Query 028638
Match_columns 206
No_of_seqs 136 out of 1352
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 14:39:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028638.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028638hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1315 Predicted DHHC-type Zn 100.0 5.7E-47 1.2E-51 302.0 15.8 190 8-205 100-298 (307)
2 KOG1311 DHHC-type Zn-finger pr 100.0 1.2E-44 2.6E-49 294.3 13.8 190 3-200 99-296 (299)
3 KOG1313 DHHC-type Zn-finger pr 100.0 2.2E-42 4.8E-47 264.8 12.9 181 14-196 99-304 (309)
4 KOG1314 DHHC-type Zn-finger pr 100.0 6.7E-42 1.5E-46 270.0 8.7 175 16-198 90-279 (414)
5 COG5273 Uncharacterized protei 100.0 1.3E-38 2.8E-43 257.4 11.1 193 3-199 95-305 (309)
6 PF01529 zf-DHHC: DHHC palmito 100.0 2.4E-38 5.2E-43 238.6 11.3 136 6-141 37-173 (174)
7 KOG1312 DHHC-type Zn-finger pr 100.0 1.5E-31 3.2E-36 206.4 8.9 126 18-143 149-292 (341)
8 KOG0509 Ankyrin repeat and DHH 100.0 2E-30 4.4E-35 219.2 5.7 166 3-174 405-585 (600)
9 COG5273 Uncharacterized protei 95.3 0.29 6.3E-06 40.2 10.4 162 28-197 106-280 (309)
10 PF01529 zf-DHHC: DHHC palmito 94.9 0.42 9.1E-06 35.5 9.6 61 27-87 44-115 (174)
11 KOG1311 DHHC-type Zn-finger pr 94.2 0.19 4.2E-06 41.0 6.8 56 30-85 112-178 (299)
12 PF13240 zinc_ribbon_2: zinc-r 92.3 0.074 1.6E-06 25.8 1.0 21 19-39 1-21 (23)
13 PRK04136 rpl40e 50S ribosomal 91.2 0.1 2.2E-06 30.0 0.9 24 16-39 13-36 (48)
14 PF13248 zf-ribbon_3: zinc-rib 91.1 0.13 2.8E-06 25.7 1.1 23 17-39 2-24 (26)
15 PF12773 DZR: Double zinc ribb 87.4 0.38 8.3E-06 27.9 1.5 37 14-50 9-48 (50)
16 PF10571 UPF0547: Uncharacteri 85.4 0.39 8.5E-06 24.0 0.7 22 18-39 1-22 (26)
17 COG1552 RPL40A Ribosomal prote 82.4 0.31 6.7E-06 28.1 -0.5 23 17-39 14-36 (50)
18 PF12773 DZR: Double zinc ribb 81.0 1 2.2E-05 26.1 1.4 25 14-38 26-50 (50)
19 KOG0509 Ankyrin repeat and DHH 80.9 1.4 3.1E-05 39.0 2.8 52 16-68 324-375 (600)
20 KOG1315 Predicted DHHC-type Zn 77.8 23 0.0005 29.2 8.6 29 30-58 108-136 (307)
21 PF01020 Ribosomal_L40e: Ribos 75.5 1.1 2.5E-05 26.2 0.4 25 16-40 16-42 (52)
22 PTZ00303 phosphatidylinositol 74.4 1.5 3.4E-05 40.1 1.2 23 17-39 460-489 (1374)
23 PF09889 DUF2116: Uncharacteri 73.9 6.4 0.00014 23.9 3.4 24 16-39 2-26 (59)
24 KOG1842 FYVE finger-containing 68.0 1.8 3.9E-05 37.0 0.1 29 14-42 177-207 (505)
25 PF00641 zf-RanBP: Zn-finger i 66.7 2 4.3E-05 22.0 0.1 21 19-39 6-26 (30)
26 PF07282 OrfB_Zn_ribbon: Putat 65.3 4.4 9.5E-05 25.1 1.5 34 7-40 18-55 (69)
27 TIGR00155 pqiA_fam integral me 64.8 91 0.002 26.8 10.2 31 17-47 215-246 (403)
28 PF00751 DM: DM DNA binding do 64.5 3.8 8.2E-05 23.7 1.0 23 30-52 1-28 (47)
29 PRK15103 paraquat-inducible me 62.9 1E+02 0.0022 26.7 10.2 31 17-47 221-251 (419)
30 smart00064 FYVE Protein presen 61.0 4.6 0.0001 24.9 1.1 25 17-41 10-36 (68)
31 PF01363 FYVE: FYVE zinc finge 59.4 2.6 5.7E-05 26.1 -0.3 28 15-42 7-36 (69)
32 KOG2927 Membrane component of 57.6 51 0.0011 27.6 6.6 31 27-57 157-188 (372)
33 PF03842 Silic_transp: Silicon 55.2 1.3E+02 0.0027 26.1 8.6 21 60-80 170-190 (512)
34 PHA02680 ORF090 IMV phosphoryl 54.8 59 0.0013 21.4 7.0 27 115-141 57-83 (91)
35 PRK03681 hypA hydrogenase nick 54.8 9.2 0.0002 26.5 1.8 31 8-39 62-95 (114)
36 PF09297 zf-NADH-PPase: NADH p 54.7 3.1 6.8E-05 21.6 -0.4 23 17-39 3-29 (32)
37 PF05814 DUF843: Baculovirus p 54.4 42 0.00092 21.8 4.6 26 120-146 37-62 (83)
38 COG2093 DNA-directed RNA polym 53.1 6.8 0.00015 24.0 0.8 23 17-39 4-26 (64)
39 PRK14559 putative protein seri 52.6 8.1 0.00018 35.2 1.5 40 15-56 13-52 (645)
40 PF14127 DUF4294: Domain of un 50.7 16 0.00035 26.9 2.6 33 129-174 102-134 (157)
41 PRK14559 putative protein seri 47.2 9.9 0.00022 34.6 1.2 25 17-41 1-25 (645)
42 smart00661 RPOL9 RNA polymeras 45.0 7.5 0.00016 22.4 0.1 21 18-38 1-27 (52)
43 TIGR00155 pqiA_fam integral me 43.8 2.1E+02 0.0046 24.6 9.4 31 17-47 13-49 (403)
44 PF07754 DUF1610: Domain of un 43.6 12 0.00025 18.3 0.6 19 20-38 1-23 (24)
45 PF00130 C1_1: Phorbol esters/ 43.0 14 0.00029 21.4 1.0 39 10-48 4-50 (53)
46 PF14015 DUF4231: Protein of u 42.5 1E+02 0.0022 20.6 8.6 19 130-148 79-97 (112)
47 cd00065 FYVE FYVE domain; Zinc 42.4 13 0.00028 21.8 0.9 24 18-41 3-28 (57)
48 PHA02942 putative transposase; 41.8 15 0.00032 31.3 1.4 32 8-39 316-350 (383)
49 PF01437 PSI: Plexin repeat; 41.3 8.2 0.00018 22.4 -0.1 18 35-52 6-23 (51)
50 PF06906 DUF1272: Protein of u 41.0 15 0.00033 21.9 1.0 36 19-57 7-50 (57)
51 PRK12286 rpmF 50S ribosomal pr 40.0 13 0.00028 22.4 0.6 20 17-38 27-47 (57)
52 PF14319 Zn_Tnp_IS91: Transpos 39.2 12 0.00026 25.8 0.4 25 15-39 40-68 (111)
53 PRK00432 30S ribosomal protein 39.2 13 0.00028 21.7 0.5 23 16-38 19-44 (50)
54 KOG3183 Predicted Zn-finger pr 38.9 11 0.00025 29.5 0.3 12 41-52 38-49 (250)
55 TIGR00100 hypA hydrogenase nic 38.6 23 0.00051 24.5 1.8 32 7-39 61-94 (115)
56 PRK12380 hydrogenase nickel in 38.6 23 0.00051 24.4 1.8 31 8-39 62-94 (113)
57 PRK13130 H/ACA RNA-protein com 37.9 17 0.00036 21.9 0.8 22 16-39 4-25 (56)
58 TIGR01031 rpmF_bact ribosomal 37.8 14 0.00031 22.0 0.5 20 17-38 26-46 (55)
59 PF02150 RNA_POL_M_15KD: RNA p 37.6 5.2 0.00011 21.4 -1.3 8 17-24 1-8 (35)
60 smart00301 DM Doublesex DNA-bi 37.5 21 0.00046 21.2 1.2 22 31-52 2-28 (54)
61 PF13261 DUF4052: Protein of u 37.1 58 0.0013 24.5 3.7 33 52-84 115-148 (217)
62 COG4640 Predicted membrane pro 36.3 16 0.00034 31.0 0.7 25 17-41 1-25 (465)
63 smart00547 ZnF_RBZ Zinc finger 36.3 14 0.0003 17.9 0.2 21 19-39 4-24 (26)
64 PRK00564 hypA hydrogenase nick 35.9 30 0.00065 24.1 2.0 31 8-39 63-96 (117)
65 PF15050 SCIMP: SCIMP protein 35.8 1.5E+02 0.0034 20.7 6.1 7 163-169 57-63 (133)
66 PF09788 Tmemb_55A: Transmembr 35.6 1.4E+02 0.0031 23.8 5.8 25 55-79 189-214 (256)
67 PF07649 C1_3: C1-like domain; 35.6 8.2 0.00018 19.6 -0.7 21 19-39 2-23 (30)
68 PF03503 Chlam_OMP3: Chlamydia 35.3 26 0.00056 20.2 1.3 28 15-42 21-48 (55)
69 COG2816 NPY1 NTP pyrophosphohy 35.0 19 0.00041 29.1 1.0 26 14-39 108-137 (279)
70 PHA02898 virion envelope prote 35.0 1.3E+02 0.0029 19.8 6.5 24 114-137 55-79 (92)
71 smart00423 PSI domain found in 34.3 26 0.00055 19.7 1.2 16 36-51 6-21 (46)
72 COG4068 Uncharacterized protei 33.5 14 0.00031 22.2 0.0 19 17-35 8-26 (64)
73 COG0603 Predicted PP-loop supe 32.4 20 0.00043 28.0 0.7 20 25-44 186-205 (222)
74 KOG3611 Semaphorins [Signal tr 31.2 21 0.00046 33.1 0.8 39 32-70 492-538 (737)
75 PLN00186 ribosomal protein S26 30.2 16 0.00034 25.1 -0.2 15 30-44 19-33 (109)
76 KOG1398 Uncharacterized conser 30.1 31 0.00067 29.3 1.5 27 26-58 9-35 (460)
77 PF13842 Tnp_zf-ribbon_2: DDE_ 30.1 26 0.00056 18.3 0.7 19 20-38 3-23 (32)
78 COG0675 Transposase and inacti 29.3 28 0.00061 28.3 1.1 31 8-39 300-330 (364)
79 KOG4399 C2HC-type Zn-finger pr 29.0 15 0.00034 29.2 -0.4 41 3-43 190-230 (325)
80 PF11044 TMEMspv1-c74-12: Plec 29.0 1.2E+02 0.0025 17.2 4.8 19 105-123 8-26 (49)
81 PRK11106 queuosine biosynthesi 28.5 26 0.00056 27.6 0.7 13 32-44 195-207 (231)
82 PRK09335 30S ribosomal protein 28.4 16 0.00035 24.4 -0.4 21 30-50 19-39 (95)
83 COG2888 Predicted Zn-ribbon RN 28.3 24 0.00052 21.4 0.4 37 17-53 9-49 (61)
84 KOG1729 FYVE finger containing 27.3 18 0.00039 29.5 -0.3 27 17-43 168-197 (288)
85 PF12172 DUF35_N: Rubredoxin-l 27.2 14 0.0003 19.7 -0.7 22 16-38 10-32 (37)
86 KOG1710 MYND Zn-finger and ank 27.1 28 0.00061 28.5 0.7 21 16-38 318-338 (396)
87 PTZ00172 40S ribosomal protein 26.6 18 0.0004 24.7 -0.3 16 30-45 19-34 (108)
88 PF08510 PIG-P: PIG-P; InterP 26.4 1.6E+02 0.0034 20.7 4.4 19 64-82 6-24 (126)
89 KOG3088 Secretory carrier memb 25.2 3.7E+02 0.0079 22.1 6.6 16 118-133 258-273 (313)
90 PF06143 Baculo_11_kDa: Baculo 24.4 2.1E+02 0.0046 18.7 5.6 18 121-138 51-68 (84)
91 PF03356 Pox_LP_H2: Viral late 24.3 99 0.0021 23.2 3.0 24 179-202 119-144 (189)
92 cd00350 rubredoxin_like Rubred 23.6 50 0.0011 17.1 1.1 21 19-39 3-25 (33)
93 PF10112 Halogen_Hydrol: 5-bro 23.5 3.2E+02 0.0069 20.6 6.0 21 60-80 1-21 (199)
94 PF13150 DUF3989: Protein of u 23.2 2.2E+02 0.0049 18.6 4.5 16 118-133 42-57 (85)
95 smart00109 C1 Protein kinase C 23.0 90 0.002 17.0 2.2 24 15-38 9-34 (49)
96 PF14770 TMEM18: Transmembrane 22.6 1.8E+02 0.0039 20.5 4.0 18 106-123 82-99 (123)
97 PRK00241 nudC NADH pyrophospha 22.4 32 0.0007 27.5 0.3 24 15-38 97-124 (256)
98 KOG3084 NADH pyrophosphatase I 22.3 40 0.00087 27.8 0.8 31 16-46 149-188 (345)
99 PF01146 Caveolin: Caveolin; 21.9 2.7E+02 0.006 20.3 5.0 16 114-129 86-101 (148)
100 TIGR00811 sit silicon transpor 21.6 5.7E+02 0.012 22.6 8.3 12 125-136 240-251 (545)
101 KOG4399 C2HC-type Zn-finger pr 21.3 50 0.0011 26.5 1.1 27 13-40 257-283 (325)
102 PF03107 C1_2: C1 domain; Int 21.0 39 0.00086 17.1 0.3 20 19-38 2-22 (30)
103 PF01283 Ribosomal_S26e: Ribos 20.8 26 0.00057 24.3 -0.5 20 31-50 20-39 (113)
104 KOG2927 Membrane component of 20.7 1.7E+02 0.0036 24.7 4.0 23 69-91 190-212 (372)
105 KOG0003 Ubiquitin/60s ribosoma 20.6 19 0.00041 24.6 -1.2 23 16-38 92-114 (128)
106 PRK14890 putative Zn-ribbon RN 20.1 44 0.00095 20.3 0.4 33 16-48 6-42 (59)
107 PF09879 DUF2106: Predicted me 20.0 1.1E+02 0.0023 22.2 2.4 9 154-162 57-65 (153)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=5.7e-47 Score=302.00 Aligned_cols=190 Identities=41% Similarity=0.727 Sum_probs=146.8
Q ss_pred eEeecCccccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028638 8 LCTRSSGGDLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLVGSLTN 87 (206)
Q Consensus 8 ~~~~~~~~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~ 87 (206)
....+..+..++|.+|+.+||+|||||++|++||+||||||||+|||||.+|||+|++|++|..+.+++.++.....+..
