AL~ll~~l~~~~~~~~~~~~~~~~~~~iv~yL~~L~~~ 95 (108)
T PF10366_consen 43 QELVDLYQGKGLHRKALELLKKLADEEDSDEEDPFLSGVKETIVQYLQKLGNE 95 (108)
T ss_pred HHHHHHHHccCccHHHHHHHHHHhcccccccccccccCchhHHHHHHHhCChh
Confidence 7999999999999999999999877 2233 6666666544
No 77
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=31.43 E-value=2.6e+02 Score=21.98 Aligned_cols=46 Identities=15% Similarity=0.115 Sum_probs=33.6
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHhh---------cHHHHHHHhHhhccc
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDLV---------LWDSLILQLPIGEES 116 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~Le---------mWe~vI~Cy~~l~~~ 116 (119)
|........+|..+...|-...|+++|++.. .|..++.+|...|+.
T Consensus 211 p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~ 265 (389)
T PRK11788 211 PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDE 265 (389)
T ss_pred cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCH
Confidence 4455666778999999999999999988854 244556777766654
No 78
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=31.18 E-value=2e+02 Score=22.86 Aligned_cols=51 Identities=12% Similarity=0.110 Sum_probs=38.3
Q ss_pred cchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 34 SRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 34 ~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
.+-.+.|+...+.+++.++++. ...+.--.+|..+..+|-...|..+|+++
T Consensus 193 ~g~~~~A~~~f~~vv~~yP~s~----------------~~~dAl~klg~~~~~~g~~~~A~~~~~~v 243 (263)
T PRK10803 193 KGKKDDAAYYFASVVKNYPKSP----------------KAADAMFKVGVIMQDKGDTAKAKAVYQQV 243 (263)
T ss_pred cCCHHHHHHHHHHHHHHCCCCc----------------chhHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3455688888999998887653 23333345788899999999999999865
No 79
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=30.94 E-value=1.1e+02 Score=22.90 Aligned_cols=36 Identities=19% Similarity=0.264 Sum_probs=23.2
Q ss_pred HHHHHHHhcccHHHHHHHHH---------------------HhhcHHHHHHHhHhhc
Q 033437 79 EYAKLLVSCGLIGEAIKNFE---------------------DLVLWDSLILQLPIGE 114 (119)
Q Consensus 79 ela~~~~slG~~~sAl~ife---------------------~LemWe~vI~Cy~~l~ 114 (119)
.+|-.+...|-+.+|..+|+ .++-|+++|.||...+
T Consensus 40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~ 96 (157)
T PRK15363 40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAA 96 (157)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 45666666677777766665 3456677777776554
No 80
>PF13515 FUSC_2: Fusaric acid resistance protein-like
Probab=30.71 E-value=42 Score=22.54 Aligned_cols=42 Identities=17% Similarity=0.114 Sum_probs=33.9
Q ss_pred hhHHHHHHhccCCchHHHHHHHHHHHHHhhcCcchhhHHHHH
Q 033437 2 APYIEAIDSQQSSCFILKFFCDLLRIRWESTRSRTKGRALEM 43 (119)
Q Consensus 2 ~pyi~~vl~~~~~~w~v~s~aLl~Rs~lE~~r~rtvERa~lQ 43 (119)
+-++...+..++..|..-+.....+...+....|..+|-+=-
T Consensus 2 a~~i~~~~~~~~~~W~~it~~~v~~~~~~~~~~~~~~Ri~Gt 43 (128)
T PF13515_consen 2 AFFIAQWLGLPHGYWAPITVVSVLSPSYGATVNRAIQRILGT 43 (128)
T ss_pred hhhHHHHHcCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 346677888888899999999999988888888888886543
No 81
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=29.93 E-value=51 Score=19.88 Aligned_cols=23 Identities=17% Similarity=0.410 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHhhhcCCCCCccc
Q 033437 38 GRALEMMDKLVEGISNSSPGVTQ 60 (119)
Q Consensus 38 ERa~lQmq~LVd~~~~~~~~~~~ 60 (119)
|-++.+++.+|+++.+++.|..+
T Consensus 2 Ee~~~~Le~Iv~~Le~~~~sLde 24 (53)
T PF02609_consen 2 EEAMERLEEIVEKLESGELSLDE 24 (53)
