Query 027020
Match_columns 229
No_of_seqs 223 out of 1396
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 03:48:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027020.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027020hhsearch_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 3.4E-33 7.3E-38 250.6 6.3 146 65-217 8-179 (307)
2 PF01529 zf-DHHC: DHHC palmito 100.0 7.1E-33 1.5E-37 228.5 6.2 108 117-224 2-125 (174)
3 COG5273 Uncharacterized protei 100.0 1.3E-31 2.9E-36 241.6 11.8 124 99-222 53-184 (309)
4 KOG1314 DHHC-type Zn-finger pr 100.0 7.6E-32 1.7E-36 241.6 6.2 137 67-205 9-149 (414)
5 KOG1311 DHHC-type Zn-finger pr 100.0 6.7E-31 1.4E-35 235.5 11.1 109 107-215 58-181 (299)
6 KOG1312 DHHC-type Zn-finger pr 100.0 1.1E-28 2.3E-33 216.5 8.9 112 104-216 100-216 (341)
7 KOG0509 Ankyrin repeat and DHH 100.0 3.7E-28 8.1E-33 231.1 13.0 145 77-221 340-494 (600)
8 KOG1313 DHHC-type Zn-finger pr 99.9 2.4E-27 5.1E-32 207.0 9.4 69 147-215 102-170 (309)
9 KOG1311 DHHC-type Zn-finger pr 91.3 0.27 5.9E-06 44.1 4.3 41 161-201 113-164 (299)
10 PF01529 zf-DHHC: DHHC palmito 86.9 2 4.2E-05 34.9 6.0 32 145-176 60-91 (174)
11 PRK04136 rpl40e 50S ribosomal 83.1 0.64 1.4E-05 30.9 1.1 25 145-169 12-36 (48)
12 PF13240 zinc_ribbon_2: zinc-r 81.8 0.94 2E-05 25.4 1.3 21 149-169 1-21 (23)
13 PTZ00303 phosphatidylinositol 80.1 1.2 2.6E-05 45.5 2.3 22 148-169 461-489 (1374)
14 PF06906 DUF1272: Protein of u 77.4 1.3 2.7E-05 30.5 1.1 37 148-187 6-50 (57)
15 PF13248 zf-ribbon_3: zinc-rib 76.9 1.7 3.7E-05 24.9 1.4 22 148-169 3-24 (26)
16 KOG0509 Ankyrin repeat and DHH 76.3 1.4 3.1E-05 43.4 1.6 85 118-204 293-381 (600)
17 PF01363 FYVE: FYVE zinc finge 75.4 1.2 2.6E-05 30.9 0.7 26 146-171 8-35 (69)
18 smart00064 FYVE Protein presen 72.9 3.1 6.7E-05 28.8 2.2 26 146-171 9-36 (68)
19 PF12773 DZR: Double zinc ribb 70.4 4.2 9.1E-05 26.4 2.3 35 146-180 11-48 (50)
20 KOG1313 DHHC-type Zn-finger pr 69.3 30 0.00066 31.4 8.1 84 113-207 79-165 (309)
21 TIGR00155 pqiA_fam integral me 68.6 52 0.0011 31.1 10.1 31 148-178 216-247 (403)
22 PF10571 UPF0547: Uncharacteri 63.3 5.1 0.00011 23.1 1.4 21 149-169 2-22 (26)
23 COG5273 Uncharacterized protei 62.3 14 0.0003 33.7 4.8 51 146-207 122-172 (309)
24 PRK15103 paraquat-inducible me 60.9 1.5E+02 0.0034 28.1 15.8 31 148-178 222-252 (419)
25 KOG1315 Predicted DHHC-type Zn 59.6 13 0.00029 34.0 4.2 45 146-201 122-166 (307)
26 COG1552 RPL40A Ribosomal prote 59.0 1 2.2E-05 30.1 -2.3 25 145-169 12-36 (50)
27 PF06336 Corona_5a: Coronaviru 55.2 17 0.00036 25.1 3.0 22 14-35 4-26 (65)
28 PF12773 DZR: Double zinc ribb 55.0 11 0.00025 24.3 2.2 23 146-168 28-50 (50)
29 KOG3183 Predicted Zn-finger pr 53.0 6 0.00013 34.9 0.8 12 171-182 38-49 (250)
30 COG0348 NapH Polyferredoxin [E 52.0 1.4E+02 0.003 28.0 9.7 14 163-176 246-259 (386)
31 KOG1842 FYVE finger-containing 51.8 4.9 0.00011 38.5 0.0 29 143-171 176-206 (505)
32 KOG1314 DHHC-type Zn-finger pr 49.6 33 0.00072 32.2 5.0 66 123-199 74-146 (414)
33 PF00641 zf-RanBP: Zn-finger i 43.9 6.3 0.00014 23.0 -0.4 22 148-169 5-26 (30)
34 PF01020 Ribosomal_L40e: Ribos 42.6 7.8 0.00017 26.2 -0.1 25 146-170 16-42 (52)
35 cd00065 FYVE FYVE domain; Zinc 42.3 20 0.00043 23.6 1.9 24 148-171 3-28 (57)
36 PF08600 Rsm1: Rsm1-like; Int 40.9 15 0.00032 27.4 1.1 16 172-187 52-67 (91)
37 PF07226 DUF1422: Protein of u 40.6 1.8E+02 0.0039 22.9 8.9 80 29-122 26-111 (117)
38 KOG1729 FYVE finger containing 40.1 10 0.00022 34.4 0.2 28 146-173 167-197 (288)
39 PF13842 Tnp_zf-ribbon_2: DDE_ 37.3 29 0.00064 20.8 1.9 20 149-168 2-23 (32)
40 COG2093 DNA-directed RNA polym 36.5 18 0.00039 25.5 0.9 22 148-169 5-26 (64)
41 PF07649 C1_3: C1-like domain; 36.1 18 0.0004 21.0 0.8 22 149-170 2-24 (30)
42 PF09889 DUF2116: Uncharacteri 35.6 39 0.00085 23.4 2.5 22 148-169 4-26 (59)
43 PF03107 C1_2: C1 domain; Int 35.4 33 0.00072 20.0 1.9 20 149-168 2-22 (30)
44 PF07010 Endomucin: Endomucin; 34.5 75 0.0016 28.1 4.6 30 108-137 200-229 (259)
45 KOG1398 Uncharacterized conser 30.6 24 0.00053 33.5 1.1 47 157-209 10-56 (460)
46 PF00751 DM: DM DNA binding do 29.1 18 0.00038 23.9 -0.1 22 161-182 2-28 (47)
47 PF03116 NQR2_RnfD_RnfE: NQR2, 29.0 4.5E+02 0.0097 24.0 9.3 40 36-79 170-209 (313)
48 PF01437 PSI: Plexin repeat; 29.0 16 0.00034 24.0 -0.3 17 165-181 6-22 (51)
49 PF03597 CcoS: Cytochrome oxid 28.1 95 0.0021 20.2 3.3 16 46-61 3-18 (45)
50 TIGR00847 ccoS cytochrome oxid 27.9 1E+02 0.0022 20.7 3.4 16 46-61 4-19 (51)
51 PRK11056 hypothetical protein; 25.9 3.4E+02 0.0073 21.5 8.6 60 65-126 50-115 (120)
52 PF15202 Adipogenin: Adipogeni 25.9 1.8E+02 0.0039 20.9 4.6 37 192-228 15-51 (81)
53 smart00423 PSI domain found in 25.8 25 0.00054 22.4 0.2 17 165-181 5-21 (46)
54 COG1579 Zn-ribbon protein, pos 25.5 61 0.0013 28.7 2.6 42 119-173 182-233 (239)
55 KOG3611 Semaphorins [Signal tr 25.2 27 0.00058 35.8 0.3 33 161-193 491-531 (737)
56 PRK13755 putative mercury tran 25.0 3.7E+02 0.008 21.6 11.2 47 14-69 27-73 (139)
57 smart00661 RPOL9 RNA polymeras 23.4 60 0.0013 20.8 1.7 22 148-169 1-28 (52)
58 PRK14559 putative protein seri 23.3 49 0.0011 33.3 1.8 35 147-183 15-49 (645)
59 TIGR02484 CitB CitB domain pro 23.0 46 0.00099 31.3 1.4 15 162-180 48-62 (372)
60 smart00547 ZnF_RBZ Zinc finger 22.9 51 0.0011 18.2 1.1 22 148-169 3-24 (26)
61 KOG1409 Uncharacterized conser 22.9 20 0.00042 33.6 -1.0 26 147-172 282-320 (404)
62 smart00301 DM Doublesex DNA-bi 22.4 45 0.00097 22.7 0.9 11 172-182 18-28 (54)
63 PF07282 OrfB_Zn_ribbon: Putat 22.4 70 0.0015 21.9 2.0 25 146-170 27-55 (69)
64 PRK03681 hypA hydrogenase nick 22.1 38 0.00082 26.3 0.6 22 148-169 71-95 (114)
65 PF03503 Chlam_OMP3: Chlamydia 21.6 1.1E+02 0.0024 20.5 2.6 24 148-171 24-47 (55)
66 KOG4399 C2HC-type Zn-finger pr 21.5 14 0.00031 33.1 -2.1 27 150-176 280-306 (325)
67 PRK00432 30S ribosomal protein 21.4 67 0.0014 21.3 1.6 24 146-169 19-45 (50)
68 PF09297 zf-NADH-PPase: NADH p 21.3 51 0.0011 19.4 0.9 23 147-169 3-29 (32)
69 PLN00186 ribosomal protein S26 20.9 44 0.00095 26.0 0.7 16 159-174 18-33 (109)
70 COG3336 Predicted membrane pro 20.8 3.3E+02 0.0071 24.9 6.3 33 100-132 154-187 (299)
71 KOG4317 Predicted Zn-finger pr 20.8 56 0.0012 30.2 1.5 30 148-179 8-43 (383)
72 PRK14559 putative protein seri 20.6 61 0.0013 32.7 1.8 22 149-170 3-24 (645)
73 KOG1841 Smad anchor for recept 20.2 35 0.00077 36.4 0.1 22 149-170 559-582 (1287)
74 KOG1818 Membrane trafficking a 20.2 39 0.00084 34.0 0.4 23 147-169 165-189 (634)
No 1
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=99.98 E-value=3.4e-33 Score=250.56 Aligned_cols=146 Identities=22% Similarity=0.376 Sum_probs=114.9
Q ss_pred hHhhhhccccccchhHHHHHHHHHhhhhhhhccc--------chhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 027020 65 GWCRRLLGVCASAPAFVFFNILFIWGFYIAVVRQ--------AVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPH 136 (229)
Q Consensus 65 ~~~~r~~~~~~~~P~~v~~~~~~~w~~y~~~~~~--------~~~~~~~iif~~l~~l~~~~y~~~~~~dPG~vp~~~~~ 136 (229)
+.++| | .|+ +++.....|.+|+++... .......+.+..+.++..|+|++++++|||.+|....+
T Consensus 8 ~~~~r---~---~~~-~~i~~~~~~~yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~ 80 (307)
T KOG1315|consen 8 SKCLR---W---IPV-LIILLVIGWTYYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRP 80 (307)
T ss_pred hhhhc---c---hhh-eeeeeeEEEEEEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCC
Confidence 45555 4 554 445567788888877653 23455778899999999999999999999999977544
Q ss_pred chhhhc------------------CCCCCCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHHHHH
Q 027020 137 LDKLVE------------------GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLV 198 (229)
Q Consensus 137 ~~~~~~------------------~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~ 198 (229)
+.++++ .++..++|++|+.+||+|||||+.|+|||+||||||||+|||||.+|||+|++|++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~ 160 (307)