T Consensus 100 ~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~ 179 (307)
T KOG1315|consen 100 GYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTK 179 (307)
T ss_pred eeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34577888999999999999999999999999999999999999999999999999999999999999888887777665
Q ss_pred cccchhhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHHHhhCCCcccCCCChhHHHHH
Q 028638 88 DSLEDELQTGGSFRTAYVISGLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVRALWLAEKGGTVYKHPYDLGIFENL 167 (206)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~~~~~~~~~~npyd~G~~~N~ 167 (206)
..... ..........+.++.++.+.+++.+++++.+|++||++|+||+|..+.... +.+....+.|+. ..|+
T Consensus 180 ~~~~~-~~~~~~~~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~-----~~~~~~~~~~~~--~~n~ 251 (307)
T KOG1315|consen 180 YFQGG-AGPSSLLLFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVF-----RSGLHNKNGFNL--YVNF 251 (307)
T ss_pred HHhcc-ccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccc-----cccccccCCcce--eecH
Confidence 43121 111122234444455566777788888999999999999999998765421 222334566776 8999
Q ss_pred HhhhCCCcceeeccCcCCC---------CCCceeeeccccccCCCCC
Q 028638 168 TSVLGPNIFSWVCPSSRHI---------GSGLNFRTAYHNAVGASMS 205 (206)
Q Consensus 168 ~~vfG~~~~~w~~P~~~~~---------~dG~~f~~~~~~~~~~~~~ 205 (206)
+++||+++..|++|...+. ++|.++.+..+++.+.+++
T Consensus 252 ~~vfg~~~~~wl~P~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 298 (307)
T KOG1315|consen 252 REVFGSNLLYWLLPIDSSWGDGVSFPLRGDGLDFRTASDSKPDNSST 298 (307)
T ss_pred HHHhCCCceEEeccccCccccCccccccccCCccccccccCcccCcc
Confidence 9999999999999986444 4555555555555555443
No 2
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=1.2e-44 Score=294.26 Aligned_cols=190 Identities=31% Similarity=0.618 Sum_probs=146.8
Q ss_pred cccceeEeecCccccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHH
Q 028638 3 KMTKTLCTRSSGGDLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLV 82 (206)
Q Consensus 3 ~~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~ 82 (206)
+..++..+++...+.+||.+|+.+||||||||++||+||.||||||||+|||||++|||+|++|+++..+++++.++...
T Consensus 99 ~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~ 178 (299)
T KOG1311|consen 99 PLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLF 178 (299)
T ss_pred ccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567778888889999999999999999999999999999999999999999999999999999999999998888877
Q ss_pred HHHhhcccchhhccC----CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHHHhhCCCcccCC
Q 028638 83 GSLTNDSLEDELQTG----GSFRTAYVISGLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVRALWLAEKGGTVYKHP 158 (206)
Q Consensus 83 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~~~~~~~~~~np 158 (206)
..+............ .......++++++.+.++++++.|+.+|+++|.+|+||+|.++..+ . +...+|
T Consensus 179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~~~~-------~-~~~~~~ 250 (299)
T KOG1311|consen 179 YELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIKSLD-------F-VSRSNP 250 (299)
T ss_pred HHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhhccc-------c-ccccCC
Confidence 765542221111111 1112223334444566777788999999999999999999876511 1 111589
Q ss_pred CChhHHHHHHhhhCCCc-ceeeccCc---CCCCCCceeeecccccc
Q 028638 159 YDLGIFENLTSVLGPNI-FSWVCPSS---RHIGSGLNFRTAYHNAV 200 (206)
Q Consensus 159 yd~G~~~N~~~vfG~~~-~~w~~P~~---~~~~dG~~f~~~~~~~~ 200 (206)
||.|.++|++++||.+. ..|+.|.. ..+.||..+......+.
T Consensus 251 ~~~g~~~n~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~~~~~ 296 (299)
T KOG1311|consen 251 YDLGLLKNLQEVFGGPLPLSWLSPFARSGPLPHDGEGGPPTPHVSI 296 (299)
T ss_pred CchhHHHHHHHHhCCCCCcccccccccCCCCCCCCCCCCccccccc
Confidence 99999999999999865 79999987 35678887766554443
No 3
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=2.2e-42 Score=264.83 Aligned_cols=181 Identities=30% Similarity=0.496 Sum_probs=135.0
Q ss_pred ccccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchh
Q 028638 14 GGDLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLVGSLTNDSLEDE 93 (206)
Q Consensus 14 ~~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (206)
.....+|.+|..+||||+|||+.|++||++|||||||+|||||.+|||||++|++|+++++.+..+..........+...
T Consensus 99 ~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~ 178 (309)
T KOG1313|consen 99 LENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIE 178 (309)
T ss_pred CccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHh
Confidence 33458999999999999999999999999999999999999999999999999999999999977775544433221111
Q ss_pred hc---------cCCch----------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHHHhhCCCc
Q 028638 94 LQ---------TGGSF----------RTAYVISGLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVRALWLAEKGGTV 154 (206)
Q Consensus 94 ~~---------~~~~~----------~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~~~~~~~~ 154 (206)
.. ...++ ......+.++.+.++++++.+.+||.++|.+|.|++|+++..+.++.....++
T Consensus 179 ~~tay~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R- 257 (309)
T KOG1313|consen 179 EITAYASDVAHVAPPPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLR- 257 (309)
T ss_pred hcccccCcccccCCChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhcc-
Confidence 00 00000 11122233344557778899999999999999999999987655443333332
Q ss_pred ccCCCChhHHHHHHhhhCCC-----cceeeccCc-CCCCCCceeeecc
Q 028638 155 YKHPYDLGIFENLTSVLGPN-----IFSWVCPSS-RHIGSGLNFRTAY 196 (206)
Q Consensus 155 ~~npyd~G~~~N~~~vfG~~-----~~~w~~P~~-~~~~dG~~f~~~~ 196 (206)
.||++.|..+||+.++|-. |..-++|.. ++.+.|..+|+++
T Consensus 258 -~~~~n~g~k~nWr~fLg~~~~r~~wk~v~lPt~~~p~~~~~~~~~~d 304 (309)
T KOG1313|consen 258 -SNPTNFGGKANWRNFLGLFRGRHFWKTVLLPTIRKPVKYGDSKEKSD 304 (309)
T ss_pred -CCCcccchHHHHHHhhccccCCceeEEEeccccccccccCCcccccc
Confidence 7899999999999999842 234578987 5668888888543
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=6.7e-42 Score=270.04 Aligned_cols=175 Identities=36% Similarity=0.596 Sum_probs=131.7
Q ss_pred ccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchh--
Q 028638 16 DLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLVGSLTNDSLEDE-- 93 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~-- 93 (206)
-.+||.+|+.+||||||||+.|+|||.+|||||||+|||||..||.+|+.||++..++|+.+.++++...+..+...+
T Consensus 90 ~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~ 169 (414)
T KOG1314|consen 90 FLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYI 169 (414)
T ss_pred HHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHh
Confidence 457999999999999999999999999999999999999999999999999999999888777766555544322211
Q ss_pred -----hccCCchh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHHHh----hCCCcccCCCC
Q 028638 94 -----LQTGGSFR----TAYVISGLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVRALWLAE----KGGTVYKHPYD 160 (206)
Q Consensus 94 -----~~~~~~~~----~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~~~----~~~~~~~npyd 160 (206)
........ +..+++.-++++.++.+++|++.|+..|.+|+|.+|.+.-++....++ ...+++..|||
T Consensus 170 ~~g~~hlp~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi~~Ka~~rr~~~~~d~~~~f~ypyd 249 (414)
T KOG1314|consen 170 KYGLRHLPIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWIVEKAMDRREYYFNDDEGEFTYPYD 249 (414)
T ss_pred hcccccCceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhhccCCCCceeeecc
Confidence 01111111 122222223356777889999999999999999999998555443332 22246889999
Q ss_pred hhHHHHHHhhhCCCcceeeccCcCCCCCCceeeecccc
Q 028638 161 LGIFENLTSVLGPNIFSWVCPSSRHIGSGLNFRTAYHN 198 (206)
Q Consensus 161 ~G~~~N~~~vfG~~~~~w~~P~~~~~~dG~~f~~~~~~ 198 (206)
+|+..|+++||-.+. ...|||++|++-.+.
T Consensus 250 lgWr~n~r~vf~~~~--------~~~gdg~~wPv~~gc 279 (414)
T KOG1314|consen 250 LGWRINLREVFFQNK--------KEEGDGIEWPVVEGC 279 (414)
T ss_pred ccccccHHHHhhhcc--------ccCCCCccccccCcc
Confidence 998889999996532 367899999876554
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=1.3e-38 Score=257.41 Aligned_cols=193 Identities=32% Similarity=0.600 Sum_probs=142.8
Q ss_pred cccceeEeecCccccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHH
Q 028638 3 KMTKTLCTRSSGGDLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLV 82 (206)
Q Consensus 3 ~~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~ 82 (206)
++++.....+..+..++|.+|+.+||+|||||+.||+||+||||||||+|||||.+|||+|++|+++...++++.++...
T Consensus 95 ~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~ 174 (309)
T COG5273 95 ETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTA 174 (309)
T ss_pred hhhhhhhhcCccccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566778889999999999999999999999999999999999999999999999999999999888887777666
Q ss_pred HHHhhcccchhhccCCchhH-HHHHH--HHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHHHhhC--------
Q 028638 83 GSLTNDSLEDELQTGGSFRT-AYVIS--GLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVRALWLAEKG-------- 151 (206)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~~~~~-------- 151 (206)
..+.... .. ....... ..++. ....+.+++.+.+++.++.+++..|+|++|.....+.....+..
T Consensus 175 ~~~~~~~-~~---~~~~~~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~ 250 (309)
T COG5273 175 YYIAGIF-SI---RHDTSLAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRESNL 250 (309)
T ss_pred HHHHhhc-cc---cCChHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccCCc
Confidence 5554311 11 1111111 21222 23335566777888899999999999999998765544322111
Q ss_pred -------CCcccCCCChhHHHHHHhhhCCCcceeeccCcCCCCCCceeeeccccc
Q 028638 152 -------GTVYKHPYDLGIFENLTSVLGPNIFSWVCPSSRHIGSGLNFRTAYHNA 199 (206)
Q Consensus 152 -------~~~~~npyd~G~~~N~~~vfG~~~~~w~~P~~~~~~dG~~f~~~~~~~ 199 (206)
+.....|++.|.-+|++.++|.+...|..|......++..|..+.|..