T ss_dssp HHHHHHHHHHHHHHHTT-S-HHH
T ss_pred HHHHHHHHHHHHHHHcCCCCHHH
Confidence 56889999999999988876543
No 82
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=29.45 E-value=1.4e+02 Score=25.51 Aligned_cols=45 Identities=13% Similarity=0.116 Sum_probs=22.6
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHh--------hcHHHHHHHhHhhcc
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDL--------VLWDSLILQLPIGEE 115 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~L--------emWe~vI~Cy~~l~~ 115 (119)
|......-.+|..+...|....|++.|++. +.|..+..||...|+
T Consensus 564 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 616 (899)
T TIGR02917 564 PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGD 616 (899)
T ss_pred ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC
Confidence 333344445555556666666665555543 234444444444443
No 83
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=29.12 E-value=58 Score=21.66 Aligned_cols=29 Identities=10% Similarity=0.220 Sum_probs=23.8
Q ss_pred CcchhhHHHHHHHHHHhhhcCCCCCcccc
Q 033437 33 RSRTKGRALEMMDKLVEGISNSSPGVTQR 61 (119)
Q Consensus 33 r~rtvERa~lQmq~LVd~~~~~~~~~~~R 61 (119)
..-|.|-++.+|+.+|+++.+++-+..+=
T Consensus 8 ~~~sfEea~~~LEeIv~~LE~~~l~Lees 36 (80)
T PRK00977 8 KPLSFEEALAELEEIVTRLESGDLPLEES 36 (80)
T ss_pred CcCCHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence 44578999999999999999988765543
No 84
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=29.06 E-value=1.5e+02 Score=25.35 Aligned_cols=30 Identities=20% Similarity=0.200 Sum_probs=17.9
Q ss_pred CcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 71 PTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 71 pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
|......-.+|..+...|-..+|+..|++.
T Consensus 53 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~ 82 (899)
T TIGR02917 53 PNDAEARFLLGKIYLALGDYAAAEKELRKA 82 (899)
T ss_pred CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 334445556666666666666666666653
No 85
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=28.91 E-value=61 Score=20.82 Aligned_cols=27 Identities=11% Similarity=0.308 Sum_probs=21.7
Q ss_pred hhhHHHHHHHHHHhhhcCCCCCcccch
Q 033437 36 TKGRALEMMDKLVEGISNSSPGVTQRI 62 (119)
Q Consensus 36 tvERa~lQmq~LVd~~~~~~~~~~~Rl 62 (119)
|.|-++.+|+.+|.++.+++.|..+=+
T Consensus 2 sfEe~l~~Le~Iv~~LE~~~l~Leesl 28 (67)
T TIGR01280 2 SFEEALSELEQIVQKLESGDLALEEAL 28 (67)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence 468899999999999999887755433
No 86
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=28.76 E-value=2e+02 Score=20.19 Aligned_cols=48 Identities=17% Similarity=0.210 Sum_probs=32.6
Q ss_pred hhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHH
Q 033437 36 TKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 36 tvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~ 99 (119)
..|.|+..++..++++++++ ...+++ --+|..+.+.|--++|++.+..
T Consensus 53 ~~deA~~~L~~~~~~~p~~~--~~~~l~--------------~f~Al~L~~~gr~~eAl~~~l~ 100 (120)
T PF12688_consen 53 RYDEALALLEEALEEFPDDE--LNAALR--------------VFLALALYNLGRPKEALEWLLE 100 (120)
T ss_pred CHHHHHHHHHHHHHHCCCcc--ccHHHH--------------HHHHHHHHHCCCHHHHHHHHHH
Confidence 35667777777776664322 334444 3457789999999999999875
No 87
>PF08060 NOSIC: NOSIC (NUC001) domain; InterPro: IPR012976 This is the central domain in Nop56/SIK1-like proteins [].; PDB: 3PLA_K 3ICX_B 3ID6_A 3ID5_E 3NVM_A 3NMU_B 2NNW_C 3NVI_A 3NVK_A 2OZB_E ....