T KOG1315|consen 81 SVEDEDSLENGSDNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLF 160 (307)
T ss_pred CcCccccccccCcccccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHH
Confidence 322111 12246899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 027020 199 GFLATEASYVACSAQFVGK 217 (229)
Q Consensus 199 ~~~l~~l~~~~~~~~~i~~ 217 (229)
+..+......+.....+..
T Consensus 161 y~~l~~~~~lv~~~~~~~~ 179 (307)
T KOG1315|consen 161 YTNLYSIYVLVTTLIGFTK 179 (307)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999887665554444443
No 2
>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=99.97 E-value=7.1e-33 Score=228.46 Aligned_cols=108 Identities=22% Similarity=0.328 Sum_probs=88.1
Q ss_pred HHHHHHHhcCCCCCCCCCCCch----------------hhhcCCCCCCCCCCCCCCCCCCcccccccCcccccccccccc
Q 027020 117 IGLCSIMSKDPGLITNEFPHLD----------------KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPA 180 (229)
Q Consensus 117 ~~y~~~~~~dPG~vp~~~~~~~----------------~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpW 180 (229)
++|+++..+|||++|+....++ +..+...+.++|.+|+..||+|||||+.||+||.|+||||||
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~CV~~~DHHC~w 81 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQEEKEEEQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRCVLRFDHHCPW 81 (174)
T ss_pred EEehhhheECCcccCCccccccccccccccccchhhhhhccccCCCCEECcccCCcCCCcceeccccccccccccccchh
Confidence 5788999999999998811110 001123357899999999999999999999999999999999
Q ss_pred ccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCC
Q 027020 181 FGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFDKS 224 (229)
Q Consensus 181 l~nCIG~~N~r~Fi~fL~~~~l~~l~~~~~~~~~i~~~~~~~~~ 224 (229)
+|||||++|||+|++|+++..++.+......+.++.........
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISF 125 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999999999999999999888888777777665554433
No 3
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=99.97 E-value=1.3e-31 Score=241.64 Aligned_cols=124 Identities=21% Similarity=0.327 Sum_probs=101.0
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCc--hhh------hcCCCCCCCCCCCCCCCCCCcccccccCcc
Q 027020 99 AVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHL--DKL------VEGSELGVDPDNENSLSRKRVRYCKICKAH 170 (229)
Q Consensus 99 ~~~~~~~iif~~l~~l~~~~y~~~~~~dPG~vp~~~~~~--~~~------~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~C 170 (229)
.......+.+.+...+..+.|++.+.+|||+.+++.... ++. .......++|.+|+.+||+|||||+.||+|
T Consensus 53 ~~~~~~~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~C 132 (309)
T COG5273 53 SLVVLFIILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRC 132 (309)
T ss_pred cchhhhhhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccCCCCccchhhcch
Confidence 445566677778888999999999999999999653221 111 122446899999999999999999999999
Q ss_pred ccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCC
Q 027020 171 VEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNFD 222 (229)
Q Consensus 171 V~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l~~~~~~~~~i~~~~~~~ 222 (229)
|+||||||||+|||||++|||+|+.|+++.....+.++.....++....+..
T Consensus 133 V~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (309)
T COG5273 133 VLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIR 184 (309)
T ss_pred hhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 9999999999999999999999999999998888877777776666554433
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=99.97 E-value=7.6e-32 Score=241.57 Aligned_cols=137 Identities=19% Similarity=0.231 Sum_probs=104.0
Q ss_pred hhhhccccccchhHHHHHHHHHhhhh--hhhc--ccchhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCchhhhc
Q 027020 67 CRRLLGVCASAPAFVFFNILFIWGFY--IAVV--RQAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKLVE 142 (229)
Q Consensus 67 ~~r~~~~~~~~P~~v~~~~~~~w~~y--~~~~--~~~~~~~~~iif~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~~ 142 (229)
.+|++.|+|-+-+.+...+..+-.+. .+.. ....+....+.|.....|.+++|+.+++++||++|+++.+++..++
T Consensus 9 ~rr~~hwGpi~alsiit~i~~~~~~~n~lww~p~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D~ 88 (414)
T KOG1314|consen 9 FRRFLHWGPITALSIITIITSTTGYMNSLWWFPLSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKDE 88 (414)
T ss_pred hhheeccccHHHHHHHHHHHHHHHHhhhhhhccccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChhH
Confidence 57888985533332222222222222 1211 1234556778888889999999999999999999999887644322
Q ss_pred CCCCCCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHHHHHHHHHHHH
Q 027020 143 GSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEA 205 (229)
Q Consensus 143 ~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l 205 (229)
..-++|.+|+.+|+|||||||.|||||.+|||||||+|||||..||.+|..||++..++++
T Consensus 89 --~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~i 149 (414)
T KOG1314|consen 89 --MFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCI 149 (414)
T ss_pred --HHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcc
Confidence 1246899999999999999999999999999999999999999999999999999888554
No 5
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=6.7e-31 Score=235.47 Aligned_cols=109 Identities=25% Similarity=0.289 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHHHHHHh---cCCCCCCCCCCCchhhh---c---------CCCCCCCCCCCCCCCCCCcccccccCccc
Q 027020 107 LFNIEVAMIIIGLCSIMS---KDPGLITNEFPHLDKLV---E---------GSELGVDPDNENSLSRKRVRYCKICKAHV 171 (229)
Q Consensus 107 if~~l~~l~~~~y~~~~~---~dPG~vp~~~~~~~~~~---~---------~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV 171 (229)
...++....+.....+.. +|||.+|++.+...+.. . .+.+.++|++|+.+||+|||||+.||+||
T Consensus 58 ~~~if~~~~~~~~~~~~~~~~sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV 137 (299)
T KOG1311|consen 58 LGAIFFLLNILNLMLACFRMLSDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCV 137 (299)
T ss_pred HHHHHHHHHHHHHHHHHhcccCCCceecCcccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccc
Confidence 333444444444444444 49999999632111110 0 01246899999999999999999999999
Q ss_pred cccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027020 172 EGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFV 215 (229)
Q Consensus 172 ~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l~~~~~~~~~i 215 (229)
+||||||||+|||||+||||+|+.|++++.++.+......+.++
T Consensus 138 ~rfDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~ 181 (299)
T KOG1311|consen 138 LRFDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYEL 181 (299)
T ss_pred cccCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999987777776555444443
No 6
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.95 E-value=1.1e-28 Score=216.52 Aligned_cols=112 Identities=26% Similarity=0.320 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCchhh--h--cCCC-CCCCCCCCCCCCCCCcccccccCcccccccccc
Q 027020 104 IGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKL--V--EGSE-LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHC 178 (229)
Q Consensus 104 ~~iif~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~--~--~~~~-~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC 178 (229)
.-+.-....++-.+++..+..+|||.+.++.+..... . +.-+ ..+.|+||+.+||.|||||+.|||||+|+||||
T Consensus 100 ~~il~~l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~~kCSTCki~KPARSKHCsiCNrCV~rfDHHC 179 (341)
T KOG1312|consen 100 YLILPYLLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKNVKCSTCKIRKPARSKHCSICNRCVHRFDHHC 179 (341)
T ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCCCccccccCCCccccccchHHHHHHHHhccce
Confidence 3344444556667788889999999999875533211 1 1112 347899999999999999999999999999999
Q ss_pred ccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027020 179 PAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVG 216 (229)
Q Consensus 179 pWl~nCIG~~N~r~Fi~fL~~~~l~~l~~~~~~~~~i~ 216 (229)
.|+|||||++|.|||++|+++. +....+.+....|+.