T Consensus 251 ~~~~~~d~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 305 (309)
T COG5273 251 PFTNIFDSSEGALPLDLGIGQNLSTIKGSNALYWLTPLHTNYCNSYDFSLRSDTL 305 (309)
T ss_pred CceeccCCCccccccccCccccceeecCCCceeeccccccCCCCccCcccchhhc
Confidence 112356889999999999999999999999653336666666665543
No 6
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=100.00 E-value=2.4e-38 Score=238.59 Aligned_cols=136 Identities=35% Similarity=0.706 Sum_probs=107.2
Q ss_pred ceeEeecCccccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028638 6 KTLCTRSSGGDLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLVGSL 85 (206)
Q Consensus 6 ~~~~~~~~~~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~ 85 (206)
++....+..++.++|.+|+.+||+|||||+.|++||+|+||||||+|+|||++|||+|++|+++..+++++..+..+..+
T Consensus 37 ~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~ 116 (174)
T PF01529_consen 37 IDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYL 116 (174)
T ss_pred hhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445667888999999999999999999999999999999999999999999999999999999999998888777666
Q ss_pred hhcccchhhccCCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhh
Q 028638 86 TNDSLEDELQTGGSFR-TAYVISGLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEG 141 (206)
Q Consensus 86 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~ 141 (206)
................ ...+++.+..++++++++.++++|+++|++|+||+|.+++
T Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 117 VRYIPSISFSSFWIFSNFSSIFLLIISIFFFIFVGFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred HHHhhcccccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHc
Confidence 5533222111111111 1113344445667778899999999999999999998864
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=1.5e-31 Score=206.43 Aligned_cols=126 Identities=33% Similarity=0.607 Sum_probs=86.0
Q ss_pred ccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhc--
Q 028638 18 RYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLLVGSLTNDSLEDELQ-- 95 (206)
Q Consensus 18 ~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 95 (206)
..|+||+.+||+|||||++||+||.||||||.|+|||||++|.|||++|+++...++.++.+-+.........+..+.
T Consensus 149 ~kCSTCki~KPARSKHCsiCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ 228 (341)
T KOG1312|consen 149 VKCSTCKIRKPARSKHCSICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVY 228 (341)
T ss_pred CccccccCCCccccccchHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchhee
Confidence 579999999999999999999999999999999999999999999999999997777766654433212211111110
Q ss_pred ----cCCch--h---HHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhh
Q 028638 96 ----TGGSF--R---TAYVISGLL-------LVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVR 143 (206)
Q Consensus 96 ----~~~~~--~---~~~~~~~~~-------~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r 143 (206)
..... . ...++.++. .....-++++.+.+-.|+..+|+||.|+...+.
T Consensus 229 ilt~~~g~~ks~~~L~~yl~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~d~ 292 (341)
T KOG1312|consen 229 ILTLGHGHVKSTVFLIQYLFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRGDW 292 (341)
T ss_pred eeeeeecchhhHHHHHHHHHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhccch
Confidence 00000 0 001111110 011222356677778899999999999887633
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.96 E-value=2e-30 Score=219.24 Aligned_cols=166 Identities=27% Similarity=0.420 Sum_probs=118.1
Q ss_pred cccceeEeecCcccc-ccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHHHHHHHHHHHHHHH
Q 028638 3 KMTKTLCTRSSGGDL-RYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVLYAVVACIYSMVLL 81 (206)
Q Consensus 3 ~~~~~~~~~~~~~~~-~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~ 81 (206)
+.++++.-.++.+.. +||.+|.++||.||+||++|++||.||||||||++||||.+||++|+.|++.....+.+.++..
T Consensus 405 ~tIs~l~d~gkf~~en~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~ 484 (600)
T KOG0509|consen 405 ETISQLIDFGKFDLENRFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLC 484 (600)
T ss_pred HHHHHhhccccccccccceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555666666 6999999999999999999999999999999999999999999999999999988888888777
Q ss_pred HHHHhhcccchhhccCCchhHHHHHHHHHHH--HH------------HHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHH
Q 028638 82 VGSLTNDSLEDELQTGGSFRTAYVISGLLLV--PL------------SVALSVLLGWHIYLIFHNKTTIEYHEGVRALWL 147 (206)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~------------~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~ 147 (206)
..++.. ..... ......+....+... ++ ....+..-..|...++.+.||+|.++..|+++.
T Consensus 485 ~~y~~~-~~~~~----~~~~~~l~~~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~ 559 (600)
T KOG0509|consen 485 LYYIMN-LENAS----TIYVGFLIAVQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHL 559 (600)
T ss_pred HHHHhh-cchhH----HHHHHHHHHHHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhcc
Confidence 666644 11110 001111111100000 00 001111223344568999999999999998887
Q ss_pred HhhCCCcccCCCChhHHHHHHhhhCCC
Q 028638 148 AEKGGTVYKHPYDLGIFENLTSVLGPN 174 (206)
Q Consensus 148 ~~~~~~~~~npyd~G~~~N~~~vfG~~ 174 (206)
..+.+ +..+|++.|+++|+.+|+-.+
T Consensus 560 ~~~~~-~~~~~~s~g~~~Nl~df~~~~ 585 (600)
T KOG0509|consen 560 GIKRG-PTRSPFSPGPIRNLVDFFLCS 585 (600)
T ss_pred ccccC-cCCCCCCchhhhcchheeecc
Confidence 66555 367899999999999998543
No 9
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=95.31 E-value=0.29 Score=40.25 Aligned_cols=162 Identities=15% Similarity=0.183 Sum_probs=85.4
Q ss_pred CCCCCCChhhchhhhCCcccCcccCccccCcch-----------HHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhcc
Q 028638 28 PPRAHHCRVCKRCVLRMDHHCIWISNCVGHANY-----------KVFFIFVLYAVVACIYSMVLLVGSLTNDSLEDELQT 96 (206)
Q Consensus 28 P~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (206)
--+.+.|+.|+.-.+..-|||.-=|.||-.--| +..=.|..++........++....... . ....
T Consensus 106 ~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~-~---~~~~ 181 (309)
T COG5273 106 FGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYY-I---AGIF 181 (309)
T ss_pred cccceeccccccccCCCCccchhhcchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHH-H---Hhhc
Confidence 346788999999999999999999999976543 455577777776666655555544443 1 0111
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHhHHhhhhhHHHHhhCCCcccCCCChhHHHH--HHhhhCCC
Q 028638 97 GGSFRTAYVISGLLLVPLSVALSVLLGWHIYLIFHNKTTIEYHEGVRALWLAEKGGTVYKHPYDLGIFEN--LTSVLGPN 174 (206)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~li~~n~TT~E~~~~~r~~~~~~~~~~~~~npyd~G~~~N--~~~vfG~~ 174 (206)
............++.......+..+......++..+....+...........+......-.++.++- | +...+...
T Consensus 182 ~~~~~~~~~~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~--~~~~~~~~d~~ 259 (309)
T COG5273 182 SIRHDTSLAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPLCRES--NLPFTNIFDSS 259 (309)
T ss_pred cccCChHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccchhccC--CcCceeccCCC
Confidence 1222233332222222123333344444555566666666655433222111111111223444333 3 12222332
Q ss_pred cceeeccCcCCCCCCceeeeccc
Q 028638 175 IFSWVCPSSRHIGSGLNFRTAYH 197 (206)
Q Consensus 175 ~~~w~~P~~~~~~dG~~f~~~~~ 197 (206)
+ |.+|...+.++++++...+.
T Consensus 260 ~--~~~~~~~~~~~~~~~i~~~~ 280 (309)
T COG5273 260 E--GALPLDLGIGQNLSTIKGSN 280 (309)
T ss_pred c--cccccccCccccceeecCCC
Confidence 3 66666566677777755543
No 10
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=94.88 E-value=0.42 Score=35.46 Aligned_cols=61 Identities=23% Similarity=0.451 Sum_probs=42.0
Q ss_pred cCCCCCCChhhchhhhCCcccCcccCccccCcch-----------HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028638 27 KPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANY-----------KVFFIFVLYAVVACIYSMVLLVGSLTN 87 (206)
Q Consensus 27 kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~~~~ 87 (206)
...+.+.|..|+.-.+..-|||..-+.||-...| +..-.|++++....+..+......+..
T Consensus 44 ~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~ 115 (174)
T PF01529_consen 44 ENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYY 115 (174)
T ss_pred cCCCCEECcccCCcCCCcceeccccccccccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566778888888888888899998888876654 334466666666666555555544444
No 11
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=94.20 E-value=0.19 Score=40.99 Aligned_cols=56 Identities=20% Similarity=0.319 Sum_probs=42.6
Q ss_pred CCCCChhhchhhhCCcccCcccCccccCcc-----------hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028638 30 RAHHCRVCKRCVLRMDHHCIWISNCVGHAN-----------YKVFFIFVLYAVVACIYSMVLLVGSL 85 (206)
Q Consensus 30 Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N-----------~~~F~~fl~~~~~~~~~~~~~~~~~~ 85 (206)
+.++|..|+..++..-|||+.=++||-..- +|.+-.|+.+++.+.+...+......
T Consensus 112 ~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~ 178 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLF 178 (299)
T ss_pred ceEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 379999999999999999999999998663 67888999777644443333333333
No 12
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=92.35 E-value=0.074 Score=25.83 Aligned_cols=21 Identities=29% Similarity=0.733 Sum_probs=18.2
Q ss_pred cccccccccCCCCCCChhhch
Q 028638 19 YCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 19 ~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
+|+.|...-++.++.|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 689999888999999999875
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=91.22 E-value=0.1 Score=29.99 Aligned_cols=24 Identities=33% Similarity=0.819 Sum_probs=21.6
Q ss_pred ccccccccccccCCCCCCChhhch
Q 028638 16 DLRYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
..+.|-+|..+-|+|+..|+.||.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 457899999999999999999875
No 14
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=91.09 E-value=0.13 Score=25.72 Aligned_cols=23 Identities=26% Similarity=0.677 Sum_probs=19.6
Q ss_pred cccccccccccCCCCCCChhhch
Q 028638 17 LRYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
.++|+.|...-++-++.|+.||.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred cCCCcccCCcCCcccccChhhCC
Confidence 36899999988889999999985
No 15
>PF12773 DZR: Double zinc ribbon
Probab=87.38 E-value=0.38 Score=27.93 Aligned_cols=37 Identities=19% Similarity=0.419 Sum_probs=26.4
Q ss_pred ccccccccccccccC---CCCCCChhhchhhhCCcccCcc
Q 028638 14 GGDLRYCQKCSHYKP---PRAHHCRVCKRCVLRMDHHCIW 50 (206)
Q Consensus 14 ~~~~~~C~~C~~~kP---~Rs~hC~~c~~cv~~~DHhC~w 50 (206)
..+.+||..|...-+ .....|+.|+.=+...+.+|+.
T Consensus 9 ~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 9 PDDAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred CccccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 445678888877666 3356788888877777777763
No 16
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=85.37 E-value=0.39 Score=24.03 Aligned_cols=22 Identities=27% Similarity=0.712 Sum_probs=18.2
Q ss_pred ccccccccccCCCCCCChhhch
Q 028638 18 RYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 18 ~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
+.|+.|...-|.-++-|+.||-
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4689999888998888988873
No 17
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=82.35 E-value=0.31 Score=28.11 Aligned_cols=23 Identities=39% Similarity=1.000 Sum_probs=20.6
Q ss_pred cccccccccccCCCCCCChhhch
Q 028638 17 LRYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
.+.|-+|..+-|+|+.-|+.|+-
T Consensus 14 kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 14 KKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred HHHHHHhcCCCCcchhHHhhccC
Confidence 46899999999999999998864
No 18
>PF12773 DZR: Double zinc ribbon
Probab=81.02 E-value=1 Score=26.08 Aligned_cols=25 Identities=28% Similarity=0.773 Sum_probs=21.4
Q ss_pred ccccccccccccccCCCCCCChhhc
Q 028638 14 GGDLRYCQKCSHYKPPRAHHCRVCK 38 (206)
Q Consensus 14 ~~~~~~C~~C~~~kP~Rs~hC~~c~ 38 (206)
.....+|..|....++.++.|..||
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCccc
Confidence 4456789999999999999999886
No 19
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=80.86 E-value=1.4 Score=39.02 Aligned_cols=52 Identities=8% Similarity=-0.141 Sum_probs=44.1
Q ss_pred ccccccccccccCCCCCCChhhchhhhCCcccCcccCccccCcchHHHHHHHH
Q 028638 16 DLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHANYKVFFIFVL 68 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~N~~~F~~fl~ 68 (206)
-...|.+|....+.+..++..+-.++..+++||+|+. +|+..|-..|-...+
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i 375 (600)
T KOG0509|consen 324 LTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFI 375 (600)
T ss_pred hheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHH
Confidence 3456889999999999999999999999999999999 999988775444333
No 20
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=77.79 E-value=23 Score=29.18 Aligned_cols=29 Identities=28% Similarity=0.485 Sum_probs=15.5
Q ss_pred CCCCChhhchhhhCCcccCcccCccccCc
Q 028638 30 RAHHCRVCKRCVLRMDHHCIWISNCVGHA 58 (206)
Q Consensus 30 Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~ 58 (206)
+.+.|..|+.-.+..-|||.--+.||.+-
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKm 136 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKM 136 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhcc
Confidence 44455555555555555555555555543
No 21
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=75.53 E-value=1.1 Score=26.21 Aligned_cols=25 Identities=44% Similarity=0.934 Sum_probs=16.6
Q ss_pred ccccccccccccCCCCCCChh--hchh
Q 028638 16 DLRYCQKCSHYKPPRAHHCRV--CKRC 40 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~--c~~c 40 (206)
+...|-.|..+-|+|+..|+. ||.+
T Consensus 16 ~k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 16 DKMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp S-EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred cceecccccCcCCCCccceecccCCCC
Confidence 467899999999999999998 7653
No 22
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=74.39 E-value=1.5 Score=40.12 Aligned_cols=23 Identities=39% Similarity=0.781 Sum_probs=18.4
Q ss_pred cccccccccccC-------CCCCCChhhch
Q 028638 17 LRYCQKCSHYKP-------PRAHHCRVCKR 39 (206)
Q Consensus 17 ~~~C~~C~~~kP-------~Rs~hC~~c~~ 39 (206)
...|..|+..-. -|-|||+.||+
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCcc
Confidence 367999987664 39999999976
No 23
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=73.86 E-value=6.4 Score=23.91 Aligned_cols=24 Identities=25% Similarity=0.744 Sum_probs=17.0
Q ss_pred ccccccccccccCCCCCCCh-hhch
Q 028638 16 DLRYCQKCSHYKPPRAHHCR-VCKR 39 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~-~c~~ 39 (206)
+.+.|..|+..-|+--..|| .|+.