Probab=28.31 E-value=14 Score=22.64 Aligned_cols=31 Identities=16% Similarity=0.221 Sum_probs=25.0
Q ss_pred HHHHHHHhhhcCCCCCcccchhhhhhcCCCc
Q 033437 42 EMMDKLVEGISNSSPGVTQRIPFCYVICIPT 72 (119)
Q Consensus 42 lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp 72 (119)
.|.-+++++++++-.....|++-.|+..||-
T Consensus 3 i~~~~l~~~id~ei~~~~~~lre~Y~~~FPE 33 (53)
T PF08060_consen 3 IQANELLDDIDKEINLLHMRLREWYSWHFPE 33 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTTSTT
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHccchh
Confidence 4666777777776667889999999999994
No 88
>KOG3911 consensus Nucleolar protein NOP52/RRP1 [RNA processing and modification]
Probab=27.22 E-value=1.2e+02 Score=26.09 Aligned_cols=59 Identities=19% Similarity=0.322 Sum_probs=44.3
Q ss_pred HHhhcCcchhhHHHHHHHHHHhhhcCCCCCcc---cch--hhhhhcCCCcHhHHHHHHHHHHHh
Q 033437 28 RWESTRSRTKGRALEMMDKLVEGISNSSPGVT---QRI--PFCYVICIPTIPALRKEYAKLLVS 86 (119)
Q Consensus 28 ~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~---~Rl--~~~~~~~~pp~W~l~~ela~~~~s 86 (119)
+|=++-..|..||+.-|+.-+.+=...++-.. -|+ -+||+.+|.-..-++.|||+.+--
T Consensus 15 kLA~ne~~tRdrAlr~Lrkyi~ak~~k~~F~~~dflklWKGLfY~MWmqDkPllQeeLa~~laq 78 (378)
T KOG3911|consen 15 KLACNERKTRDRALRKLRKYISAKTQKEGFDQDDFLKLWKGLFYCMWMQDKPLLQEELADTLAQ 78 (378)
T ss_pred HHhcCChHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHhhHHHHhhcCCchHHHHHHHHHHH
Confidence 45678889999999999987765554442111 232 479999999999999999997654
No 89
>KOG1475 consensus Ribosomal protein RPL1/RPL2/RL4L4 [RNA processing and modification]
Probab=27.08 E-value=71 Score=27.05 Aligned_cols=33 Identities=15% Similarity=0.131 Sum_probs=27.1
Q ss_pred HHHhcccHHHHHHHHHHhhcHHHHHHHhHhhcc
Q 033437 83 LLVSCGLIGEAIKNFEDLVLWDSLILQLPIGEE 115 (119)
Q Consensus 83 ~~~slG~~~sAl~ife~LemWe~vI~Cy~~l~~ 115 (119)
..-|.--+++|..+..++.+|+|+..-|.+-+-
T Consensus 156 ~ve~~~KTkeAV~~Lk~~~a~~di~kv~~S~~~ 188 (363)
T KOG1475|consen 156 KVESFRKTKEAVALLKKLKAWNDIKKVYNSRRL 188 (363)
T ss_pred hhHHHHhHHHHHHHHHHhccHHHHHHHHhhccc
Confidence 334555689999999999999999999987653
No 90
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=27.04 E-value=45 Score=25.59 Aligned_cols=93 Identities=16% Similarity=0.076 Sum_probs=46.5
Q ss_pred HHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCC------------Ccccc----hhhhhhcCCCcHhHHHHHHHHHHHh
Q 033437 23 DLLRIRWESTRSRTKGRALEMMDKLVEGISNSSP------------GVTQR----IPFCYVICIPTIPALRKEYAKLLVS 86 (119)
Q Consensus 23 Ll~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~------------~~~~R----l~~~~~~~~pp~W~l~~ela~~~~s 86 (119)
+..++.+....++. +.|..-++..++..+++.. .-... ++-.-. ..|+...+...+|..+..