T Consensus 180 iWiNNCIG~~N~ryF~lFLL~~-i~l~~yaivrlgfi~ 216 (341)
T KOG1312|consen 180 IWINNCIGAWNIRYFLLFLLTL-ISLATYAIVRLGFIV 216 (341)
T ss_pred EeeecccccchHHHHHHHHHHH-HHHHHHHHHHHHhee
Confidence 9999999999999999999987 556666666666663
No 7
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.95 E-value=3.7e-28 Score=231.07 Aligned_cols=145 Identities=23% Similarity=0.338 Sum_probs=116.2
Q ss_pred chh-HHHHHHHHHhhhhhhhcc--cchhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCchhhhc-------CCCC
Q 027020 77 APA-FVFFNILFIWGFYIAVVR--QAVSSLIGGLFNIEVAMIIIGLCSIMSKDPGLITNEFPHLDKLVE-------GSEL 146 (229)
Q Consensus 77 ~P~-~v~~~~~~~w~~y~~~~~--~~~~~~~~iif~~l~~l~~~~y~~~~~~dPG~vp~~~~~~~~~~~-------~~~~ 146 (229)
.|+ ..++.+..+|.++.|... +...+.....+.+.....++.+.+...+|||++|...+...+... .+.+
T Consensus 340 ~~~~~~~~~~~~fw~~~~w~~~i~~~~~~~~~~~~i~~~l~~~~~f~~~~rsDPg~i~~~~~~~~~tIs~l~d~gkf~~e 419 (600)
T KOG0509|consen 340 PPLLSGFFLSTLFWFYYFWFSKITPYTLFDFHYCFIISVLAYFITFGLFLRSDPGFIPTSTEVGRETISQLIDFGKFDLE 419 (600)
T ss_pred chhHHHHHHHHHHHHHHhhheeccchhhhhhHHHHHHHHHHHHHHHHHHhccCCCCCCCchhhHHHHHHHhhcccccccc
Confidence 444 567778888988887652 234455666666667777788888888999999988765533211 1223
Q ss_pred CCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhcccC
Q 027020 147 GVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFVGKSQNF 221 (229)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l~~~~~~~~~i~~~~~~ 221 (229)
+++|.+|.++||.|||||+.|||||.||||||||++||||.+|||+|+.|++++...+.+++.....|+....+.
T Consensus 420 n~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~ 494 (600)
T KOG0509|consen 420 NRFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENA 494 (600)
T ss_pred ccceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchh
Confidence 369999999999999999999999999999999999999999999999999999998888888888888765554
No 8
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.94 E-value=2.4e-27 Score=206.95 Aligned_cols=69 Identities=25% Similarity=0.387 Sum_probs=63.1
Q ss_pred CCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027020 147 GVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVACSAQFV 215 (229)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l~~~~~~~~~i 215 (229)
..+|.+|+.+||||+|||+.|||||+||||||||+|||||.+|||||++|++++.++....++...+.+
T Consensus 102 ~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w 170 (309)
T KOG1313|consen 102 DSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTW 170 (309)
T ss_pred ccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999999999999999999999999999999999999999999988766544333
No 9
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=91.27 E-value=0.27 Score=44.06 Aligned_cols=41 Identities=17% Similarity=0.421 Sum_probs=32.3
Q ss_pred cccccccCccccccccccccccccccccch-----------HHHHHHHHHHH
Q 027020 161 VRYCKICKAHVEGFDHHCPAFGNCIGQNNY-----------FLFIVLLVGFL 201 (229)
Q Consensus 161 s~HC~~C~~CV~r~DHHCpWl~nCIG~~N~-----------r~Fi~fL~~~~ 201 (229)
.|+|..|+..+.++-|||+.-|+||-+.=| |.+-.|+.++.
T Consensus 113 ~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHHC~WvnnCVG~rNyr~F~~f~~ 164 (299)
T KOG1311|consen 113 WKYCDTCQLYRPPRSSHCSVCNNCVLRFDHHCPWLNNCIGERNYRYFVLFLF 164 (299)
T ss_pred eEEcCcCcccCCCCcccchhhcccccccCCCCCCccceECCCchHHHHHHHH
Confidence 688888888888888888888888877655 47778875544
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=86.95 E-value=2 Score=34.86 Aligned_cols=32 Identities=9% Similarity=-0.074 Sum_probs=28.4
Q ss_pred CCCCCCCCCCCCCCCCcccccccCcccccccc
Q 027020 145 ELGVDPDNENSLSRKRVRYCKICKAHVEGFDH 176 (229)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DH 176 (229)
.....|+.|+.-...+-|||..-|.||.+..|
T Consensus 60 ~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~ 91 (174)
T PF01529_consen 60 PRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH 91 (174)
T ss_pred CcceeccccccccccccccchhhccccccccH
Confidence 35678999999999999999999999998877
No 11
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=83.08 E-value=0.64 Score=30.92 Aligned_cols=25 Identities=16% Similarity=-0.001 Sum_probs=22.1
Q ss_pred CCCCCCCCCCCCCCCCcccccccCc
Q 027020 145 ELGVDPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
....+|..|..+-|+|+..|+.||.
T Consensus 12 ~~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 12 FNKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred hcccchhcccCCCCccccccccCCC
Confidence 3457899999999999999999875
No 12
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=81.77 E-value=0.94 Score=25.40 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=18.1
Q ss_pred CCCCCCCCCCCCcccccccCc
Q 027020 149 DPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
+|+.|...-++.++.|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 588898888899999999875
No 13
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=80.06 E-value=1.2 Score=45.50 Aligned_cols=22 Identities=14% Similarity=0.166 Sum_probs=18.1
Q ss_pred CCCCCCCCCCC-------CCcccccccCc
Q 027020 148 VDPDNENSLSR-------KRVRYCKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP-------~Rs~HC~~C~~ 169 (229)
+.|..|+..-. .|-||||.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 56999987664 38999999987
No 14
>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=77.38 E-value=1.3 Score=30.52 Aligned_cols=37 Identities=22% Similarity=0.416 Sum_probs=29.2
Q ss_pred CCCCCCCCCCCCCc-------ccccccCcccccc-ccccccccccccc
Q 027020 148 VDPDNENSLSRKRV-------RYCKICKAHVEGF-DHHCPAFGNCIGQ 187 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs-------~HC~~C~~CV~r~-DHHCpWl~nCIG~ 187 (229)
.-|+.|...-|+.| +-|..|..|+... +++|| ||=|.
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 34888887666664 6688999999998 99999 77664
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=76.89 E-value=1.7 Score=24.87 Aligned_cols=22 Identities=18% Similarity=0.283 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCCCcccccccCc
Q 027020 148 VDPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
.+|..|...-++.++.|+.||.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5788898877888888888874
No 16
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=76.32 E-value=1.4 Score=43.42 Aligned_cols=85 Identities=14% Similarity=-0.169 Sum_probs=58.4
Q ss_pred HHHHHHhcCCCCCCCCCCCchhhh----cCCCCCCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHH
Q 027020 118 GLCSIMSKDPGLITNEFPHLDKLV----EGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLF 193 (229)
Q Consensus 118 ~y~~~~~~dPG~vp~~~~~~~~~~----~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~F 193 (229)
..+..+..+||++-.... .-..+ ..-.....|.++....+.+..++..+-.+...+++||+|+. +|+.+|...+
T Consensus 293 ~~~~~~~~~~g~i~~~~~-~w~i~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~ 370 (600)
T KOG0509|consen 293 LFYFISSWLPGVIFLINS-LWLIKGLALGKLVLTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDF 370 (600)
T ss_pred HHHHHHhhccchhhhhhh-HHHHhhhhhhhhhhheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhh
Confidence 334455567777754332 10000 11112457888999999999999999999999999999999 9999998866
Q ss_pred HHHHHHHHHHH
Q 027020 194 IVLLVGFLATE 204 (229)
Q Consensus 194 i~fL~~~~l~~ 204 (229)
....+...+..