T Consensus 2 ~HkHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CCCcCCcCCCcCCcchhhhCHHHHH
Confidence 35678888877777777774 6655
No 24
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=68.04 E-value=1.8 Score=36.98 Aligned_cols=29 Identities=31% Similarity=0.907 Sum_probs=21.2
Q ss_pred cccccccccccccc--CCCCCCChhhchhhh
Q 028638 14 GGDLRYCQKCSHYK--PPRAHHCRVCKRCVL 42 (206)
Q Consensus 14 ~~~~~~C~~C~~~k--P~Rs~hC~~c~~cv~ 42 (206)
+....+|+.|...= --|-|||+.||+-+-
T Consensus 177 Ds~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC 207 (505)
T KOG1842|consen 177 DSSVQFCPECANSFGLTRRRHHCRLCGRVMC 207 (505)
T ss_pred CCcccccccccchhhhHHHhhhhhhcchHHH
Confidence 44567999996432 358999999998554
No 25
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=66.74 E-value=2 Score=22.01 Aligned_cols=21 Identities=24% Similarity=0.789 Sum_probs=14.5
Q ss_pred cccccccccCCCCCCChhhch
Q 028638 19 YCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 19 ~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
.|..|...-+++..+|..|+.
T Consensus 6 ~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 6 KCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp EETTTTEEEESSSSB-TTT--
T ss_pred cCCCCcCCchHHhhhhhCcCC
Confidence 478888888888888888764
No 26
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=65.27 E-value=4.4 Score=25.10 Aligned_cols=34 Identities=18% Similarity=0.394 Sum_probs=23.3
Q ss_pred eeEeecCccccccccccccccC----CCCCCChhhchh
Q 028638 7 TLCTRSSGGDLRYCQKCSHYKP----PRAHHCRVCKRC 40 (206)
Q Consensus 7 ~~~~~~~~~~~~~C~~C~~~kP----~Rs~hC~~c~~c 40 (206)
.|...+.....+.|+.|+.... .|..+|+.||.-
T Consensus 18 ~v~~v~~~~TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 18 QVVEVDEAYTSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred EEEEECCCCCccCccCcccccccccccceEEcCCCCCE
Confidence 3455555568899999975544 467778888764
No 27
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=64.77 E-value=91 Score=26.77 Aligned_cols=31 Identities=23% Similarity=0.529 Sum_probs=21.0
Q ss_pred ccccccccc-ccCCCCCCChhhchhhhCCccc
Q 028638 17 LRYCQKCSH-YKPPRAHHCRVCKRCVLRMDHH 47 (206)
Q Consensus 17 ~~~C~~C~~-~kP~Rs~hC~~c~~cv~~~DHh 47 (206)
..-|+.|.. .+|....+|+.|+.-..+..++
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 445999986 4555566788888776655543
No 28
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=64.49 E-value=3.8 Score=23.66 Aligned_cols=23 Identities=26% Similarity=0.473 Sum_probs=9.8
Q ss_pred CCCCChhh---chhhhCCcc--cCcccC
Q 028638 30 RAHHCRVC---KRCVLRMDH--HCIWIS 52 (206)
Q Consensus 30 Rs~hC~~c---~~cv~~~DH--hC~w~~ 52 (206)
|..+|..| |.-+..-+| .|||-+
T Consensus 1 R~p~C~RCrnHG~~~~lKgHk~~C~~~~ 28 (47)
T PF00751_consen 1 RSPTCARCRNHGVIVPLKGHKRYCPFRD 28 (47)
T ss_dssp --SS-HHHHTTT---TTTT-GGG-TTTT
T ss_pred CCCcCcchhcCCcccchhhhccccCcCC
Confidence 44566666 556666666 688864
No 29
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=62.91 E-value=1e+02 Score=26.66 Aligned_cols=31 Identities=23% Similarity=0.448 Sum_probs=21.9
Q ss_pred cccccccccccCCCCCCChhhchhhhCCccc
Q 028638 17 LRYCQKCSHYKPPRAHHCRVCKRCVLRMDHH 47 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHh 47 (206)
..-|+.|..--|....+|+.|+.-..+..++
T Consensus 221 l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~ 251 (419)
T PRK15103 221 LRSCSCCTAILPADQPVCPRCHTKGYVRRRN 251 (419)
T ss_pred CCcCCCCCCCCCCCCCCCCCCCCcCcCCCCC
Confidence 3459999877776667888888766554443
No 30
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=59.45 E-value=2.6 Score=26.08 Aligned_cols=28 Identities=36% Similarity=0.707 Sum_probs=13.4
Q ss_pred cccccccccccc--cCCCCCCChhhchhhh
Q 028638 15 GDLRYCQKCSHY--KPPRAHHCRVCKRCVL 42 (206)
Q Consensus 15 ~~~~~C~~C~~~--kP~Rs~hC~~c~~cv~ 42 (206)
.+...|..|... ---|-|||+.||+.+=
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 455778888532 2357888999988543
No 32
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=57.58 E-value=51 Score=27.64 Aligned_cols=31 Identities=16% Similarity=0.268 Sum_probs=18.1
Q ss_pred cCCCCCCChhh-chhhhCCcccCcccCccccC
Q 028638 27 KPPRAHHCRVC-KRCVLRMDHHCIWISNCVGH 57 (206)
Q Consensus 27 kP~Rs~hC~~c-~~cv~~~DHhC~w~~~cIG~ 57 (206)
++-+..||-+= ++--..-|-|-.|+...+-.
T Consensus 157 kkkk~~~l~i~~dQ~F~d~de~YVW~yep~~~ 188 (372)
T KOG2927|consen 157 KKKKKFELEIHDDQAFQDGDEHYVWIYEPRPL 188 (372)
T ss_pred cccCccceeeccchhhcccCceEEEeccCCch
Confidence 34445555443 44444557888898876543
No 33
>PF03842 Silic_transp: Silicon transporter; InterPro: IPR004693 Marine diatoms such as Cylindrotheca fusiformis encode at least six silicon transport protein homologues which exhibit similar size and topology. One characterised member of the family (Sit1) functions in the energy-dependent uptake of either silicic acid [Si(OH)4] or silicate [Si(OH)3O-] by a Na+ symport mechanism. The system is found in marine diatoms, which make their "glass houses" out of silicon.
Probab=55.22 E-value=1.3e+02 Score=26.07 Aligned_cols=21 Identities=33% Similarity=0.556 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 028638 60 YKVFFIFVLYAVVACIYSMVL 80 (206)
Q Consensus 60 ~~~F~~fl~~~~~~~~~~~~~ 80 (206)
..||.+|.+|..+..=+..++
T Consensus 170 NnyFalFTlyvam~IEfsGvm 190 (512)
T PF03842_consen 170 NNYFALFTLYVAMAIEFSGVM 190 (512)
T ss_pred HHHHHHHHHHHHHHHHHhhhh
Confidence 358999999987655444443
No 34
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=54.77 E-value=59 Score=21.37 Aligned_cols=27 Identities=19% Similarity=0.169 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHhCcchHhHHhh
Q 028638 115 SVALSVLLGWHIYLIFHNKTTIEYHEG 141 (206)
Q Consensus 115 ~~~~~~l~~~~~~li~~n~TT~E~~~~ 141 (206)
.+.+.+++++.+|--+++.+++|+++.
T Consensus 57 ~vl~lGilifs~y~~C~~~~~~~r~n~ 83 (91)
T PHA02680 57 AVLLLGLFVFSMYRKCSGSMPYERLNN 83 (91)
T ss_pred HHHHHHHHHHHHhcccCCCceeecccC
Confidence 334455777778877788888887654
No 35
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=54.76 E-value=9.2 Score=26.53 Aligned_cols=31 Identities=19% Similarity=0.554 Sum_probs=20.9
Q ss_pred eEeecCccccccccccccccCCCCCC---Chhhch
Q 028638 8 LCTRSSGGDLRYCQKCSHYKPPRAHH---CRVCKR 39 (206)
Q Consensus 8 ~~~~~~~~~~~~C~~C~~~kP~Rs~h---C~~c~~ 39 (206)
|.+....+ .-+|..|+..-|...++ |+.||.
T Consensus 62 L~i~~~p~-~~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 62 LHLEEQEA-ECWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred EEEEeeCc-EEEcccCCCeeecCCccCCcCcCcCC
Confidence 34444444 47899998877765444 888874
No 36
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=54.74 E-value=3.1 Score=21.64 Aligned_cols=23 Identities=26% Similarity=0.694 Sum_probs=10.6
Q ss_pred cccccccccc----cCCCCCCChhhch
Q 028638 17 LRYCQKCSHY----KPPRAHHCRVCKR 39 (206)
Q Consensus 17 ~~~C~~C~~~----kP~Rs~hC~~c~~ 39 (206)
.+||+.|... ...++..|+.|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 5789888632 2235555666553
No 37
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=54.43 E-value=42 Score=21.80 Aligned_cols=26 Identities=15% Similarity=0.153 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHhCcchHhHHhhhhhHH
Q 028638 120 VLLGWHIYLIFHNKTTIEYHEGVRALW 146 (206)
Q Consensus 120 ~l~~~~~~li~~n~TT~E~~~~~r~~~ 146 (206)
.+++.|+|.+ ..+++.+.+-.+..+.
T Consensus 37 F~~~L~~yy~-kteS~~~dL~t~k~K~ 62 (83)
T PF05814_consen 37 FFCVLQVYYI-KTESTPQDLQTEKAKS 62 (83)
T ss_pred HHHHHHHHHc-CCCCcHHHHhhhhhhh
Confidence 4445677766 5556555554444333
No 38
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=53.06 E-value=6.8 Score=23.97 Aligned_cols=23 Identities=26% Similarity=0.777 Sum_probs=20.2
Q ss_pred cccccccccccCCCCCCChhhch
Q 028638 17 LRYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
.+-|..|+..-|+-+.-|+.|+.
T Consensus 4 ~kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 4 EKACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred hHHHhhccccCCCCCccCCCCCC
Confidence 35699999999999999999986
No 39
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=52.65 E-value=8.1 Score=35.19 Aligned_cols=40 Identities=28% Similarity=0.512 Sum_probs=20.2
Q ss_pred cccccccccccccCCCCCCChhhchhhhCCcccCcccCcccc
Q 028638 15 GDLRYCQKCSHYKPPRAHHCRVCKRCVLRMDHHCIWISNCVG 56 (206)
Q Consensus 15 ~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG 56 (206)
...+||..|+..-+ .+.|..||.=+..-..+|+==|.-.|
T Consensus 13 ~~akFC~~CG~~l~--~~~Cp~CG~~~~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 13 NNNRFCQKCGTSLT--HKPCPQCGTEVPVDEAHCPNCGAETG 52 (645)
T ss_pred CCCccccccCCCCC--CCcCCCCCCCCCcccccccccCCccc
Confidence 34456666654322 24566666555555555554443333
No 40
>PF14127 DUF4294: Domain of unknown function (DUF4294)
Probab=50.72 E-value=16 Score=26.87 Aligned_cols=33 Identities=9% Similarity=0.099 Sum_probs=27.0
Q ss_pred HHhCcchHhHHhhhhhHHHHhhCCCcccCCCChhHHHHHHhhhCCC
Q 028638 129 IFHNKTTIEYHEGVRALWLAEKGGTVYKHPYDLGIFENLTSVLGPN 174 (206)
Q Consensus 129 i~~n~TT~E~~~~~r~~~~~~~~~~~~~npyd~G~~~N~~~vfG~~ 174 (206)
--+|.|++|.++. +..++.-|+|+....+||.+
T Consensus 102 Retg~TsyelIK~-------------~rgg~~A~~~q~~A~~Fg~s 134 (157)
T PF14127_consen 102 RETGSTSYELIKE-------------LRGGWRAFWYQTFAWLFGIS 134 (157)
T ss_pred HhcCCcHHHHHHH-------------hhCChhHHHHHHHHHHhCcc
Confidence 4479999998865 34678889999999999975
No 41
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=47.17 E-value=9.9 Score=34.64 Aligned_cols=25 Identities=20% Similarity=0.707 Sum_probs=19.8
Q ss_pred cccccccccccCCCCCCChhhchhh
Q 028638 17 LRYCQKCSHYKPPRAHHCRVCKRCV 41 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~~c~~cv 41 (206)
+..|+.|+..-|+.++.|..||.=.