T Consensus 149 ~~~~a~~~~~~G~~-~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~-~~~~~~~~~~~la~~~~~ 226 (280)
T PF13429_consen 149 WLALAEIYEQLGDP-DKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLK-AAPDDPDLWDALAAAYLQ 226 (280)
T ss_dssp HHHHHHHHHHCCHH-HHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHH-H-HTSCCHCHHHHHHHHH
T ss_pred HHHHHHHHHHcCCH-HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHH-HCcCHHHHHHHHHHHhcc
Confidence 34455555544433 6666666666666554211 00111 111111 125555566788999999
Q ss_pred cccHHHHHHHHHHhhc--------HHHHHHHhHhhcccC
Q 033437 87 CGLIGEAIKNFEDLVL--------WDSLILQLPIGEESS 117 (119)
Q Consensus 87 lG~~~sAl~ife~Lem--------We~vI~Cy~~l~~~~ 117 (119)
+|....|+..|++.-- .....+.+...|+.+
T Consensus 227 lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~ 265 (280)
T PF13429_consen 227 LGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKD 265 (280)
T ss_dssp HT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT------
T ss_pred ccccccccccccccccccccccccccccccccccccccc
Confidence 9999999999987532 234455555555543
No 91
>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=26.24 E-value=2.2e+02 Score=19.53 Aligned_cols=27 Identities=11% Similarity=-0.012 Sum_probs=15.8
Q ss_pred HhHHHHHHHHHHHhcccHHHHHHHHHH
Q 033437 73 IPALRKEYAKLLVSCGLIGEAIKNFED 99 (119)
Q Consensus 73 ~W~l~~ela~~~~slG~~~sAl~ife~ 99 (119)
.+..-..+|..+...|-...|.+.|++
T Consensus 134 ~~~~~~~l~~~~~~~g~~~~A~~~~~~ 160 (234)
T TIGR02521 134 PARSLENAGLCALKAGDFDKAEKYLTR 160 (234)
T ss_pred chHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 344444556666666666666666654
No 92
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=25.15 E-value=4.2e+02 Score=23.43 Aligned_cols=62 Identities=24% Similarity=0.140 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHH
Q 033437 19 KFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFE 98 (119)
Q Consensus 19 ~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife 98 (119)
+|-.++++..+-... --.|+|+.=|++--+.+. ..=.+....|+.++.+|-..+|.++|.
T Consensus 3 ~SE~lLY~~~il~e~-g~~~~AL~~L~~~~~~I~-------------------Dk~~~~E~rA~ll~kLg~~~eA~~~y~ 62 (517)
T PF12569_consen 3 HSELLLYKNSILEEA-GDYEEALEHLEKNEKQIL-------------------DKLAVLEKRAELLLKLGRKEEAEKIYR 62 (517)
T ss_pred HHHHHHHHHHHHHHC-CCHHHHHHHHHhhhhhCC-------------------CHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 355566664443332 345677777766544443 333455788999999999999999998
Q ss_pred Hh
Q 033437 99 DL 100 (119)
Q Consensus 99 ~L 100 (119)
.|
T Consensus 63 ~L 64 (517)
T PF12569_consen 63 EL 64 (517)
T ss_pred HH
Confidence 87
No 93
>COG0082 AroC Chorismate synthase [Amino acid transport and metabolism]
Probab=24.98 E-value=70 Score=27.43 Aligned_cols=52 Identities=17% Similarity=0.212 Sum_probs=38.0
Q ss_pred HHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcH------hHHHHHHHHHHHhcccHH
Q 033437 39 RALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTI------PALRKEYAKLLVSCGLIG 91 (119)
Q Consensus 39 Ra~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~------W~l~~ela~~~~slG~~~ 91 (119)
.+...|++++|+..++.-+....++ +-+.++|+- =.|+.+||.-+|||..+|
T Consensus 185 e~~~~m~~~i~~~k~~GDSiGgvve-vva~gvP~GLG~pvfdkLda~lA~AlmsI~AvK 242 (369)
T COG0082 185 EAEEEMEELIDKAKKEGDSIGGVVE-VVAEGVPAGLGEPVFDKLDAKLAHALMSIPAVK 242 (369)
T ss_pred HHHHHHHHHHHHHHhcCCCcccEEE-EEEeCCCCCCCCcccccchHHHHHHhhCCccce
Confidence 6678999999999876655555443 233444443 379999999999999886
No 94
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=24.47 E-value=55 Score=20.77 Aligned_cols=28 Identities=21% Similarity=0.253 Sum_probs=20.1
Q ss_pred chhhHHHHHHHHHHhhhcC--CCCCcccch
Q 033437 35 RTKGRALEMMDKLVEGISN--SSPGVTQRI 62 (119)
Q Consensus 35 rtvERa~lQmq~LVd~~~~--~~~~~~~Rl 62 (119)
+.+|+.+.+.+++++++.- ...|++.|-
T Consensus 28 ~~~e~~l~ea~~~l~qMe~E~~~~p~s~r~ 57 (79)
T PF05008_consen 28 REIERDLDEAEELLKQMELEVRSLPPSERN 57 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCTS-HHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHH
Confidence 7889999999999999863 233445553
No 95
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=23.87 E-value=2e+02 Score=19.88 Aligned_cols=42 Identities=17% Similarity=0.233 Sum_probs=27.0
Q ss_pred cchhhhhhcCCCcH--hHHHHHHHHHHHhcccHHHHHHHHHHhh
Q 033437 60 QRIPFCYVICIPTI--PALRKEYAKLLVSCGLIGEAIKNFEDLV 101 (119)
Q Consensus 60 ~Rl~~~~~~~~pp~--W~l~~ela~~~~slG~~~sAl~ife~Le 101 (119)
.-++-+....-.|. ...+-.||..++..|-...|+.+++...