T Consensus 371 ~~~~i~~~l~~ 381 (600)
T KOG0509|consen 371 HYCFIISVLAY 381 (600)
T ss_pred HHHHHHHHHHH
Confidence 55544433333
No 17
>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=75.45 E-value=1.2 Score=30.95 Aligned_cols=26 Identities=15% Similarity=0.085 Sum_probs=12.9
Q ss_pred CCCCCCCCCC--CCCCCcccccccCccc
Q 027020 146 LGVDPDNENS--LSRKRVRYCKICKAHV 171 (229)
Q Consensus 146 ~~~~C~~C~~--~kP~Rs~HC~~C~~CV 171 (229)
+...|..|+. .--.|-|||+.||+-|
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVV 35 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEE
Confidence 3466888874 2347889999999865
No 18
>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 PF12773 DZR: Double zinc ribbon
Probab=70.36 E-value=4.2 Score=26.39 Aligned_cols=35 Identities=14% Similarity=0.152 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCCC---CCcccccccCcccccccccccc
Q 027020 146 LGVDPDNENSLSR---KRVRYCKICKAHVEGFDHHCPA 180 (229)
Q Consensus 146 ~~~~C~~C~~~kP---~Rs~HC~~C~~CV~r~DHHCpW 180 (229)
..++|..|....+ ...+.|+.|+.=+...+..|+.
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 3567888876555 3456788888877777777764
No 20
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=69.30 E-value=30 Score=31.36 Aligned_cols=84 Identities=17% Similarity=0.024 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCCCch---hhhcCCCCCCCCCCCCCCCCCCcccccccCccccccccccccccccccccc
Q 027020 113 AMIIIGLCSIMSKDPGLITNEFPHLD---KLVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNN 189 (229)
Q Consensus 113 ~l~~~~y~~~~~~dPG~vp~~~~~~~---~~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N 189 (229)
....+.|+++....|--.|..+...- -...+......|+.|+.=.-.--|||+-=|+||.-+.| +-
T Consensus 79 ~nvi~hy~ka~t~pPvgn~~~~~~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ry 147 (309)
T KOG1313|consen 79 SNVIFHYYKARTKPPVGNPGLENDSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RY 147 (309)
T ss_pred HHHHHhheeecccCCcCCCCCccccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccc-----------hh
Confidence 34445567776665522222111110 01122334567888876555667999999999998888 55
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 027020 190 YFLFIVLLVGFLATEASY 207 (229)
Q Consensus 190 ~r~Fi~fL~~~~l~~l~~ 207 (229)
.-.|+.++.-......+.
T Consensus 148 FFlFl~~ltlat~~~~i~ 165 (309)
T KOG1313|consen 148 FFLFLFYLTLATSYAAIM 165 (309)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 677888886555544444
No 21
>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=68.57 E-value=52 Score=31.13 Aligned_cols=31 Identities=6% Similarity=0.068 Sum_probs=22.6
Q ss_pred CCCCCCCC-CCCCCcccccccCcccccccccc
Q 027020 148 VDPDNENS-LSRKRVRYCKICKAHVEGFDHHC 178 (229)
Q Consensus 148 ~~C~~C~~-~kP~Rs~HC~~C~~CV~r~DHHC 178 (229)
.-|+.|.. .+|....||++||.-..+.+++.
T Consensus 216 ~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~s 247 (403)
T TIGR00155 216 RSCSACHTTILPAQEPVCPRCSTPLYVRRRNS 247 (403)
T ss_pred CcCCCCCCccCCCCCcCCcCCCCcccCCCCCC
Confidence 45999997 45666678999988776666544
No 22
>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=63.26 E-value=5.1 Score=23.14 Aligned_cols=21 Identities=10% Similarity=0.267 Sum_probs=17.6
Q ss_pred CCCCCCCCCCCCcccccccCc
Q 027020 149 DPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
.|+.|...-|.-++-|+.||.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCC
Confidence 588888888888888888874
No 23
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=62.31 E-value=14 Score=33.74 Aligned_cols=51 Identities=10% Similarity=-0.067 Sum_probs=34.6
Q ss_pred CCCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHHHHHHHHHHHHHH
Q 027020 146 LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASY 207 (229)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l~~ 207 (229)
....|..|+.=-...-|||..=|+||.+..| +=.-.|++++....+..+..
T Consensus 122 RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~ 172 (309)
T COG5273 122 RSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLS 172 (309)
T ss_pred CCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHH
Confidence 4567888887777778888888888887665 44566666665444444433
No 24
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=60.94 E-value=1.5e+02 Score=28.13 Aligned_cols=31 Identities=6% Similarity=-0.006 Sum_probs=23.7
Q ss_pred CCCCCCCCCCCCCcccccccCcccccccccc
Q 027020 148 VDPDNENSLSRKRVRYCKICKAHVEGFDHHC 178 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHC 178 (229)
..|+.|....|....||++||.-..+.+++.
T Consensus 222 ~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 222 RSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 4599999887777778999988776655543
No 25
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=59.60 E-value=13 Score=33.95 Aligned_cols=45 Identities=13% Similarity=0.002 Sum_probs=31.5
Q ss_pred CCCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHHHHHHHH
Q 027020 146 LGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFL 201 (229)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~ 201 (229)
....|+.|+.=--..-|||+.=|+||.-.++ +=.-.|+.|.....
T Consensus 122 RaHHCsvC~rCvLKmDHHCpWi~nCVgf~Ny-----------KfF~lfl~y~~l~~ 166 (307)
T KOG1315|consen 122 RAHHCSVCNRCVLKMDHHCPWINNCVGFRNY-----------KFFLLFLFYTNLYS 166 (307)
T ss_pred ccccchhhhhhhhccccCCcceeceecccch-----------HHHHHHHHHHHHHH
Confidence 4567888876666778999999999986655 44455555554443
No 26
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=59.04 E-value=1 Score=30.08 Aligned_cols=25 Identities=12% Similarity=0.004 Sum_probs=21.7
Q ss_pred CCCCCCCCCCCCCCCCcccccccCc
Q 027020 145 ELGVDPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 145 ~~~~~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
+...+|..|..+-|+|+.-|+.|+.
T Consensus 12 ~~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 12 FNKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hhHHHHHHhcCCCCcchhHHhhccC
Confidence 3456899999999999999998875
No 27
>PF06336 Corona_5a: Coronavirus 5a protein; InterPro: IPR009404 This family consists of several Coronavirus 5a proteins. The function of this family is unknown [].
Probab=55.21 E-value=17 Score=25.11 Aligned_cols=22 Identities=45% Similarity=0.615 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHH-HHHHHhhhh
Q 027020 14 LPLICRCIISCIL-VLLTQLTLS 35 (229)
Q Consensus 14 ~~~~~~~~~~~~~-~~~~~~~~~ 35 (229)
+..++|+.|||+= +||||+-|.
T Consensus 4 ltsfgra~iscyksllltqlrvl 26 (65)
T PF06336_consen 4 LTSFGRAFISCYKSLLLTQLRVL 26 (65)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHH
Confidence 4568999999995 567887663
No 28
>PF12773 DZR: Double zinc ribbon
Probab=55.01 E-value=11 Score=24.30 Aligned_cols=23 Identities=13% Similarity=0.192 Sum_probs=20.6
Q ss_pred CCCCCCCCCCCCCCCcccccccC
Q 027020 146 LGVDPDNENSLSRKRVRYCKICK 168 (229)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~HC~~C~ 168 (229)
...+|..|....++.++.|..||
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCccc
Confidence 45789999999999999999986
No 29
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=52.98 E-value=6 Score=34.92 Aligned_cols=12 Identities=33% Similarity=0.332 Sum_probs=10.0
Q ss_pred cccccccccccc
Q 027020 171 VEGFDHHCPAFG 182 (229)
Q Consensus 171 V~r~DHHCpWl~ 182 (229)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 578899999975
No 30
>COG0348 NapH Polyferredoxin [Energy production and conversion]
Probab=51.96 E-value=1.4e+02 Score=28.02 Aligned_cols=14 Identities=21% Similarity=0.508 Sum_probs=11.3
Q ss_pred cccccCcccccccc
Q 027020 163 YCKICKAHVEGFDH 176 (229)
Q Consensus 163 HC~~C~~CV~r~DH 176 (229)
-|-.|++|+.--||
T Consensus 246 ~CI~C~~CidaCd~ 259 (386)
T COG0348 246 ECIGCGRCIDACDD 259 (386)
T ss_pred ccccHhhHhhhCCH
Confidence 49999999987665
No 31
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=51.83 E-value=4.9 Score=38.53 Aligned_cols=29 Identities=10% Similarity=0.116 Sum_probs=21.7
Q ss_pred CCCCCCCCCCCCCC--CCCCcccccccCccc
Q 027020 143 GSELGVDPDNENSL--SRKRVRYCKICKAHV 171 (229)
Q Consensus 143 ~~~~~~~C~~C~~~--kP~Rs~HC~~C~~CV 171 (229)
++....+|+.|... -..|-||||.||+-+
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred CCCcccccccccchhhhHHHhhhhhhcchHH
Confidence 34567899999853 356789999999854
No 32
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=49.63 E-value=33 Score=32.19 Aligned_cols=66 Identities=11% Similarity=-0.062 Sum_probs=43.7
Q ss_pred HhcCCCCCCCCCCCchh-------hhcCCCCCCCCCCCCCCCCCCcccccccCccccccccccccccccccccchHHHHH
Q 027020 123 MSKDPGLITNEFPHLDK-------LVEGSELGVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIV 195 (229)
Q Consensus 123 ~~~dPG~vp~~~~~~~~-------~~~~~~~~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~ 195 (229)
-+..||.-|++..++.- +..+......|.+|+.=.-.--|||+--|.||.-..| .-.-+|++
T Consensus 74 G~vp~~wkPe~~~D~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh-----------~~F~~FLl 142 (414)
T KOG1314|consen 74 GFVPLGWKPENPKDEMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANH-----------AYFLRFLL 142 (414)
T ss_pred CCCCCCCCCCCChhHHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhccccccc-----------HHHHHHHH
Confidence 34578988876554321 1122334567888886555567999999999976555 33567777
Q ss_pred HHHH
Q 027020 196 LLVG 199 (229)
Q Consensus 196 fL~~ 199 (229)
|...