T Consensus 1 M~~Cp~Cg~~n~~~akFC~~CG~~l 25 (645)
T PRK14559 1 MLICPQCQFENPNNNRFCQKCGTSL 25 (645)
T ss_pred CCcCCCCCCcCCCCCccccccCCCC
Confidence 3578888888888888888887743
No 42
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=44.96 E-value=7.5 Score=22.43 Aligned_cols=21 Identities=33% Similarity=0.999 Sum_probs=11.7
Q ss_pred ccccccccccCCC------CCCChhhc
Q 028638 18 RYCQKCSHYKPPR------AHHCRVCK 38 (206)
Q Consensus 18 ~~C~~C~~~kP~R------s~hC~~c~ 38 (206)
+||+.|+....++ -..|+.||
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg 27 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCG 27 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCC
Confidence 4788886444332 12377766
No 43
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=43.77 E-value=2.1e+02 Score=24.58 Aligned_cols=31 Identities=16% Similarity=0.304 Sum_probs=17.7
Q ss_pred ccccccccc--ccCC-C---CCCChhhchhhhCCccc
Q 028638 17 LRYCQKCSH--YKPP-R---AHHCRVCKRCVLRMDHH 47 (206)
Q Consensus 17 ~~~C~~C~~--~kP~-R---s~hC~~c~~cv~~~DHh 47 (206)
..-|+.|.. .+|+ + .-+|+.||.-..+.+++
T Consensus 13 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~ 49 (403)
T TIGR00155 13 HILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDW 49 (403)
T ss_pred eeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCC
Confidence 345999962 2232 2 33487777766655443
No 44
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=43.64 E-value=12 Score=18.34 Aligned_cols=19 Identities=32% Similarity=0.861 Sum_probs=11.3
Q ss_pred ccccccccCCCC----CCChhhc
Q 028638 20 CQKCSHYKPPRA----HHCRVCK 38 (206)
Q Consensus 20 C~~C~~~kP~Rs----~hC~~c~ 38 (206)
|.+|+..-.+|- ..|+.||
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCcccCceEeCCCCC
Confidence 666766666664 3466665
No 45
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=43.02 E-value=14 Score=21.39 Aligned_cols=39 Identities=18% Similarity=0.635 Sum_probs=24.2
Q ss_pred eecCcccccccccccccc---CCCCCCChhhc-----hhhhCCcccC
Q 028638 10 TRSSGGDLRYCQKCSHYK---PPRAHHCRVCK-----RCVLRMDHHC 48 (206)
Q Consensus 10 ~~~~~~~~~~C~~C~~~k---P~Rs~hC~~c~-----~cv~~~DHhC 48 (206)
.........+|..|+..- .....+|+.|+ +|..+.+.-|
T Consensus 4 ~~~~~~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~~C 50 (53)
T PF00130_consen 4 VPTTFSKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPPSC 50 (53)
T ss_dssp EEEESSSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSSBS
T ss_pred EEccCCCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCCCC
Confidence 344556778999997655 44566788884 4555555444
No 46
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=42.52 E-value=1e+02 Score=20.63 Aligned_cols=19 Identities=26% Similarity=0.298 Sum_probs=14.9
Q ss_pred HhCcchHhHHhhhhhHHHH
Q 028638 130 FHNKTTIEYHEGVRALWLA 148 (206)
Q Consensus 130 ~~n~TT~E~~~~~r~~~~~ 148 (206)
.++++|-|.++.++..+..
T Consensus 79 ~~~r~tae~lk~e~~~~~~ 97 (112)
T PF14015_consen 79 IRYRATAESLKREKWLYLA 97 (112)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4788999999888876653
No 47
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=42.36 E-value=13 Score=21.80 Aligned_cols=24 Identities=38% Similarity=0.822 Sum_probs=15.6
Q ss_pred cccccccc--ccCCCCCCChhhchhh
Q 028638 18 RYCQKCSH--YKPPRAHHCRVCKRCV 41 (206)
Q Consensus 18 ~~C~~C~~--~kP~Rs~hC~~c~~cv 41 (206)
+.|..|.. -.-.|.|||+.||+-+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCc
Confidence 45667752 2345788999887743
No 48
>PHA02942 putative transposase; Provisional
Probab=41.78 E-value=15 Score=31.31 Aligned_cols=32 Identities=25% Similarity=0.418 Sum_probs=20.6
Q ss_pred eEeecCccccccccccccccCC---CCCCChhhch
Q 028638 8 LCTRSSGGDLRYCQKCSHYKPP---RAHHCRVCKR 39 (206)
Q Consensus 8 ~~~~~~~~~~~~C~~C~~~kP~---Rs~hC~~c~~ 39 (206)
|...+.....+.|+.|+...+. |.+.|..||-
T Consensus 316 Vv~V~p~yTSq~Cs~CG~~~~~l~~r~f~C~~CG~ 350 (383)
T PHA02942 316 VEFVNPSYSSVSCPKCGHKMVEIAHRYFHCPSCGY 350 (383)
T ss_pred EEEECCCCCCccCCCCCCccCcCCCCEEECCCCCC
Confidence 3334444467889999865543 6667877765
No 49
>PF01437 PSI: Plexin repeat; InterPro: IPR002165 This is a cysteine rich repeat found in several different extracellular receptors. The function of the repeat is unknown. Three copies of the repeat are found in plexin (P70206 from SWISSPROT) []. Two copies of the repeat are found in mahogany protein. A related Caenorhabditis elegans protein (Q19981 from SWISSPROT) contains four copies of the repeat, while the Met receptor contains a single copy of the repeat.; GO: 0016020 membrane; PDB: 3NVQ_B 3NVN_B 3OL2_B 3OKT_A 3AL8_A 3OKW_A 3OKY_B 3AFC_B 1OLZ_B 1SHY_B ....
Probab=41.28 E-value=8.2 Score=22.38 Aligned_cols=18 Identities=33% Similarity=0.800 Sum_probs=13.2
Q ss_pred hhhchhhhCCcccCcccC
Q 028638 35 RVCKRCVLRMDHHCIWIS 52 (206)
Q Consensus 35 ~~c~~cv~~~DHhC~w~~ 52 (206)
..|+.|+.-.|-+|.|=.
T Consensus 6 ~sC~~Cl~~~dp~CgWc~ 23 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWCS 23 (51)
T ss_dssp SSHHHHHHSTCTTEEEET
T ss_pred CcHHHHHcCCCcCccccC
Confidence 567788888887887753
No 50
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=40.96 E-value=15 Score=21.93 Aligned_cols=36 Identities=33% Similarity=0.877 Sum_probs=26.5
Q ss_pred cccccccccCCCC-------CCChhhchhhhCC-cccCcccCccccC
Q 028638 19 YCQKCSHYKPPRA-------HHCRVCKRCVLRM-DHHCIWISNCVGH 57 (206)
Q Consensus 19 ~C~~C~~~kP~Rs-------~hC~~c~~cv~~~-DHhC~w~~~cIG~ 57 (206)
-|..|..--|+-| +-|.-|..|+... +++|| ||=|+
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 4777776666654 5588899999987 99997 55443
No 51
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=40.02 E-value=13 Score=22.38 Aligned_cols=20 Identities=35% Similarity=0.808 Sum_probs=13.3
Q ss_pred cccccccccccCCCCCC-Chhhc
Q 028638 17 LRYCQKCSHYKPPRAHH-CRVCK 38 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~h-C~~c~ 38 (206)
...|+.|+..+ ++|| |..||
T Consensus 27 l~~C~~CG~~~--~~H~vC~~CG 47 (57)
T PRK12286 27 LVECPNCGEPK--LPHRVCPSCG 47 (57)
T ss_pred ceECCCCCCcc--CCeEECCCCC
Confidence 35688888544 4466 77776
No 52
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=39.20 E-value=12 Score=25.79 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=17.2
Q ss_pred ccccccccccccc----CCCCCCChhhch
Q 028638 15 GDLRYCQKCSHYK----PPRAHHCRVCKR 39 (206)
Q Consensus 15 ~~~~~C~~C~~~k----P~Rs~hC~~c~~ 39 (206)
...-.|..|+..+ --|++||+.|+.
T Consensus 40 ~~~~~C~~Cg~~~~~~~SCk~R~CP~C~~ 68 (111)
T PF14319_consen 40 FHRYRCEDCGHEKIVYNSCKNRHCPSCQA 68 (111)
T ss_pred cceeecCCCCceEEecCcccCcCCCCCCC
Confidence 3344699997544 347888998875
No 53
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=39.18 E-value=13 Score=21.70 Aligned_cols=23 Identities=22% Similarity=0.840 Sum_probs=13.6
Q ss_pred cccccccccc-ccCC--CCCCChhhc
Q 028638 16 DLRYCQKCSH-YKPP--RAHHCRVCK 38 (206)
Q Consensus 16 ~~~~C~~C~~-~kP~--Rs~hC~~c~ 38 (206)
..++|+.|.. ...+ ...+|..|+
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cg 44 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCG 44 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcC
Confidence 3569999976 2222 244576665
No 54
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=38.94 E-value=11 Score=29.52 Aligned_cols=12 Identities=25% Similarity=0.097 Sum_probs=9.7
Q ss_pred hhCCcccCcccC
Q 028638 41 VLRMDHHCIWIS 52 (206)
Q Consensus 41 v~~~DHhC~w~~ 52 (206)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 567899999975
No 55
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=38.64 E-value=23 Score=24.51 Aligned_cols=32 Identities=22% Similarity=0.402 Sum_probs=21.4
Q ss_pred eeEeecCccccccccccccccCC--CCCCChhhch
Q 028638 7 TLCTRSSGGDLRYCQKCSHYKPP--RAHHCRVCKR 39 (206)
Q Consensus 7 ~~~~~~~~~~~~~C~~C~~~kP~--Rs~hC~~c~~ 39 (206)
.|.+....+ .-+|..|+..-++ +...|+.|+.
T Consensus 61 ~L~I~~~p~-~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (115)
T TIGR00100 61 KLNIEDEPV-ECECEDCSEEVSPEIDLYRCPKCHG 94 (115)
T ss_pred EEEEEeeCc-EEEcccCCCEEecCCcCccCcCCcC
Confidence 345555555 4789999766655 3555888874
No 56
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=38.62 E-value=23 Score=24.44 Aligned_cols=31 Identities=23% Similarity=0.473 Sum_probs=19.5
Q ss_pred eEeecCccccccccccccccCCCCCC--Chhhch
Q 028638 8 LCTRSSGGDLRYCQKCSHYKPPRAHH--CRVCKR 39 (206)
Q Consensus 8 ~~~~~~~~~~~~C~~C~~~kP~Rs~h--C~~c~~ 39 (206)
|.+....+ .-+|..|+..-+....+ |+.||.
T Consensus 62 L~I~~vp~-~~~C~~Cg~~~~~~~~~~~CP~Cgs 94 (113)
T PRK12380 62 LHIVYKPA-QAWCWDCSQVVEIHQHDAQCPHCHG 94 (113)
T ss_pred EEEEeeCc-EEEcccCCCEEecCCcCccCcCCCC
Confidence 44444444 47899998655554333 888874
No 57
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=37.91 E-value=17 Score=21.86 Aligned_cols=22 Identities=36% Similarity=0.865 Sum_probs=16.2
Q ss_pred ccccccccccccCCCCCCChhhch
Q 028638 16 DLRYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
..+.|..|+.+-- ...|+.||.
T Consensus 4 ~mr~C~~CgvYTL--k~~CP~CG~ 25 (56)
T PRK13130 4 KIRKCPKCGVYTL--KEICPVCGG 25 (56)
T ss_pred cceECCCCCCEEc--cccCcCCCC
Confidence 4567888887777 667877765
No 58
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=37.82 E-value=14 Score=21.97 Aligned_cols=20 Identities=30% Similarity=0.760 Sum_probs=13.1
Q ss_pred cccccccccccCCCCCC-Chhhc
Q 028638 17 LRYCQKCSHYKPPRAHH-CRVCK 38 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~h-C~~c~ 38 (206)
...|..|+. +-++|| |..||
T Consensus 26 l~~C~~cG~--~~~~H~vc~~cG 46 (55)
T TIGR01031 26 LVVCPNCGE--FKLPHRVCPSCG 46 (55)
T ss_pred ceECCCCCC--cccCeeECCccC
Confidence 345888874 556666 77776
No 59
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=37.62 E-value=5.2 Score=21.43 Aligned_cols=8 Identities=38% Similarity=1.539 Sum_probs=4.4
Q ss_pred cccccccc
Q 028638 17 LRYCQKCS 24 (206)
Q Consensus 17 ~~~C~~C~ 24 (206)
++||++|+
T Consensus 1 m~FCp~C~ 8 (35)
T PF02150_consen 1 MRFCPECG 8 (35)
T ss_dssp --BETTTT
T ss_pred CeeCCCCC
Confidence 36777774
No 60
>smart00301 DM Doublesex DNA-binding motif.
Probab=37.47 E-value=21 Score=21.20 Aligned_cols=22 Identities=23% Similarity=0.416 Sum_probs=11.0
Q ss_pred CCCChhh---chhhhCCcc--cCcccC
Q 028638 31 AHHCRVC---KRCVLRMDH--HCIWIS 52 (206)
Q Consensus 31 s~hC~~c---~~cv~~~DH--hC~w~~ 52 (206)
..+|..| |.-+..-.| +|||-+
T Consensus 2 ~p~C~rCrnHg~~~~lKGHKr~C~~r~ 28 (54)
T smart00301 2 IPYCQKCENHGVKVPLKGHKPECPFRD 28 (54)
T ss_pred CCcChhHhcCCCeeccCCcCCCCCCCC
Confidence 3445555 333344444 777765
No 61
>PF13261 DUF4052: Protein of unknown function (DUF4052)
Probab=37.15 E-value=58 Score=24.51 Aligned_cols=33 Identities=21% Similarity=0.627 Sum_probs=23.7
Q ss_pred CccccCcc-hHHHHHHHHHHHHHHHHHHHHHHHH
Q 028638 52 SNCVGHAN-YKVFFIFVLYAVVACIYSMVLLVGS 84 (206)
Q Consensus 52 ~~cIG~~N-~~~F~~fl~~~~~~~~~~~~~~~~~ 84 (206)
+.-.|++. ..+|++|++|.++++.+.+.+....