T Consensus 69 ~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~ 112 (145)
T PF09976_consen 69 AALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIP 112 (145)
T ss_pred HHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc
Confidence 33444555442232 4466667888888888888888887643
No 96
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=23.83 E-value=1e+02 Score=29.42 Aligned_cols=43 Identities=23% Similarity=0.359 Sum_probs=35.2
Q ss_pred cchhhhhh---cCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHhhc
Q 033437 60 QRIPFCYV---ICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDLVL 102 (119)
Q Consensus 60 ~Rl~~~~~---~~~pp~W~l~~ela~~~~slG~~~sAl~ife~Lem 102 (119)
.|-.|+|. ..-|+.|++.-+-+.++-.+|..+.|++-|+++=+
T Consensus 224 ~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~ 269 (895)
T KOG2076|consen 224 NQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQ 269 (895)
T ss_pred HHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHh
Confidence 45556664 34588999999999999999999999999998743
No 97
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=23.40 E-value=1e+02 Score=29.13 Aligned_cols=35 Identities=29% Similarity=0.304 Sum_probs=31.0
Q ss_pred HHHHHHHHhcccHHHHHHHHHHhhcHHHHHHHhHh
Q 033437 78 KEYAKLLVSCGLIGEAIKNFEDLVLWDSLILQLPI 112 (119)
Q Consensus 78 ~ela~~~~slG~~~sAl~ife~LemWe~vI~Cy~~ 112 (119)
+|-|.++...|--.-|+|+|..|.|.|.+-+=...
T Consensus 649 ~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~ 683 (1081)
T KOG1538|consen 649 HEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGS 683 (1081)
T ss_pred HHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhc
Confidence 79999999999999999999999999988664443
No 98
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=22.43 E-value=3.3e+02 Score=20.11 Aligned_cols=61 Identities=15% Similarity=0.150 Sum_probs=42.9
Q ss_pred HHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 24 LLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 24 l~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
+.+.--+.-+++.-+.|..|++.|-..++-+.-....+| .||..+..-|-...|+..|+|.
T Consensus 13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL----------------~l~yayy~~~~y~~A~a~~~rF 73 (142)
T PF13512_consen 13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQL----------------DLAYAYYKQGDYEEAIAAYDRF 73 (142)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHH----------------HHHHHHHHccCHHHHHHHHHHH
Confidence 444445666777788999999999999987654444444 5566677777777777776653
No 99
>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]. Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].
Probab=22.19 E-value=2.6e+02 Score=23.33 Aligned_cols=65 Identities=15% Similarity=-0.009 Sum_probs=38.0
Q ss_pred chhhHHHHHHH-HHHhhhcC---CCCCcccchhhhhhcCCCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 35 RTKGRALEMMD-KLVEGISN---SSPGVTQRIPFCYVICIPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 35 rtvERa~lQmq-~LVd~~~~---~~~~~~~Rl~~~~~~~~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
--+|||+--++ ++-..|.. .-.....|+.|-+.-+=|= |-.--.+...+..=|+.++|+|+.+=|
T Consensus 61 ~lleRALf~~e~~~~~~F~~~~~~~~~g~~rL~~~~~eNR~f-flal~r~i~~L~~RG~~rTAlE~~KlL 129 (360)
T PF04910_consen 61 DLLERALFAFERAFHPSFSPFRSNLTSGNCRLDYRRPENRQF-FLALFRYIQSLGRRGCWRTALEWCKLL 129 (360)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhcccccCccccCCccccchHH-HHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 45788888888 44555532 3334556666644333222 222223444555569999999987643
No 100
>PTZ00091 40S ribosomal protein S5; Provisional
Probab=21.99 E-value=1.4e+02 Score=23.38 Aligned_cols=68 Identities=22% Similarity=0.230 Sum_probs=51.8