T Consensus 143 f~iv 146 (414)
T KOG1314|consen 143 FSIV 146 (414)
T ss_pred HHHH
Confidence 7765
No 33
>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=43.87 E-value=6.3 Score=23.01 Aligned_cols=22 Identities=14% Similarity=0.144 Sum_probs=15.5
Q ss_pred CCCCCCCCCCCCCcccccccCc
Q 027020 148 VDPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
-.|..|...-++++.+|..|+.
T Consensus 5 W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 5 WKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp EEETTTTEEEESSSSB-TTT--
T ss_pred ccCCCCcCCchHHhhhhhCcCC
Confidence 3588888888888888888874
No 34
>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=42.62 E-value=7.8 Score=26.20 Aligned_cols=25 Identities=12% Similarity=0.078 Sum_probs=16.6
Q ss_pred CCCCCCCCCCCCCCCcccccc--cCcc
Q 027020 146 LGVDPDNENSLSRKRVRYCKI--CKAH 170 (229)
Q Consensus 146 ~~~~C~~C~~~kP~Rs~HC~~--C~~C 170 (229)
+...|..|..+-|+|+..|+. ||.+
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 346899999999999999998 8764
No 35
>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=42.33 E-value=20 Score=23.55 Aligned_cols=24 Identities=13% Similarity=0.149 Sum_probs=15.8
Q ss_pred CCCCCCCC--CCCCCcccccccCccc
Q 027020 148 VDPDNENS--LSRKRVRYCKICKAHV 171 (229)
Q Consensus 148 ~~C~~C~~--~kP~Rs~HC~~C~~CV 171 (229)
+.|..|.. -.-.|.|||+.||+-+
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~ 28 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIF 28 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCc
Confidence 34666653 2356789999998754
No 36
>PF08600 Rsm1: Rsm1-like; InterPro: IPR013909 This entry contains Nuclear-interacting partner of ALK (NIPA) and NIPA like proteins, as well as mRNA export factor Rsm1, all of which contain a C3HC-type zinc finger. The domain represented in this entry is found C-terminal to the zinc-finger like domain IPR012935 from INTERPRO. Rsm1 is involved in mRNA export from the nucleus []. NIPA is an essential component of an SCF-type E3 ligase complex, SCF(NIPA), a complex that controls mitotic entry by mediating ubiquitination and subsequent degradation of cyclin B1 (CCNB1). Its cell-cycle-dependent phosphorylation regulates the assembly of the SCF(NIPA) complex, restricting CCNB1 ubiquitination activity to interphase. Its inactivation results in nuclear accumulation of CCNB1 in interphase and premature mitotic entry [].
Probab=40.86 E-value=15 Score=27.44 Aligned_cols=16 Identities=19% Similarity=0.301 Sum_probs=11.3
Q ss_pred cccccccccccccccc
Q 027020 172 EGFDHHCPAFGNCIGQ 187 (229)
Q Consensus 172 ~r~DHHCpWl~nCIG~ 187 (229)
..|-.||||++.-...
T Consensus 52 ~eHr~~CPwv~~~~q~ 67 (91)
T PF08600_consen 52 EEHREYCPWVNPSTQS 67 (91)
T ss_pred ccccccCCccCCcccc
Confidence 4455789999876543
No 37
>PF07226 DUF1422: Protein of unknown function (DUF1422); InterPro: IPR009867 This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=40.62 E-value=1.8e+02 Score=22.92 Aligned_cols=80 Identities=23% Similarity=0.290 Sum_probs=37.9
Q ss_pred HHHhhhhhhhHhhhchhHHHHHHHHHHHHHHHHhhhhHhhhhcccc--ccchh---HHHHHHHHHhhhhhhhcccchhh-
Q 027020 29 LTQLTLSLVPRFFAASPFIVQFALSGLVLLLVQTLCGWCRRLLGVC--ASAPA---FVFFNILFIWGFYIAVVRQAVSS- 102 (229)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~r~~~~~--~~~P~---~v~~~~~~~w~~y~~~~~~~~~~- 102 (229)
++-++.+.+| ||-. |+..++ ++++ .+-||.++.. ...|. .-|+++.+.++.+.=.-.|..+.
T Consensus 26 ~s~L~~s~Vp--FSiF------PlIaLv-Lavy---~LyQ~Yl~~~m~eg~P~~a~acFflG~f~ySA~vraqyPeiGSN 93 (117)
T PF07226_consen 26 FSALFSSEVP--FSIF------PLIALV-LAVY---CLYQRYLNHPMPEGTPKLALACFFLGLFGYSAFVRAQYPEIGSN 93 (117)
T ss_pred hHHHHhcccc--cHHH------HHHHHH-HHHH---HHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHhchhhhhh
Confidence 4444555554 3433 333333 3444 5667777643 13443 45666666666555443454332
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027020 103 LIGGLFNIEVAMIIIGLCSI 122 (229)
Q Consensus 103 ~~~iif~~l~~l~~~~y~~~ 122 (229)
+...+. ..++.+|..+|.
T Consensus 94 Ffp~il--~l~L~~Wi~~kl 111 (117)
T PF07226_consen 94 FFPSIL--CLILVFWIGYKL 111 (117)
T ss_pred HHHHHH--HHHHHHHHHHHH
Confidence 222222 224455555554
No 38
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=40.12 E-value=10 Score=34.42 Aligned_cols=28 Identities=14% Similarity=0.086 Sum_probs=18.8
Q ss_pred CCCCCCCCCC-C--CCCCcccccccCccccc
Q 027020 146 LGVDPDNENS-L--SRKRVRYCKICKAHVEG 173 (229)
Q Consensus 146 ~~~~C~~C~~-~--kP~Rs~HC~~C~~CV~r 173 (229)
+...|..|.. . --.|-|||+.||.-|-.
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~ 197 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCA 197 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhh
Confidence 3456777765 2 24577888888887655
No 39
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=37.33 E-value=29 Score=20.83 Aligned_cols=20 Identities=15% Similarity=0.343 Sum_probs=12.0
Q ss_pred CCCCCCCCCCCC-c-ccccccC
Q 027020 149 DPDNENSLSRKR-V-RYCKICK 168 (229)
Q Consensus 149 ~C~~C~~~kP~R-s-~HC~~C~ 168 (229)
.|..|...+..+ | .-|+.|+
T Consensus 2 rC~vC~~~k~rk~T~~~C~~C~ 23 (32)
T PF13842_consen 2 RCKVCSKKKRRKDTRYMCSKCD 23 (32)
T ss_pred CCeECCcCCccceeEEEccCCC
Confidence 366666655544 4 4488886
No 40
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=36.54 E-value=18 Score=25.47 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCCCcccccccCc
Q 027020 148 VDPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
+-|..|+...|+.++-|+.|+.
T Consensus 5 kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 5 KACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred HHHhhccccCCCCCccCCCCCC
Confidence 4588899999999999999976
No 41
>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=36.10 E-value=18 Score=21.03 Aligned_cols=22 Identities=14% Similarity=0.107 Sum_probs=9.1
Q ss_pred CCCCCCCCCCC-CcccccccCcc
Q 027020 149 DPDNENSLSRK-RVRYCKICKAH 170 (229)
Q Consensus 149 ~C~~C~~~kP~-Rs~HC~~C~~C 170 (229)
.|..|+..... ...+|+.|+--
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~ 24 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFD 24 (30)
T ss_dssp --TTTS----S--EEE-TTT---
T ss_pred cCCcCCCcCCCCceEECccCCCc
Confidence 47788876666 78889988753
No 42
>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=35.65 E-value=39 Score=23.39 Aligned_cols=22 Identities=9% Similarity=0.169 Sum_probs=14.1
Q ss_pred CCCCCCCCCCCCCccccc-ccCc
Q 027020 148 VDPDNENSLSRKRVRYCK-ICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~-~C~~ 169 (229)
+.|..|...-|+.-..|+ .|+.