T Consensus 115 ~~slg~~si~QF~vQflfYvt~A~~FQ~~vifqq 148 (217)
T PF13261_consen 115 NISLGEHSIEQFFVQFLFYVTIACFFQVVVIFQQ 148 (217)
T ss_pred ecchhHhHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 33444444 4578899999999999888776543
No 62
>COG4640 Predicted membrane protein [Function unknown]
Probab=36.33 E-value=16 Score=31.04 Aligned_cols=25 Identities=24% Similarity=0.731 Sum_probs=21.0
Q ss_pred cccccccccccCCCCCCChhhchhh
Q 028638 17 LRYCQKCSHYKPPRAHHCRVCKRCV 41 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~~c~~cv 41 (206)
+++|..|+.-+-+-+..|..||.=+
T Consensus 1 M~fC~kcG~qk~Ed~~qC~qCG~~~ 25 (465)
T COG4640 1 MKFCPKCGSQKAEDDVQCTQCGHKF 25 (465)
T ss_pred CCcccccccccccccccccccCCcC
Confidence 5799999988999888899888743
No 63
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=36.26 E-value=14 Score=17.91 Aligned_cols=21 Identities=19% Similarity=0.575 Sum_probs=14.9
Q ss_pred cccccccccCCCCCCChhhch
Q 028638 19 YCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 19 ~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
.|..|...-.+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 477777777777777777753
No 64
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=35.87 E-value=30 Score=24.07 Aligned_cols=31 Identities=29% Similarity=0.465 Sum_probs=19.9
Q ss_pred eEeecCccccccccccccccCCCC--C-CChhhch
Q 028638 8 LCTRSSGGDLRYCQKCSHYKPPRA--H-HCRVCKR 39 (206)
Q Consensus 8 ~~~~~~~~~~~~C~~C~~~kP~Rs--~-hC~~c~~ 39 (206)
|.+..... .-+|..|+..-++.. . +|+.||.
T Consensus 63 L~Ie~vp~-~~~C~~Cg~~~~~~~~~~~~CP~Cgs 96 (117)
T PRK00564 63 LDIVDEKV-ELECKDCSHVFKPNALDYGVCEKCHS 96 (117)
T ss_pred EEEEecCC-EEEhhhCCCccccCCccCCcCcCCCC
Confidence 44444444 478999986666542 2 4888875
No 65
>PF15050 SCIMP: SCIMP protein
Probab=35.84 E-value=1.5e+02 Score=20.75 Aligned_cols=7 Identities=29% Similarity=0.781 Sum_probs=3.8
Q ss_pred HHHHHHh
Q 028638 163 IFENLTS 169 (206)
Q Consensus 163 ~~~N~~~ 169 (206)
.++|+..
T Consensus 57 mYENv~n 63 (133)
T PF15050_consen 57 MYENVLN 63 (133)
T ss_pred HHHHhhc
Confidence 4666553
No 66
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=35.64 E-value=1.4e+02 Score=23.83 Aligned_cols=25 Identities=28% Similarity=0.313 Sum_probs=11.2
Q ss_pred ccC-cchHHHHHHHHHHHHHHHHHHH
Q 028638 55 VGH-ANYKVFFIFVLYAVVACIYSMV 79 (206)
Q Consensus 55 IG~-~N~~~F~~fl~~~~~~~~~~~~ 79 (206)
||. ...+-.+.|.+.+.+..+.+..
T Consensus 189 VG~~faRkR~i~f~llgllfliiaig 214 (256)
T PF09788_consen 189 VGPRFARKRAIIFFLLGLLFLIIAIG 214 (256)
T ss_pred ccchHhhhHHHHHHHHHHHHHHHHHH
Confidence 663 3444445554444444333333
No 67
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=35.57 E-value=8.2 Score=19.64 Aligned_cols=21 Identities=19% Similarity=0.444 Sum_probs=7.4
Q ss_pred cccccccccCC-CCCCChhhch
Q 028638 19 YCQKCSHYKPP-RAHHCRVCKR 39 (206)
Q Consensus 19 ~C~~C~~~kP~-Rs~hC~~c~~ 39 (206)
.|..|+..... ...+|..|+-
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf 23 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDF 23 (30)
T ss_dssp --TTTS----S--EEE-TTT--
T ss_pred cCCcCCCcCCCCceEECccCCC
Confidence 46677655554 5666777753
No 68
>PF03503 Chlam_OMP3: Chlamydia cysteine-rich outer membrane protein 3; InterPro: IPR003517 Three cysteine-rich proteins (also believed to be lipoproteins) make up the extracellular matrix of the Chlamydial outer membrane []. They are involved in the essential structural integrity of both the elementary body (EB) and recticulate body (RB) phase. As these bacteria lack the peptidoglycan layer common to most Gram-negative microbes, such proteins are highly important in the pathogenicity of the organism. The largest of these is the major outer membrane protein (MOMP), and constitutes around 60% of the total protein for the membrane []. OMP2 is the second largest, with a molecular mass of 58kDa, while the OMP3 protein is ~15kDa []. MOMP is believed to elicit the strongest immune response, and has recently been linked to heart disease through its sequence similarity to a murine heart-muscle specific alpha myosin []. The OMP3 family plays a structural role in the outer membrane during the EB stage of the Chlamydial cell, and different biovars show a small, yet highly significant, change at peptide charge level []. Members of this family include Chlamydia trachomatis, Chlamydia pneumoniae, and Chlamydia psittaci.; GO: 0005201 extracellular matrix structural constituent
Probab=35.34 E-value=26 Score=20.17 Aligned_cols=28 Identities=18% Similarity=0.380 Sum_probs=21.5
Q ss_pred cccccccccccccCCCCCCChhhchhhh
Q 028638 15 GDLRYCQKCSHYKPPRAHHCRVCKRCVL 42 (206)
Q Consensus 15 ~~~~~C~~C~~~kP~Rs~hC~~c~~cv~ 42 (206)
-.++-|..|+..|-.++--|..||.-++
T Consensus 21 cap~sc~pc~~~kkd~~~g~n~cg~y~p 48 (55)
T PF03503_consen 21 CAPKSCNPCEVNKKDVSCGCNPCGSYTP 48 (55)
T ss_pred CCCCcccccccccccccCCccccccccc
Confidence 3467888888888888888888876554
No 69
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=35.05 E-value=19 Score=29.14 Aligned_cols=26 Identities=27% Similarity=0.641 Sum_probs=18.7
Q ss_pred ccccccccccccccCC----CCCCChhhch
Q 028638 14 GGDLRYCQKCSHYKPP----RAHHCRVCKR 39 (206)
Q Consensus 14 ~~~~~~C~~C~~~kP~----Rs~hC~~c~~ 39 (206)
....+||+.|....-+ +...|+.|+.
T Consensus 108 ~~~~RFCg~CG~~~~~~~~g~~~~C~~cg~ 137 (279)
T COG2816 108 YRSHRFCGRCGTKTYPREGGWARVCPKCGH 137 (279)
T ss_pred HhhCcCCCCCCCcCccccCceeeeCCCCCC
Confidence 4456899999865544 4778888865
No 70
>PHA02898 virion envelope protein; Provisional
Probab=35.04 E-value=1.3e+02 Score=19.78 Aligned_cols=24 Identities=17% Similarity=0.086 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHH-HHhCcchHh
Q 028638 114 LSVALSVLLGWHIYL-IFHNKTTIE 137 (206)
Q Consensus 114 ~~~~~~~l~~~~~~l-i~~n~TT~E 137 (206)
..+.+.+++++.+|. -+++.++.|
T Consensus 55 givl~lG~~ifs~y~r~C~~~~~~e 79 (92)
T PHA02898 55 AIILILGIIFFKGYNMFCGGNTTDE 79 (92)
T ss_pred HHHHHHHHHHHHHHhhhcCCCcccc
Confidence 334455666666776 566766665
No 71
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=34.33 E-value=26 Score=19.66 Aligned_cols=16 Identities=38% Similarity=1.066 Sum_probs=8.2
Q ss_pred hhchhhhCCcccCccc
Q 028638 36 VCKRCVLRMDHHCIWI 51 (206)
Q Consensus 36 ~c~~cv~~~DHhC~w~ 51 (206)
.|..|+...|-||.|=
T Consensus 6 sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 6 SCSECLLARDPYCAWC 21 (46)
T ss_pred cHHHHHcCCCCCCCcc
Confidence 3555555555555553
No 72
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=33.50 E-value=14 Score=22.24 Aligned_cols=19 Identities=32% Similarity=0.745 Sum_probs=9.8
Q ss_pred cccccccccccCCCCCCCh
Q 028638 17 LRYCQKCSHYKPPRAHHCR 35 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~hC~ 35 (206)
.+.|..|...-|+--..||
T Consensus 8 H~HC~VCg~aIp~de~~CS 26 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVCS 26 (64)
T ss_pred CccccccCCcCCCccchHH
Confidence 3455555555555555544
No 73
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=32.39 E-value=20 Score=28.04 Aligned_cols=20 Identities=40% Similarity=0.901 Sum_probs=16.0
Q ss_pred cccCCCCCCChhhchhhhCC
Q 028638 25 HYKPPRAHHCRVCKRCVLRM 44 (206)
Q Consensus 25 ~~kP~Rs~hC~~c~~cv~~~ 44 (206)
-|++.+-.||..|+.|+.|.
T Consensus 186 CY~g~~~~~CG~C~sC~~R~ 205 (222)
T COG0603 186 CYNGGEGDHCGECESCVLRE 205 (222)
T ss_pred EeCCCCCCCCCCCHHHHHHH
Confidence 35666666999999999983
No 74
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=31.22 E-value=21 Score=33.10 Aligned_cols=39 Identities=26% Similarity=0.569 Sum_probs=28.8
Q ss_pred CCCh---hhchhhhCCcccCcccC---ccc--cCcchHHHHHHHHHH
Q 028638 32 HHCR---VCKRCVLRMDHHCIWIS---NCV--GHANYKVFFIFVLYA 70 (206)
Q Consensus 32 ~hC~---~c~~cv~~~DHhC~w~~---~cI--G~~N~~~F~~fl~~~ 70 (206)
++|. .|..|++..|.||.|-+ .|+ +..|.+.+.+=+-.+
T Consensus 492 ~~C~~y~~C~dcclarDPYCAWd~~~~~C~~~~~~~~rs~~Qd~~~g 538 (737)
T KOG3611|consen 492 ARCSRYGSCADCCLARDPYCAWDGVNSKCSLLSPTNRRSVIQDVSSG 538 (737)
T ss_pred hHhhcccchhhhhhccCCCccccCCCCcceECCCCcccchhhhhccc
Confidence 5566 78887777999999998 687 455677777665543
No 75
>PLN00186 ribosomal protein S26; Provisional
Probab=30.20 E-value=16 Score=25.06 Aligned_cols=15 Identities=27% Similarity=0.778 Sum_probs=11.9
Q ss_pred CCCCChhhchhhhCC
Q 028638 30 RAHHCRVCKRCVLRM 44 (206)
Q Consensus 30 Rs~hC~~c~~cv~~~ 44 (206)
+.-||..|++||++-
T Consensus 19 ~~V~C~nCgr~vPKD 33 (109)
T PLN00186 19 KRIRCSNCGKCVPKD 33 (109)
T ss_pred cceeeCCCccccccc
Confidence 345799999999983
No 76
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.14 E-value=31 Score=29.32 Aligned_cols=27 Identities=30% Similarity=0.767 Sum_probs=20.0
Q ss_pred ccCCCCCCChhhchhhhCCcccCcccCccccCc
Q 028638 26 YKPPRAHHCRVCKRCVLRMDHHCIWISNCVGHA 58 (206)
Q Consensus 26 ~kP~Rs~hC~~c~~cv~~~DHhC~w~~~cIG~~ 58 (206)
++-.|..||..|+. +|| +|+.+|||.-
T Consensus 9 ~sl~~p~l~~tC~e----~~h--~w~~~c~ga~ 35 (460)
T KOG1398|consen 9 RSLARPSLAETCDE----ADH--SWVANCIGAL 35 (460)
T ss_pred hhhcCchHhhhhhh----ccC--CcccchhHHH
Confidence 44567778887765 566 6999999973
No 77
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=30.09 E-value=26 Score=18.28 Aligned_cols=19 Identities=32% Similarity=0.845 Sum_probs=8.9
Q ss_pred ccccccccCCC-CCC-Chhhc
Q 028638 20 CQKCSHYKPPR-AHH-CRVCK 38 (206)
Q Consensus 20 C~~C~~~kP~R-s~h-C~~c~ 38 (206)
|..|...+.-+ +.+ |+.|+
T Consensus 3 C~vC~~~k~rk~T~~~C~~C~ 23 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKCD 23 (32)
T ss_pred CeECCcCCccceeEEEccCCC
Confidence 44554444433 333 66554
No 78
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=29.29 E-value=28 Score=28.31 Aligned_cols=31 Identities=19% Similarity=0.339 Sum_probs=22.3
Q ss_pred eEeecCccccccccccccccCCCCCCChhhch
Q 028638 8 LCTRSSGGDLRYCQKCSHYKPPRAHHCRVCKR 39 (206)
Q Consensus 8 ~~~~~~~~~~~~C~~C~~~kP~Rs~hC~~c~~ 39 (206)
|.+.......+.|+.|+. ...|...|+.||.