Q ss_pred HHHHHhhhcCCCCCcc-cchh---hhhhcCCCcHhHHHHHHHHHHHhcccHHHHH----HHHHHhhcHHHHHHHhHhh
Q 033437 44 MDKLVEGISNSSPGVT-QRIP---FCYVICIPTIPALRKEYAKLLVSCGLIGEAI----KNFEDLVLWDSLILQLPIG 113 (119)
Q Consensus 44 mq~LVd~~~~~~~~~~-~Rl~---~~~~~~~pp~W~l~~ela~~~~slG~~~sAl----~ife~LemWe~vI~Cy~~l 113 (119)
+|-|++.+.+..|-.. .|+. -.|.++.|-...=+..+|-+++.-|+-++|. .+-++|- +|+|..+.--
T Consensus 98 iqVl~~AI~N~~P~~e~~ri~~GG~~yqvpVdVsp~Rr~~lAirwI~~~ar~~~fR~~ks~~e~LA--~Eli~Aa~~~ 173 (193)
T PTZ00091 98 LQVLVDAVQNGGPREDSTRVGSGGVVRRQAVDVSPLRRVNQAIYLICKGAREAAFRNIKTIAECLA--DEIINASKES 173 (193)
T ss_pred HHHHHHHHHhCCCCeeeEEeecCCeEEEEeeecChHHHHHHHHHHHHHHHHhhcccCCCCHHHHHH--HHHHHHHhCC
Confidence 5678889988888643 4555 5788888888888899999999999888665 4556554 7888887654
No 101
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.98 E-value=1.2e+02 Score=25.16 Aligned_cols=31 Identities=35% Similarity=0.389 Sum_probs=26.4
Q ss_pred CCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 70 IPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 70 ~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
||-.-.+.+--|-++-..|..+.|+++|++|
T Consensus 82 fp~S~RV~~lkam~lEa~~~~~~A~e~y~~l 112 (289)
T KOG3060|consen 82 FPGSKRVGKLKAMLLEATGNYKEAIEYYESL 112 (289)
T ss_pred CCCChhHHHHHHHHHHHhhchhhHHHHHHHH
Confidence 4677777888899999999999999999886
No 102
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=21.95 E-value=59 Score=24.93 Aligned_cols=31 Identities=26% Similarity=0.244 Sum_probs=13.5
Q ss_pred CCcHhHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 70 IPTIPALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 70 ~pp~W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
-|.-+.....+|+.+...|....|.+++.++
T Consensus 244 ~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~ 274 (280)
T PF13429_consen 244 NPDDPLWLLAYADALEQAGRKDEALRLRRQA 274 (280)
T ss_dssp STT-HHHHHHHHHHHT---------------
T ss_pred ccccccccccccccccccccccccccccccc
Confidence 5778999999999999999999999998764
No 103
>PF09681 Phage_rep_org_N: N-terminal phage replisome organiser (Phage_rep_org_N); InterPro: IPR010056 This entry is represented by the N-terminal domain of Bacteriophage A500, Gp45. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The proteins in this entry contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The low-complexity region is adjacent to this N-terminal domain.
Probab=21.82 E-value=50 Score=23.60 Aligned_cols=26 Identities=19% Similarity=0.144 Sum_probs=21.1
Q ss_pred HHHHHHHH-HhcccHHHHHHHHHHhhc
Q 033437 77 RKEYAKLL-VSCGLIGEAIKNFEDLVL 102 (119)
Q Consensus 77 ~~ela~~~-~slG~~~sAl~ife~Lem 102 (119)
-.+||..+ .+++.|+.||..|++++|
T Consensus 56 ~e~LA~~~~~~~~~V~~AL~~f~k~gl 82 (121)
T PF09681_consen 56 AEMLALEFDRPVDTVRLALAVFQKLGL 82 (121)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 36666655 578999999999999987
No 104
>PF06578 YscK: YOP proteins translocation protein K (YscK); InterPro: IPR009510 This family consists of several YscK proteins. The function of this protein is unknown but it belongs to an operon involved in the secretion of Yop proteins across bacterial membranes.; GO: 0009405 pathogenesis
Probab=21.73 E-value=88 Score=24.73 Aligned_cols=64 Identities=13% Similarity=-0.129 Sum_probs=48.0
Q ss_pred HHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhh-hhhcCCCcHh---HHHHHHHHHHHh
Q 033437 21 FCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPF-CYVICIPTIP---ALRKEYAKLLVS 86 (119)
Q Consensus 21 ~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~-~~~~~~pp~W---~l~~ela~~~~s 86 (119)
=+-|.|..=+.-..+.+|++.+|+ .+...++..+....|++. +.....++.| +=++.+|.++..