T Consensus 4 kHC~~CG~~Ip~~~~fCS~~C~~ 26 (59)
T PF09889_consen 4 KHCPVCGKPIPPDESFCSPKCRE 26 (59)
T ss_pred CcCCcCCCcCCcchhhhCHHHHH
Confidence 457777776676666664 5544
No 43
>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=35.45 E-value=33 Score=20.03 Aligned_cols=20 Identities=15% Similarity=-0.056 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCC-cccccccC
Q 027020 149 DPDNENSLSRKR-VRYCKICK 168 (229)
Q Consensus 149 ~C~~C~~~kP~R-s~HC~~C~ 168 (229)
.|..|+...... ..||+.|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~ 22 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC 22 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC
Confidence 477787766666 78888877
No 44
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=34.48 E-value=75 Score=28.07 Aligned_cols=30 Identities=17% Similarity=0.100 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCCCCc
Q 027020 108 FNIEVAMIIIGLCSIMSKDPGLITNEFPHL 137 (229)
Q Consensus 108 f~~l~~l~~~~y~~~~~~dPG~vp~~~~~~ 137 (229)
..++.+..+-.|..+.-+|||...+..+..
T Consensus 200 itl~vf~LvgLyr~C~k~dPg~p~~g~~qp 229 (259)
T PF07010_consen 200 ITLSVFTLVGLYRMCWKTDPGTPENGPDQP 229 (259)
T ss_pred HHHHHHHHHHHHHHhhcCCCCCcccCCCCC
Confidence 334445555567777889999776554433
No 45
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.57 E-value=24 Score=33.45 Aligned_cols=47 Identities=26% Similarity=0.270 Sum_probs=29.1
Q ss_pred CCCCcccccccCccccccccccccccccccccchHHHHHHHHHHHHHHHHHHH
Q 027020 157 SRKRVRYCKICKAHVEGFDHHCPAFGNCIGQNNYFLFIVLLVGFLATEASYVA 209 (229)
Q Consensus 157 kP~Rs~HC~~C~~CV~r~DHHCpWl~nCIG~~N~r~Fi~fL~~~~l~~l~~~~ 209 (229)
+-.|-.||..|+. +|| +|+.||||.-=.-.-..+.+.+-++.+++.+
T Consensus 10 sl~~p~l~~tC~e----~~h--~w~~~c~ga~~~~ll~~~~~~l~~y~~~ya~ 56 (460)
T KOG1398|consen 10 SLARPSLAETCDE----ADH--SWVANCIGALCQSLLLSYGVRLGIYILLYAF 56 (460)
T ss_pred hhcCchHhhhhhh----ccC--CcccchhHHHHHHHHhhcceehhhHHHHHHH
Confidence 3445567777764 677 7999999985544444444445555555543
No 46
>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=29.12 E-value=18 Score=23.94 Aligned_cols=22 Identities=27% Similarity=0.395 Sum_probs=8.8
Q ss_pred ccccccc---Ccccccccc--cccccc
Q 027020 161 VRYCKIC---KAHVEGFDH--HCPAFG 182 (229)
Q Consensus 161 s~HC~~C---~~CV~r~DH--HCpWl~ 182 (229)
+.+|..| |.=+...+| .|||-+
T Consensus 2 ~p~C~RCrnHG~~~~lKgHk~~C~~~~ 28 (47)
T PF00751_consen 2 SPTCARCRNHGVIVPLKGHKRYCPFRD 28 (47)
T ss_dssp -SS-HHHHTTT---TTTT-GGG-TTTT
T ss_pred CCcCcchhcCCcccchhhhccccCcCC
Confidence 3344444 444555666 699875
No 47
>PF03116 NQR2_RnfD_RnfE: NQR2, RnfD, RnfE family; InterPro: IPR004338 This family of proteins describes the Nqr2 (NqrB) subunit of the bacterial 6-subunit sodium-translocating NADH-ubiquinone oxidoreductase (i.e. a respiration linked sodium pump). In Vibrio cholerae, it negatively regulates the expression of virulence factors through inhibiting (by an unknown mechanism) the transcription of the transcriptional activator ToxT []. The family also includes RnfD, which is involved in nitrogen fixation. The similarity of RnfD to NADH-ubiquinone oxidoreductases was previously noted [].; GO: 0006810 transport, 0016020 membrane
Probab=29.05 E-value=4.5e+02 Score=23.99 Aligned_cols=40 Identities=18% Similarity=0.086 Sum_probs=22.9
Q ss_pred hhhHhhhchhHHHHHHHHHHHHHHHHhhhhHhhhhccccccchh
Q 027020 36 LVPRFFAASPFIVQFALSGLVLLLVQTLCGWCRRLLGVCASAPA 79 (229)
Q Consensus 36 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~r~~~~~~~~P~ 79 (229)
....++.+.+--++-.....++.|-. .=+.+|...| ..|.
T Consensus 170 ~~~lflg~~~g~~Ge~~~l~ll~ggi--~L~~~r~i~w--~ip~ 209 (313)
T PF03116_consen 170 YLDLFLGNIPGSIGETSALALLLGGI--YLLARRVIRW--RIPL 209 (313)
T ss_pred HHHHHhCCCCChHhHHHHHHHHHHHH--HHHHHHhcCh--hhHH
Confidence 44455665555555554444443333 2378889998 5665
No 48
>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=29.02 E-value=16 Score=23.95 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=12.7
Q ss_pred cccCccccccccccccc
Q 027020 165 KICKAHVEGFDHHCPAF 181 (229)
Q Consensus 165 ~~C~~CV~r~DHHCpWl 181 (229)
..|+.|+.-.|-+|.|-
T Consensus 6 ~sC~~Cl~~~dp~CgWc 22 (51)
T PF01437_consen 6 TSCSSCLSSRDPYCGWC 22 (51)
T ss_dssp SSHHHHHHSTCTTEEEE
T ss_pred CcHHHHHcCCCcCcccc
Confidence 66777777777777775
No 49
>PF03597 CcoS: Cytochrome oxidase maturation protein cbb3-type; InterPro: IPR004714 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO). Expression of cytochrome cbb3 oxidase allows human pathogens to colonise anoxic tissues and agronomically important diazotrophs to sustain nitrogen fixation []. Genes encoding a cytochrome cbb3 oxidase were initially designated fixNOQP (ccoNOQP), the ccoNOQP operon is always found close to a second gene cluster, known as fixGHIS (ccoGHIS) whose expression is necessary for the assembly of a functional cbb3 oxidase. On the basis of their derived amino acid sequences each of the four proteins encoded by the ccoGHIS operon are thought to be membrane-bound. It has been suggested that they may function in concert as a multi-subunit complex, possibly playing a role in the uptake and metabolism of copper required for the assembly of the binuclear centre of cytochrome cbb3 oxidase.
Probab=28.07 E-value=95 Score=20.21 Aligned_cols=16 Identities=13% Similarity=0.193 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 027020 46 FIVQFALSGLVLLLVQ 61 (229)
Q Consensus 46 ~~~~~p~~~~~~~~~~ 61 (229)
+++++|++.++..+..
T Consensus 3 l~~lip~sl~l~~~~l 18 (45)
T PF03597_consen 3 LYILIPVSLILGLIAL 18 (45)
T ss_pred hhHHHHHHHHHHHHHH
Confidence 5677777777654444
No 50
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=27.90 E-value=1e+02 Score=20.73 Aligned_cols=16 Identities=13% Similarity=-0.025 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 027020 46 FIVQFALSGLVLLLVQ 61 (229)
Q Consensus 46 ~~~~~p~~~~~~~~~~ 61 (229)
+++++|++.++..+..