T Consensus 300 v~~~~~~~tS~~C~~cg~-~~~r~~~C~~cg~ 330 (364)
T COG0675 300 VKVVPPYYTSKTCPCCGH-LSGRLFKCPRCGF 330 (364)
T ss_pred EEECCCCCCcccccccCC-ccceeEECCCCCC
Confidence 445555666789999988 4457777888875
No 79
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=29.03 E-value=15 Score=29.23 Aligned_cols=41 Identities=20% Similarity=0.622 Sum_probs=32.0
Q ss_pred cccceeEeecCccccccccccccccCCCCCCChhhchhhhC
Q 028638 3 KMTKTLCTRSSGGDLRYCQKCSHYKPPRAHHCRVCKRCVLR 43 (206)
Q Consensus 3 ~~~~~~~~~~~~~~~~~C~~C~~~kP~Rs~hC~~c~~cv~~ 43 (206)
+|.|+-.+.+....-+||..|.+|--.--.||..|+.|..+
T Consensus 190 ~i~~~~i~~~~EE~~~~~~~~~~Yv~~~~~H~~~~~S~~~~ 230 (325)
T KOG4399|consen 190 NIPPNKIILPTEEGYRFCSPCQRYVSLENQHCEHCNSCTSK 230 (325)
T ss_pred cCCCceeecccccceEEEeehHHHHHHHhhhchhhcccccc
Confidence 56777777777777889999998888877888877776543
No 80
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=29.01 E-value=1.2e+02 Score=17.23 Aligned_cols=19 Identities=5% Similarity=0.156 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028638 105 VISGLLLVPLSVALSVLLG 123 (206)
Q Consensus 105 ~~~~~~~~~~~~~~~~l~~ 123 (206)
+++.++.+..+.+++++.+
T Consensus 8 iFsvvIil~If~~iGl~Iy 26 (49)
T PF11044_consen 8 IFSVVIILGIFAWIGLSIY 26 (49)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333344444333
No 81
>PRK11106 queuosine biosynthesis protein QueC; Provisional
Probab=28.51 E-value=26 Score=27.59 Aligned_cols=13 Identities=38% Similarity=0.910 Sum_probs=11.3
Q ss_pred CCChhhchhhhCC
Q 028638 32 HHCRVCKRCVLRM 44 (206)
Q Consensus 32 ~hC~~c~~cv~~~ 44 (206)
.||..|+.|+.|.
T Consensus 195 ~~CG~C~sC~~R~ 207 (231)
T PRK11106 195 DGCGHCAACHLRA 207 (231)
T ss_pred CCCCCCHHHHHHH
Confidence 4999999999874
No 82
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=28.39 E-value=16 Score=24.40 Aligned_cols=21 Identities=29% Similarity=0.469 Sum_probs=14.9
Q ss_pred CCCCChhhchhhhCCcccCcc
Q 028638 30 RAHHCRVCKRCVLRMDHHCIW 50 (206)
Q Consensus 30 Rs~hC~~c~~cv~~~DHhC~w 50 (206)
+.-+|..|++||++----+.+
T Consensus 19 ~~V~C~nCgr~vPKDKAIkrf 39 (95)
T PRK09335 19 GYVQCDNCGRRVPRDKAVCVT 39 (95)
T ss_pred ccEEeCCCCCcCcCCceEEEE
Confidence 345799999999985554433
No 83
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=28.27 E-value=24 Score=21.39 Aligned_cols=37 Identities=19% Similarity=0.418 Sum_probs=24.7
Q ss_pred cccccccccccCCCCC----CChhhchhhhCCcccCcccCc
Q 028638 17 LRYCQKCSHYKPPRAH----HCRVCKRCVLRMDHHCIWISN 53 (206)
Q Consensus 17 ~~~C~~C~~~kP~Rs~----hC~~c~~cv~~~DHhC~w~~~ 53 (206)
...|.+|+..-+++.+ .|+.||.-+....+-|.=++|
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~I~Rc~~CRk~g~ 49 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGEVEIYRCAKCRKLGN 49 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCceeeehhhhHHHcCC
Confidence 4578888887766643 388888666666666655443
No 84
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=27.32 E-value=18 Score=29.46 Aligned_cols=27 Identities=33% Similarity=0.623 Sum_probs=16.5
Q ss_pred cccccccccc-c--CCCCCCChhhchhhhC
Q 028638 17 LRYCQKCSHY-K--PPRAHHCRVCKRCVLR 43 (206)
Q Consensus 17 ~~~C~~C~~~-k--P~Rs~hC~~c~~cv~~ 43 (206)
..-|..|... . -.|-|||+.||.-|-.
T Consensus 168 a~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~ 197 (288)
T KOG1729|consen 168 ATECMVCGCTEFTLSERRHHCRNCGDIVCA 197 (288)
T ss_pred ceecccCCCccccHHHHHHHHHhcchHhhh
Confidence 3456666642 1 2477888888776554
No 85
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=27.18 E-value=14 Score=19.75 Aligned_cols=22 Identities=32% Similarity=0.738 Sum_probs=11.9
Q ss_pred ccccccccccc-cCCCCCCChhhc
Q 028638 16 DLRYCQKCSHY-KPPRAHHCRVCK 38 (206)
Q Consensus 16 ~~~~C~~C~~~-kP~Rs~hC~~c~ 38 (206)
....|..|..+ -||| ..|+.|+
T Consensus 10 ~~~rC~~Cg~~~~pPr-~~Cp~C~ 32 (37)
T PF12172_consen 10 LGQRCRDCGRVQFPPR-PVCPHCG 32 (37)
T ss_dssp EEEE-TTT--EEES---SEETTTT
T ss_pred EEEEcCCCCCEecCCC-cCCCCcC
Confidence 34679999766 5666 7787775
No 86
>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]
Probab=27.07 E-value=28 Score=28.48 Aligned_cols=21 Identities=33% Similarity=0.963 Sum_probs=14.9
Q ss_pred ccccccccccccCCCCCCChhhc
Q 028638 16 DLRYCQKCSHYKPPRAHHCRVCK 38 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~c~ 38 (206)
+-.||.+|+..+|. +.|+.|+
T Consensus 318 d~~fCstCG~~ga~--KrCs~CK 338 (396)
T KOG1710|consen 318 DCQFCSTCGHPGAK--KRCSQCK 338 (396)
T ss_pred ecccccccCCCCcc--chhhhhH
Confidence 35799999977664 4566664
No 87
>PTZ00172 40S ribosomal protein S26; Provisional
Probab=26.56 E-value=18 Score=24.70 Aligned_cols=16 Identities=31% Similarity=0.804 Sum_probs=12.1
Q ss_pred CCCCChhhchhhhCCc
Q 028638 30 RAHHCRVCKRCVLRMD 45 (206)
Q Consensus 30 Rs~hC~~c~~cv~~~D 45 (206)
+.-+|..|++||++--
T Consensus 19 ~~V~C~nCgr~vPKDK 34 (108)
T PTZ00172 19 KPVRCSNCGRCVPKDK 34 (108)
T ss_pred ccEEeCCccccccccc
Confidence 3447999999999833
No 88
>PF08510 PIG-P: PIG-P; InterPro: IPR013717 PIG-P (phosphatidylinositol N-acetylglucosaminyltransferase subunit P) is an enzyme involved in GPI anchor biosynthesis [].
Probab=26.41 E-value=1.6e+02 Score=20.66 Aligned_cols=19 Identities=32% Similarity=0.593 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028638 64 FIFVLYAVVACIYSMVLLV 82 (206)
Q Consensus 64 ~~fl~~~~~~~~~~~~~~~ 82 (206)
..|..|.....++.+++..
T Consensus 6 YGFv~~i~s~~~~~lyl~W 24 (126)
T PF08510_consen 6 YGFVLYILSTVAFVLYLLW 24 (126)
T ss_pred eehHHHHHHHHHHHHHHHH
Confidence 3455555444444444433
No 89
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.22 E-value=3.7e+02 Score=22.11 Aligned_cols=16 Identities=13% Similarity=0.173 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHhCc
Q 028638 118 LSVLLGWHIYLIFHNK 133 (206)
Q Consensus 118 ~~~l~~~~~~li~~n~ 133 (206)
++...+.+++.+.||.
T Consensus 258 ~~i~~i~kVh~~yRgs 273 (313)
T KOG3088|consen 258 LSIWVLQKVHSYYRGS 273 (313)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3444455666666654
No 90
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=24.36 E-value=2.1e+02 Score=18.69 Aligned_cols=18 Identities=22% Similarity=0.108 Sum_probs=8.5
Q ss_pred HHHHHHHHHHhCcchHhH
Q 028638 121 LLGWHIYLIFHNKTTIEY 138 (206)
Q Consensus 121 l~~~~~~li~~n~TT~E~ 138 (206)
+++.-++.|.+|.-..|.
T Consensus 51 lFi~ll~~i~~~~e~~~~ 68 (84)
T PF06143_consen 51 LFILLLYNINKNAEQDRA 68 (84)
T ss_pred HHHHHHHHHHHHHhhhHH
Confidence 333334556666544443
No 91
>PF03356 Pox_LP_H2: Viral late protein H2; InterPro: IPR005023 This entry represents the late protein H2 found in Vaccinia and other poxviruses. This protein is a highly conserved viral membrane protein found in all sequenced poxviruses, containing an N-terminal transmembrane domain and four conserved cysteines thought to be involved in the formation of intramolecular disulphide bonds []. H2 has been shown to be necessary for entry into the host cell and virus-induced cell-cell fusion, but is not required for virus morphogenesis or the attachment of virus particles to cells. It is part of an entry-fusion complex composed of eight viral membrane proteins [].
Probab=24.34 E-value=99 Score=23.22 Aligned_cols=24 Identities=25% Similarity=0.279 Sum_probs=16.2
Q ss_pred eccCc--CCCCCCceeeeccccccCC
Q 028638 179 VCPSS--RHIGSGLNFRTAYHNAVGA 202 (206)
Q Consensus 179 ~~P~~--~~~~dG~~f~~~~~~~~~~ 202 (206)
++|-. +..|||+.+++..+.++++
T Consensus 119 fLPqaIrRG~GDgWmvkKA~kvD~sA 144 (189)
T PF03356_consen 119 FLPQAIRRGDGDGWMVKKAAKVDPSA 144 (189)
T ss_pred ccHHHHhcCCCCceeEeeccccCccH
Confidence 34543 6678888888877776654
No 92
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=23.61 E-value=50 Score=17.14 Aligned_cols=21 Identities=24% Similarity=0.581 Sum_probs=11.9
Q ss_pred cccccccc-cCC-CCCCChhhch
Q 028638 19 YCQKCSHY-KPP-RAHHCRVCKR 39 (206)
Q Consensus 19 ~C~~C~~~-kP~-Rs~hC~~c~~ 39 (206)
.|..|+-. .+. ....|++|+.
T Consensus 3 ~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCCcCCCcCcCCCC
Confidence 46677533 444 4556777764
No 93
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=23.53 E-value=3.2e+02 Score=20.65 Aligned_cols=21 Identities=10% Similarity=0.285 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 028638 60 YKVFFIFVLYAVVACIYSMVL 80 (206)
Q Consensus 60 ~~~F~~fl~~~~~~~~~~~~~ 80 (206)
+|+++.|+++..++...+++.
T Consensus 1 m~~~~~~~~~~~~~~~~~~~~ 21 (199)
T PF10112_consen 1 MKYIIRFIFRWILGVLIAAIT 21 (199)
T ss_pred CchHHHHHHHHHHHHHHHHHH
Confidence 467788888766665444433
No 94
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=23.21 E-value=2.2e+02 Score=18.55 Aligned_cols=16 Identities=19% Similarity=-0.039 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHhCc
Q 028638 118 LSVLLGWHIYLIFHNK 133 (206)
Q Consensus 118 ~~~l~~~~~~li~~n~ 133 (206)
...+++.-+|-+.++.