T Consensus 124 P~gwQ~~LP~~~~~~~~~~~gl~~--wl~a~~~~~~~~~~rL~lrl~~~~~~~~w~~~~~~r~lA~~L~~ 191 (206)
T PF06578_consen 124 PAGWQRPLPEQMDERYFEQAGLQF--WLAAPSELPQRWQKRLALRLPPAPSMADWTLDEEQRPLAYRLCL 191 (206)
T ss_pred CcccccCCccchhHHHHHHHHHHH--HHhccCcCChhHHHHHHhhCCCCCCCCCCccChHhHHHHHHHHH
Confidence 355677777777888899999999 777777777778888876 4555668889 446778887764
No 105
>PF12668 DUF3791: Protein of unknown function (DUF3791); InterPro: IPR024269 This entry represents proteins of unknown function.
Probab=21.50 E-value=1.1e+02 Score=18.97 Aligned_cols=24 Identities=21% Similarity=0.045 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhhcHHHHHHHhHhh
Q 033437 90 IGEAIKNFEDLVLWDSLILQLPIG 113 (119)
Q Consensus 90 ~~sAl~ife~LemWe~vI~Cy~~l 113 (119)
.+.|+++|.+.+..+=+..||-.+
T Consensus 19 ~~ea~~~~~~~~~~~~i~~~Yd~l 42 (62)
T PF12668_consen 19 GEEAYNYFKRSGVIDYIIDCYDVL 42 (62)
T ss_pred HHHHHHHHHHcCcHHHHHHcchHH
Confidence 578999999999999999998754
No 106
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=21.48 E-value=7.2e+02 Score=23.74 Aligned_cols=106 Identities=13% Similarity=0.042 Sum_probs=0.0
Q ss_pred HHHHHHhccCCchHHHHHHHHHHHHHhhcCcchhhHHHHHHHHHHhhhcCCCCCcccchhhhhhcC--------------
Q 033437 4 YIEAIDSQQSSCFILKFFCDLLRIRWESTRSRTKGRALEMMDKLVEGISNSSPGVTQRIPFCYVIC-------------- 69 (119)
Q Consensus 4 yi~~vl~~~~~~w~v~s~aLl~Rs~lE~~r~rtvERa~lQmq~LVd~~~~~~~~~~~Rl~~~~~~~-------------- 69 (119)
|-+.+-.+|...|..+..|.++...=+ .+.|...++.+++..++.......+..+....+
T Consensus 484 ~~~Al~~~P~~~~~~~~LA~~~~~~G~------~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~ 557 (1157)
T PRK11447 484 QRQRLALDPGSVWLTYRLAQDLRQAGQ------RSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPR 557 (1157)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHHcCC------HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCc
Q ss_pred -----------------------------------------CCcHhHHHHHHHHHHHhcccHHHHHHHHHHhh-------
Q 033437 70 -----------------------------------------IPTIPALRKEYAKLLVSCGLIGEAIKNFEDLV------- 101 (119)
Q Consensus 70 -----------------------------------------~pp~W~l~~ela~~~~slG~~~sAl~ife~Le------- 101 (119)
.|+.-...-.+|+.+...|....|++.|++.-
T Consensus 558 ~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~ 637 (1157)
T PRK11447 558 AQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNA 637 (1157)
T ss_pred hhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Q ss_pred -cHHHHHHHhHhhcc
Q 033437 102 -LWDSLILQLPIGEE 115 (119)
Q Consensus 102 -mWe~vI~Cy~~l~~ 115 (119)
.|-..+.+|...|+
T Consensus 638 ~a~~~la~~~~~~g~ 652 (1157)
T PRK11447 638 DARLGLIEVDIAQGD 652 (1157)
T ss_pred HHHHHHHHHHHHCCC
No 107
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=21.09 E-value=3.1e+02 Score=19.41 Aligned_cols=27 Identities=11% Similarity=0.153 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHhcccHHHHHHHHHHh
Q 033437 74 PALRKEYAKLLVSCGLIGEAIKNFEDL 100 (119)
Q Consensus 74 W~l~~ela~~~~slG~~~sAl~ife~L 100 (119)
...-..+|..+...|-...|+..|++.