T Consensus 4 l~~LIpiSl~l~~~~l 19 (51)
T TIGR00847 4 LTILIPISLLLGGVGL 19 (51)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5777787777654444
No 51
>PRK11056 hypothetical protein; Provisional
Probab=25.91 E-value=3.4e+02 Score=21.52 Aligned_cols=60 Identities=12% Similarity=0.243 Sum_probs=29.9
Q ss_pred hHhhhhcccc--ccchh---HHHHHHHHHhhhhhhhcccchh-hHHHHHHHHHHHHHHHHHHHHHhcC
Q 027020 65 GWCRRLLGVC--ASAPA---FVFFNILFIWGFYIAVVRQAVS-SLIGGLFNIEVAMIIIGLCSIMSKD 126 (229)
Q Consensus 65 ~~~~r~~~~~--~~~P~---~v~~~~~~~w~~y~~~~~~~~~-~~~~iif~~l~~l~~~~y~~~~~~d 126 (229)
.+-||.++.. -..|. .-|+++.+.++.+.=.-.|..+ .+...+.. .++.+|...|....+
T Consensus 50 cLyQ~Yl~~~m~eg~P~~a~acFflG~f~ySA~vraeyPeiGSNF~p~il~--~~L~~Wi~~kl~~~~ 115 (120)
T PRK11056 50 CLHQRYLNRPMPEGLPGLAAACFFLGVFLYSAFVRAEYPEIGSNFFPAVLS--VILVFWIGRKLRNRK 115 (120)
T ss_pred HHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHhcCcccccchHHHHHH--HHHHHHHHHHHhccc
Confidence 5667777653 13443 4566666666655444345433 22222222 245566666655443
No 52
>PF15202 Adipogenin: Adipogenin
Probab=25.89 E-value=1.8e+02 Score=20.89 Aligned_cols=37 Identities=16% Similarity=0.109 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCcC
Q 027020 192 LFIVLLVGFLATEASYVACSAQFVGKSQNFDKSQSEV 228 (229)
Q Consensus 192 ~Fi~fL~~~~l~~l~~~~~~~~~i~~~~~~~~~~s~~ 228 (229)
.|..|-+.+-++.++|..+.+.-+--+++..++.|++
T Consensus 15 sflvfwlclpv~lllfl~ivwlrfllsqdsee~dsd~ 51 (81)
T PF15202_consen 15 SFLVFWLCLPVGLLLFLLIVWLRFLLSQDSEENDSDV 51 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCcce
Confidence 3555555666677777666666666667766666553
No 53
>smart00423 PSI domain found in Plexins, Semaphorins and Integrins.
Probab=25.82 E-value=25 Score=22.37 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=10.1
Q ss_pred cccCccccccccccccc
Q 027020 165 KICKAHVEGFDHHCPAF 181 (229)
Q Consensus 165 ~~C~~CV~r~DHHCpWl 181 (229)
+.|..|+...|-||.|=
T Consensus 5 ~sC~~C~~~~~~~C~Wc 21 (46)
T smart00423 5 TSCSECLLARDPYCAWC 21 (46)
T ss_pred CcHHHHHcCCCCCCCcc
Confidence 44666666666666664
No 54
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=25.49 E-value=61 Score=28.65 Aligned_cols=42 Identities=12% Similarity=0.130 Sum_probs=29.5
Q ss_pred HHHHHhcCCCCCCCCCCCchhhhcCCCCCCCCCCCCC----------CCCCCcccccccCccccc
Q 027020 119 LCSIMSKDPGLITNEFPHLDKLVEGSELGVDPDNENS----------LSRKRVRYCKICKAHVEG 173 (229)
Q Consensus 119 y~~~~~~dPG~vp~~~~~~~~~~~~~~~~~~C~~C~~----------~kP~Rs~HC~~C~~CV~r 173 (229)
-.+....++|.+|- .++.|.-|.+ +++..-.||+.|||-...
T Consensus 182 ri~~~~kg~gvvpl-------------~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRILy~ 233 (239)
T COG1579 182 RIRKNKKGVGVVPL-------------EGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRILYY 233 (239)
T ss_pred HHHhcCCCceEEee-------------cCCcccCCeeeecHHHHHHHhcCCCCccCCccchHHHh
Confidence 33444457777763 4577999973 667788999999996554
No 55
>KOG3611 consensus Semaphorins [Signal transduction mechanisms]
Probab=25.16 E-value=27 Score=35.79 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=25.2
Q ss_pred ccccc---ccCcccccccccccccc---ccc--cccchHHH
Q 027020 161 VRYCK---ICKAHVEGFDHHCPAFG---NCI--GQNNYFLF 193 (229)
Q Consensus 161 s~HC~---~C~~CV~r~DHHCpWl~---nCI--G~~N~r~F 193 (229)
-|+|. .|..|....|-||.|-+ .|+ +..|.|.+
T Consensus 491 l~~C~~y~~C~dcclarDPYCAWd~~~~~C~~~~~~~~rs~ 531 (737)
T KOG3611|consen 491 LARCSRYGSCADCCLARDPYCAWDGVNSKCSLLSPTNRRSV 531 (737)
T ss_pred hhHhhcccchhhhhhccCCCccccCCCCcceECCCCcccch
Confidence 57888 89998888999999998 787 33344444
No 56
>PRK13755 putative mercury transport protein MerC; Provisional
Probab=24.96 E-value=3.7e+02 Score=21.64 Aligned_cols=47 Identities=19% Similarity=0.235 Sum_probs=33.1
Q ss_pred hhHHHHHHHHHHHHHHHHhhhhhhhHhhhchhHHHHHHHHHHHHHHHHhhhhHhhh
Q 027020 14 LPLICRCIISCILVLLTQLTLSLVPRFFAASPFIVQFALSGLVLLLVQTLCGWCRR 69 (229)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~r 69 (229)
.|.+.+-=++-+|-+|+|.-=..+-+| +|+-+.+.+..+..||+.+|
T Consensus 27 FPAlASLGAAIGLGFLsq~EGLFi~~L---------lPlFA~iALlanalgW~sHR 73 (139)
T PRK13755 27 FPALASLGAAIGLGFLSQYEGLFISTL---------LPLFAAIALLANALGWFSHR 73 (139)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Confidence 466666667788999999877666555 45556666666777888666
No 57
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=23.43 E-value=60 Score=20.80 Aligned_cols=22 Identities=9% Similarity=0.055 Sum_probs=12.0
Q ss_pred CCCCCCCCCCCCC------cccccccCc
Q 027020 148 VDPDNENSLSRKR------VRYCKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~R------s~HC~~C~~ 169 (229)
++|+.|.....++ -..|+.||.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~ 28 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCGY 28 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCCC
Confidence 3677776433221 345777774
No 58
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=23.33 E-value=49 Score=33.35 Aligned_cols=35 Identities=20% Similarity=0.309 Sum_probs=18.5
Q ss_pred CCCCCCCCCCCCCCcccccccCccccccccccccccc
Q 027020 147 GVDPDNENSLSRKRVRYCKICKAHVEGFDHHCPAFGN 183 (229)
Q Consensus 147 ~~~C~~C~~~kP~Rs~HC~~C~~CV~r~DHHCpWl~n 183 (229)
.+||..|...-+ .+.|+.||.=+..-..+|+=-|.
T Consensus 15 akFC~~CG~~l~--~~~Cp~CG~~~~~~~~fC~~CG~ 49 (645)
T PRK14559 15 NRFCQKCGTSLT--HKPCPQCGTEVPVDEAHCPNCGA 49 (645)
T ss_pred CccccccCCCCC--CCcCCCCCCCCCcccccccccCC
Confidence 456666644322 24566666666655566654333
No 59
>TIGR02484 CitB CitB domain protein. CobZ is essential for cobalamin biosynthesis (by knockout of the R. capsulatus gene ) and is complemented by the characterized precorrin 3B synthase CobG. The enzyme has been shown to contain flavin, heme and Fe-S cluster cofactors and is believed to require dioxygen as a substrate. This model identifies the C-terminal domain of the R. capsulatus CobZ, which, in most other species exists as a separate gene adjacent to CobZ.
Probab=22.96 E-value=46 Score=31.35 Aligned_cols=15 Identities=27% Similarity=0.711 Sum_probs=13.0
Q ss_pred ccccccCcccccccccccc
Q 027020 162 RYCKICKAHVEGFDHHCPA 180 (229)
Q Consensus 162 ~HC~~C~~CV~r~DHHCpW 180 (229)
+.|..|++| +|+||-
T Consensus 48 ~lChnC~~C----~~~CPy 62 (372)
T TIGR02484 48 HLCHDCQSC----WHDCQY 62 (372)
T ss_pred HHCcCcccc----cccCcC
Confidence 779999999 578997
No 60
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=22.87 E-value=51 Score=18.19 Aligned_cols=22 Identities=18% Similarity=0.119 Sum_probs=16.9
Q ss_pred CCCCCCCCCCCCCcccccccCc
Q 027020 148 VDPDNENSLSRKRVRYCKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~ 169 (229)
-.|..|...-.+++..|..|+.
T Consensus 3 W~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 3 WECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred ccCCCCCCcChhhhccccccCC
Confidence 4588888888788888888764
No 61
>KOG1409 consensus Uncharacterized conserved protein, contains WD40 repeats and FYVE domains [Function unknown]
Probab=22.87 E-value=20 Score=33.61 Aligned_cols=26 Identities=19% Similarity=0.183 Sum_probs=20.4
Q ss_pred CCCCCCCCC-------------CCCCCcccccccCcccc
Q 027020 147 GVDPDNENS-------------LSRKRVRYCKICKAHVE 172 (229)
Q Consensus 147 ~~~C~~C~~-------------~kP~Rs~HC~~C~~CV~ 172 (229)
.+-|+.|+. .-+.|-|||+.|++-|-
T Consensus 282 s~~cQ~c~qpffwn~~~m~~~k~~glr~h~crkcg~avc 320 (404)
T KOG1409|consen 282 SDSCQKCNQPFFWNFRQMWDRKQLGLRQHHCRKCGKAVC 320 (404)
T ss_pred cchhhhhCchHHHHHHHHHhhhhhhhhhhhhhhhhhhcC
Confidence 456899974 45899999999987654
No 62
>smart00301 DM Doublesex DNA-binding motif.