T Consensus 42 ~ly~~~~ai~~~Gk~~ 57 (85)
T PF13150_consen 42 CLYMTVSAIYDIGKED 57 (85)
T ss_pred HHHHHHHHHHHhccCc
Confidence 3444455666676555
No 95
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=23.03 E-value=90 Score=17.04 Aligned_cols=24 Identities=21% Similarity=0.385 Sum_probs=16.2
Q ss_pred cccccccccccccCC--CCCCChhhc
Q 028638 15 GDLRYCQKCSHYKPP--RAHHCRVCK 38 (206)
Q Consensus 15 ~~~~~C~~C~~~kP~--Rs~hC~~c~ 38 (206)
....+|..|+..-+. .+..|+.|+
T Consensus 9 ~~~~~C~~C~~~i~~~~~~~~C~~C~ 34 (49)
T smart00109 9 KKPTKCCVCRKSIWGSFQGLRCSWCK 34 (49)
T ss_pred CCCCCccccccccCcCCCCcCCCCCC
Confidence 456789999754443 367788883
No 96
>PF14770 TMEM18: Transmembrane protein 18
Probab=22.61 E-value=1.8e+02 Score=20.47 Aligned_cols=18 Identities=28% Similarity=0.348 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 028638 106 ISGLLLVPLSVALSVLLG 123 (206)
Q Consensus 106 ~~~~~~~~~~~~~~~l~~ 123 (206)
++.+...+.++....+++
T Consensus 82 isvv~s~PlLl~~~ii~~ 99 (123)
T PF14770_consen 82 ISVVFSAPLLLNCLIILV 99 (123)
T ss_pred ehHHHHHhHHHHHHHHHH
Confidence 333444444433333333
No 97
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=22.37 E-value=32 Score=27.46 Aligned_cols=24 Identities=29% Similarity=0.683 Sum_probs=14.6
Q ss_pred ccccccccccccc----CCCCCCChhhc
Q 028638 15 GDLRYCQKCSHYK----PPRAHHCRVCK 38 (206)
Q Consensus 15 ~~~~~C~~C~~~k----P~Rs~hC~~c~ 38 (206)
...+||+.|+..- -.+..+|..|+
T Consensus 97 ~~~~fC~~CG~~~~~~~~~~~~~C~~c~ 124 (256)
T PRK00241 97 RSHRFCGYCGHPMHPSKTEWAMLCPHCR 124 (256)
T ss_pred hcCccccccCCCCeecCCceeEECCCCC
Confidence 3468999997542 22344466655
No 98
>KOG3084 consensus NADH pyrophosphatase I of the Nudix family of hydrolases [Replication, recombination and repair]
Probab=22.27 E-value=40 Score=27.84 Aligned_cols=31 Identities=23% Similarity=0.621 Sum_probs=20.8
Q ss_pred ccccccccccccCCC-------CC--CChhhchhhhCCcc
Q 028638 16 DLRYCQKCSHYKPPR-------AH--HCRVCKRCVLRMDH 46 (206)
Q Consensus 16 ~~~~C~~C~~~kP~R-------s~--hC~~c~~cv~~~DH 46 (206)
.-+||+.|...--++ +. .|.+|++|.+|.|.
T Consensus 149 kykFCp~CG~~tkp~e~g~k~~Cs~~~C~~~n~~yPr~dP 188 (345)
T KOG3084|consen 149 KYKFCPGCGSPTKPEEAGTKLQCSDETCPSCNVIYPRTDP 188 (345)
T ss_pred HhccCcccCCCcccccCCccceeecccCCcCCeeccCCCC
Confidence 347899997544332 22 56677888888886
No 99
>PF01146 Caveolin: Caveolin; InterPro: IPR001612 Caveolins [, , ] are a family of integral membrane proteins which are the principal components of caveolae membranes. Cavoleae are flask-shaped plasma membrane invaginations whose exact cellular function is not yet clear. Caveolins may act as scaffolding proteins within caveolar membranes by compartmentalizing and concentrating signalling molecules. Various classes of signalling molecules, including G-protein subunits, receptor and non-receptor tyrosine kinases, endothelial nitric oxide synthase (eNOS), and small GTPases, bind Cav-1 through its 'caveolin-scaffolding domain'. Currently, three different forms of caveolins are known: caveolin-1 (or VIP21), caveolin-2 and caveolin-3 (or M-caveolin). Caveolins are proteins of about 20 Kd, they form high molecular mass homo-oligomers. Structurally they seem to have N-terminal and C-terminal hydrophilic segments and a long central transmembrane domain that probably forms a hairpin in the membrane. Both extremities are known to face the cytoplasm. Caveolae are enriched with cholesterol and Cav-1 is one of the few proteins that binds cholesterol tightly and specifically.
Probab=21.92 E-value=2.7e+02 Score=20.29 Aligned_cols=16 Identities=19% Similarity=0.343 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 028638 114 LSVALSVLLGWHIYLI 129 (206)
Q Consensus 114 ~~~~~~~l~~~~~~li 129 (206)
+++..+.+...|+|.+
T Consensus 86 ~Gi~FA~lsf~hIW~v 101 (148)
T PF01146_consen 86 WGILFACLSFLHIWCV 101 (148)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444445555543
No 100
>TIGR00811 sit silicon transporter. Marine diatoms such as Cylindrotheca fusiformis encode at least six silicon transport protein homologues which exhibit similar size and topology. One characterized member of the family (Sit1) functions in the energy-dependent uptake of either Silicic acid [Si(OH)4] or Silicate [Si(OH)3O-] by a Na+ symport mechanism. The system is found in marine diatoms which make their "glass houses" out of silicon.
Probab=21.56 E-value=5.7e+02 Score=22.63 Aligned_cols=12 Identities=33% Similarity=0.562 Sum_probs=7.5
Q ss_pred HHHHHHhCcchH
Q 028638 125 HIYLIFHNKTTI 136 (206)
Q Consensus 125 ~~~li~~n~TT~ 136 (206)
-+..+..|+|+.
T Consensus 240 tl~ALFnG~T~m 251 (545)
T TIGR00811 240 TIEALFNGQTTM 251 (545)
T ss_pred HHHHHHCCCcee
Confidence 345566777774
No 101
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=21.28 E-value=50 Score=26.48 Aligned_cols=27 Identities=19% Similarity=0.272 Sum_probs=13.6
Q ss_pred CccccccccccccccCCCCCCChhhchh
Q 028638 13 SGGDLRYCQKCSHYKPPRAHHCRVCKRC 40 (206)
Q Consensus 13 ~~~~~~~C~~C~~~kP~Rs~hC~~c~~c 40 (206)
.-+..++|-.|..+.-.| .||..|+.|
T Consensus 257 ~~A~~~~C~iC~~~~~~R-~~C~~~kA~ 283 (325)
T KOG4399|consen 257 HCAVKHGCFICGELDHKR-STCPNIKAV 283 (325)
T ss_pred chhhhcceeecccccccc-ccCccHHHH
Confidence 334455566665555555 444444333
No 102
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=21.01 E-value=39 Score=17.10 Aligned_cols=20 Identities=25% Similarity=0.610 Sum_probs=10.6
Q ss_pred cccccccccCCC-CCCChhhc
Q 028638 19 YCQKCSHYKPPR-AHHCRVCK 38 (206)
Q Consensus 19 ~C~~C~~~kP~R-s~hC~~c~ 38 (206)
.|.-|...-... ..+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 355665444444 55665555
No 103
>PF01283 Ribosomal_S26e: Ribosomal protein S26e; InterPro: IPR000892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. One of these families, the S26E family, includes mammalian S26 []; Octopus S26 []; Drosophila S26 (DS31) []; plant cytoplasmic S26; and fungal S26 []. These proteins have 114 to 127 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3U5G_a 3U5C_a 2XZM_5 2XZN_5.
Probab=20.83 E-value=26 Score=24.27 Aligned_cols=20 Identities=25% Similarity=0.521 Sum_probs=12.1
Q ss_pred CCCChhhchhhhCCcccCcc
Q 028638 31 AHHCRVCKRCVLRMDHHCIW 50 (206)
Q Consensus 31 s~hC~~c~~cv~~~DHhC~w 50 (206)
.-+|..|++||++----..+
T Consensus 20 ~V~C~nCgr~vPKDKAIkrf 39 (113)
T PF01283_consen 20 PVRCDNCGRCVPKDKAIKRF 39 (113)
T ss_dssp EEE-TTTB-EEECCCSEEEE
T ss_pred CEeeCcccccCcCCceEEEE
Confidence 34799999999985444433
No 104
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.67 E-value=1.7e+02 Score=24.69 Aligned_cols=23 Identities=17% Similarity=0.171 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcccc
Q 028638 69 YAVVACIYSMVLLVGSLTNDSLE 91 (206)
Q Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~ 91 (206)
+.+++.++.++++...++..++.
T Consensus 190 ~~vl~~~fvl~tlaivLFPLWP~ 212 (372)
T KOG2927|consen 190 WQVLGVLFVLVTLAIVLFPLWPR 212 (372)
T ss_pred HHHHHHHHHHHHHHHHhcccCcH
Confidence 33344444444444455544443
No 105
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=20.58 E-value=19 Score=24.65 Aligned_cols=23 Identities=43% Similarity=0.730 Sum_probs=19.3
Q ss_pred ccccccccccccCCCCCCChhhc
Q 028638 16 DLRYCQKCSHYKPPRAHHCRVCK 38 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs~hC~~c~ 38 (206)
+...|.+|-.+-|+|+..|+.|.
T Consensus 92 D~lICRkCYAR~g~~Ae~CRK~~ 114 (128)
T KOG0003|consen 92 DKLICRKCYARLGPRAENCRKKK 114 (128)
T ss_pred chHHHHHHHHhcCcHHHHhHHhh
Confidence 34579999999999999998874
No 106
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=20.12 E-value=44 Score=20.26 Aligned_cols=33 Identities=21% Similarity=0.560 Sum_probs=18.0
Q ss_pred ccccccccccccCCCC----CCChhhchhhhCCcccC
Q 028638 16 DLRYCQKCSHYKPPRA----HHCRVCKRCVLRMDHHC 48 (206)
Q Consensus 16 ~~~~C~~C~~~kP~Rs----~hC~~c~~cv~~~DHhC 48 (206)
....|..|+..-.++. ..|+.||.-+...-..|
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC~~C 42 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPNCGEVIIYRCEKC 42 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCCCCCeeEeechhH
Confidence 3446777776666554 34777766533333333
No 107
>PF09879 DUF2106: Predicted membrane protein (DUF2106); InterPro: IPR011313 [NiFe] hydrogenases function in H2 metabolism in a variety of microorganisms, enabling them to use H2 as a source of reducing equivalent under aerobic and anaerobic conditions [NiFe] hydrogenases consist of two subunits, hydrogenase large and hydrogenase small. The large subunit contains the binuclear [NiFe] active site, while the small subunit binds at least one [4Fe-4S] cluster []. Energy-converting [NiFe] hydrogenases (or [NiFe]-hydrogenase-3-type) form a distinct group within the [NiFe] hydrogenase family [, ]. Members of this subgroup include: Hydrogenase 3 and 4 (Hyc and Hyf) from Escherichia coli CO-induced hydrogenase (Coo) from Rhodospirillum rubrum Mbh hydrogenase from Pyrococcus furiosus Eha and Ehb hydrogenases from Methanothermobacter species Ech hydrogenase from Methanosarcina barkeri Energy-converting [NiFe] hydrogenases are membrane-bound enzymes with a six-subunit core: the large and small hydrogenase subunits, plus two hydrophilic proteins and two integral membrane proteins. Their large and small subunits show little sequence similarity to other [NiFe] hydrogenases, except for key conserved residues coordinating the active site and [FeS] cluster. However, they show considerable sequence similarity to the six-subunit, energy-conserving NADH:quinone oxidoreductases (complex I), which are present in cytoplasmic membranes of many bacteria and in inner mitochondrial membranes. However, the reactions they catalyse differ significantly from complex I. Energy-converting [NiFe] hydrogenases function as ion pumps. Eha and Ehb hydrogenases contain extra subunits in addition to those shared by other energy-converting [NiFe] hydrogenases (or [NiFe]-hydrogenase-3-type). Eha contains a 6[4Fe-4S] polyferredoxin, a 10[4F-4S] polyferredoxin, ten other predicted integral membrane proteins (EhaA IPR011306 from INTERPRO, EhaB IPR011314 from INTERPRO, EhaC IPR011316 from INTERPRO, EhaD IPR011308 from INTERPRO, EhaE IPR011317 from INTERPRO, EhaF IPR011313 from INTERPRO, EhaG IPR011311 from INTERPRO, EhaI IPR011318 from INTERPRO, EhaK IPR011319 from INTERPRO, EhaL IPR011305 from INTERPRO) and four hydrophobic subunits (EhaM, EhaR IPR014502 from INTERPRO, EhS, EhT) []. The ten predicted integral membrane proteins are absent from Ech, Coo, Hyc and Hyf complexes, which may have simpler membrane components than Eha. Eha and Ehb catalyse the reduction of low-potential redox carriers (e.g. ferredoxins or polyferredoxins), which then might function as electron donors to oxidoreductases. Based on sequence similarity and genome context analysis, other organisms such as Methanopyrus kandleri, Methanocaldococcus jannaschii, and Methanothermobacter marburgensis also encode Eha-like [NiFe]-hydrogenase-3-type complexes and have very similar eha operon structure. This entry represents small membrane proteins that are predicted to be the EhaF transmembrane subunits of multi-subunit membrane-bound [NiFe]-hydrogenase Eha complexes.
Probab=20.03 E-value=1.1e+02 Score=22.18 Aligned_cols=9 Identities=44% Similarity=0.648 Sum_probs=7.3
Q ss_pred cccCCCChh
Q 028638 154 VYKHPYDLG 162 (206)
Q Consensus 154 ~~~npyd~G 162 (206)
..-+|||||
T Consensus 57 ~pLaPYDRG 65 (153)
T PF09879_consen 57 SPLAPYDRG 65 (153)
T ss_pred CCCCcccCC
Confidence 357899999
Done!