T Consensus 72 ~~~~~~la~~~~~~g~~~~A~~~~~~a 98 (172)
T PRK02603 72 SYILYNMGIIYASNGEHDKALEYYHQA 98 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 345567777777777777777777653
No 108
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=20.38 E-value=3e+02 Score=22.34 Aligned_cols=81 Identities=17% Similarity=0.170 Sum_probs=47.7
Q ss_pred cCCchHHHHHHHHHHHHHhhcC-----cchhhHHHHHHHHHHhhhcCCC--CCcccchhhhhhcCCCcHhHHHHHHHHHH
Q 033437 12 QSSCFILKFFCDLLRIRWESTR-----SRTKGRALEMMDKLVEGISNSS--PGVTQRIPFCYVICIPTIPALRKEYAKLL 84 (119)
Q Consensus 12 ~~~~w~v~s~aLl~Rs~lE~~r-----~rtvERa~lQmq~LVd~~~~~~--~~~~~Rl~~~~~~~~pp~W~l~~ela~~~ 84 (119)
|+..+..+..+|- ...... ..-...|...++.+|+.++++. +.+..||.++=. -.=..+...|+.|
T Consensus 105 ~n~dY~~YlkgLs---~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d----~LA~~Em~IaryY 177 (254)
T COG4105 105 PNADYAYYLKGLS---YFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLND----ALAGHEMAIARYY 177 (254)
T ss_pred CChhHHHHHHHHH---HhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH----HHHHHHHHHHHHH
Confidence 3456766666665 222211 1234578999999999999986 667777765431 0112334455566
Q ss_pred HhcccHHHHHHHHHH
Q 033437 85 VSCGLIGEAIKNFED 99 (119)
Q Consensus 85 ~slG~~~sAl~ife~ 99 (119)
..-|..-.|..=|++
T Consensus 178 ~kr~~~~AA~nR~~~ 192 (254)
T COG4105 178 LKRGAYVAAINRFEE 192 (254)
T ss_pred HHhcChHHHHHHHHH
Confidence 666666666555443
No 109
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=20.18 E-value=2.3e+02 Score=25.18 Aligned_cols=36 Identities=31% Similarity=0.381 Sum_probs=27.4
Q ss_pred CcchhhHHHHHHHHHHhhhcCC------C--------CCcccchhhhhhc
Q 033437 33 RSRTKGRALEMMDKLVEGISNS------S--------PGVTQRIPFCYVI 68 (119)
Q Consensus 33 r~rtvERa~lQmq~LVd~~~~~------~--------~~~~~Rl~~~~~~ 68 (119)
..||+|+++.-|+.+|++..++ + |...++|+.+|+.
T Consensus 43 dkr~l~k~~klmdkvv~~C~~Prl~lknSPP~ilDiLPdTyqhLrli~s~ 92 (563)
T KOG1785|consen 43 DKRTLEKAWKLMDKVVKLCQNPRLNLKNSPPFILDILPDTYQHLRLILSK 92 (563)
T ss_pred HHHHHHHHHHHHHHHHHHhcCccccccCCCcHHHHhchhHHHHHHHHHHh
Confidence 6799999999999999988654 2 3345677777653
No 110
>TIGR01714 phage_rep_org_N phage replisome organizer, putative, N-terminal region. This model represents the N-terminal domain of a small family of phage proteins. The protein contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The region covered by this model is N-terminal to the low-complexity region.
Probab=20.07 E-value=58 Score=23.41 Aligned_cols=27 Identities=22% Similarity=0.198 Sum_probs=22.3
Q ss_pred HHHHHHHH-HHhcccHHHHHHHHHHhhc
Q 033437 76 LRKEYAKL-LVSCGLIGEAIKNFEDLVL 102 (119)
Q Consensus 76 l~~ela~~-~~slG~~~sAl~ife~Lem 102 (119)
...++|.. =.+++-|+-|+.+|++++|
T Consensus 53 ~~e~LA~~~~~~~~~V~~Al~~f~k~gl 80 (119)
T TIGR01714 53 NAEMLATMFNRNVGDIRITLQTLESLGL 80 (119)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCCC
Confidence 44667765 4789999999999999988
No 111
>COG4001 Predicted metal-binding protein [General function prediction only]
Probab=20.03 E-value=97 Score=21.76 Aligned_cols=24 Identities=25% Similarity=0.206 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhccc----------HHHHHHHHHH
Q 033437 76 LRKEYAKLLVSCGL----------IGEAIKNFED 99 (119)
Q Consensus 76 l~~ela~~~~slG~----------~~sAl~ife~ 99 (119)
+..|||.+++.+|. +++|||.|.-
T Consensus 12 lds~Larr~mk~~tg~C~~cGd~Rik~Ald~alg 45 (102)
T COG4001 12 LDSELARRLMKLMTGECRKCGDPRIKSALDHALG 45 (102)
T ss_pred hccHHHHHHHHHhcccccccccHHHHHHHHHHHc
Confidence 45788888887664 7899998753
Done!