Probab=22.41 E-value=45 Score=22.74 Aligned_cols=11 Identities=27% Similarity=0.643 Sum_probs=6.6
Q ss_pred ccccccccccc
Q 027020 172 EGFDHHCPAFG 182 (229)
Q Consensus 172 ~r~DHHCpWl~ 182 (229)
.++-.+|||-+
T Consensus 18 KGHKr~C~~r~ 28 (54)
T smart00301 18 KGHKPECPFRD 28 (54)
T ss_pred CCcCCCCCCCC
Confidence 33444788875
No 63
>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=22.37 E-value=70 Score=21.87 Aligned_cols=25 Identities=16% Similarity=0.098 Sum_probs=17.9
Q ss_pred CCCCCCCCCCC----CCCCcccccccCcc
Q 027020 146 LGVDPDNENSL----SRKRVRYCKICKAH 170 (229)
Q Consensus 146 ~~~~C~~C~~~----kP~Rs~HC~~C~~C 170 (229)
..+.|+.|... ...|..+|+.||.-
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCE
Confidence 45678888753 35577889998875
No 64
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.10 E-value=38 Score=26.26 Aligned_cols=22 Identities=9% Similarity=0.132 Sum_probs=15.0
Q ss_pred CCCCCCCCCCCCCccc---ccccCc
Q 027020 148 VDPDNENSLSRKRVRY---CKICKA 169 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~H---C~~C~~ 169 (229)
-+|..|...-|...++ |+.||.
T Consensus 71 ~~C~~Cg~~~~~~~~~~~~CP~Cgs 95 (114)
T PRK03681 71 CWCETCQQYVTLLTQRVRRCPQCHG 95 (114)
T ss_pred EEcccCCCeeecCCccCCcCcCcCC
Confidence 4688888766665444 777774
No 65
>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=21.59 E-value=1.1e+02 Score=20.48 Aligned_cols=24 Identities=8% Similarity=0.058 Sum_probs=12.9
Q ss_pred CCCCCCCCCCCCCcccccccCccc
Q 027020 148 VDPDNENSLSRKRVRYCKICKAHV 171 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~~CV 171 (229)
..|..|+..|-+++--|..||.-+
T Consensus 24 ~sc~pc~~~kkd~~~g~n~cg~y~ 47 (55)
T PF03503_consen 24 KSCNPCEVNKKDVSCGCNPCGSYT 47 (55)
T ss_pred CcccccccccccccCCcccccccc
Confidence 445555555555555555555433
No 66
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=21.49 E-value=14 Score=33.12 Aligned_cols=27 Identities=7% Similarity=0.131 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCcccccccCcccccccc
Q 027020 150 PDNENSLSRKRVRYCKICKAHVEGFDH 176 (229)
Q Consensus 150 C~~C~~~kP~Rs~HC~~C~~CV~r~DH 176 (229)
|..|...+...+.||+.|++|+.+|.|
T Consensus 280 ~kA~~~~~Q~K~N~~~~~~~~~q~~~H 306 (325)
T KOG4399|consen 280 IKAVRKQKQRKSNKMKMETTKGQSMNH 306 (325)
T ss_pred HHHHHHHHhcccchhhhhhhhhhhhHH
No 67
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=21.44 E-value=67 Score=21.30 Aligned_cols=24 Identities=13% Similarity=-0.007 Sum_probs=15.0
Q ss_pred CCCCCCCCCC-C--CCCCcccccccCc
Q 027020 146 LGVDPDNENS-L--SRKRVRYCKICKA 169 (229)
Q Consensus 146 ~~~~C~~C~~-~--kP~Rs~HC~~C~~ 169 (229)
..++|+.|.. . .-....||..|+.
T Consensus 19 ~~~fCP~Cg~~~m~~~~~r~~C~~Cgy 45 (50)
T PRK00432 19 KNKFCPRCGSGFMAEHLDRWHCGKCGY 45 (50)
T ss_pred ccCcCcCCCcchheccCCcEECCCcCC
Confidence 3568999976 2 2223567888764
No 68
>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=21.34 E-value=51 Score=19.42 Aligned_cols=23 Identities=13% Similarity=0.076 Sum_probs=10.9
Q ss_pred CCCCCCCCC----CCCCCcccccccCc
Q 027020 147 GVDPDNENS----LSRKRVRYCKICKA 169 (229)
Q Consensus 147 ~~~C~~C~~----~kP~Rs~HC~~C~~ 169 (229)
.+||..|.. ....++..|+.|+.
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 367888863 33446677777764
No 69
>PLN00186 ribosomal protein S26; Provisional
Probab=20.92 E-value=44 Score=26.03 Aligned_cols=16 Identities=19% Similarity=0.202 Sum_probs=12.8
Q ss_pred CCcccccccCcccccc
Q 027020 159 KRVRYCKICKAHVEGF 174 (229)
Q Consensus 159 ~Rs~HC~~C~~CV~r~ 174 (229)
.+.-||..|++||.+-
T Consensus 18 v~~V~C~nCgr~vPKD 33 (109)
T PLN00186 18 VKRIRCSNCGKCVPKD 33 (109)
T ss_pred CcceeeCCCccccccc
Confidence 3467899999999873
No 70
>COG3336 Predicted membrane protein [Function unknown]
Probab=20.76 E-value=3.3e+02 Score=24.95 Aligned_cols=33 Identities=21% Similarity=0.102 Sum_probs=22.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhc-CCCCCCC
Q 027020 100 VSSLIGGLFNIEVAMIIIGLCSIMSK-DPGLITN 132 (229)
Q Consensus 100 ~~~~~~iif~~l~~l~~~~y~~~~~~-dPG~vp~ 132 (229)
.++..+.+.+..++...+.++..+.. |||.-+.
T Consensus 154 ~~p~~H~lm~~~~f~~aylfww~mI~~dpg~r~l 187 (299)
T COG3336 154 TSPTLHLLMNLLFFLSAYLFWWAMIGPDPGPRRL 187 (299)
T ss_pred hcccHHHHHHHHHHHHHHHHHHHHHccCCCCccc
Confidence 34566666777777777777777665 9986654
No 71
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=20.76 E-value=56 Score=30.22 Aligned_cols=30 Identities=17% Similarity=0.331 Sum_probs=21.4
Q ss_pred CCCCCCCCCCCCCcccccccC------ccccccccccc
Q 027020 148 VDPDNENSLSRKRVRYCKICK------AHVEGFDHHCP 179 (229)
Q Consensus 148 ~~C~~C~~~kP~Rs~HC~~C~------~CV~r~DHHCp 179 (229)
.+|..|++.+.. +.|++|| +|...+.|-|.
T Consensus 8 ~~C~ic~vq~~~--YtCPRCn~~YCsl~CYr~h~~~Cs 43 (383)
T KOG4317|consen 8 LACGICGVQKRE--YTCPRCNLLYCSLKCYRNHKHSCS 43 (383)
T ss_pred eecccccccccc--ccCCCCCccceeeeeecCCCccch
Confidence 468888875433 8899997 57777777664
No 72
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.65 E-value=61 Score=32.72 Aligned_cols=22 Identities=14% Similarity=0.238 Sum_probs=16.5
Q ss_pred CCCCCCCCCCCCcccccccCcc
Q 027020 149 DPDNENSLSRKRVRYCKICKAH 170 (229)
Q Consensus 149 ~C~~C~~~kP~Rs~HC~~C~~C 170 (229)
.|+.|....|+.++.|..||.=
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~ 24 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTS 24 (645)
T ss_pred cCCCCCCcCCCCCccccccCCC
Confidence 5777777777777777777664
No 73
>KOG1841 consensus Smad anchor for receptor activation [Defense mechanisms]
Probab=20.23 E-value=35 Score=36.44 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=14.8
Q ss_pred CCCCCC--CCCCCCcccccccCcc
Q 027020 149 DPDNEN--SLSRKRVRYCKICKAH 170 (229)
Q Consensus 149 ~C~~C~--~~kP~Rs~HC~~C~~C 170 (229)
.|..|. ..--.|-||||.||+-
T Consensus 559 ncm~clqkft~ikrrhhcRacgkV 582 (1287)
T KOG1841|consen 559 NCMDCLQKFTPIKRRHHCRACGKV 582 (1287)
T ss_pred hHHHHHhhcccccccccchhccce
Confidence 344444 3446678999999983
No 74
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.23 E-value=39 Score=33.96 Aligned_cols=23 Identities=13% Similarity=0.148 Sum_probs=17.3
Q ss_pred CCCCCCCCCC--CCCCcccccccCc
Q 027020 147 GVDPDNENSL--SRKRVRYCKICKA 169 (229)
Q Consensus 147 ~~~C~~C~~~--kP~Rs~HC~~C~~ 169 (229)
+.-|..|... ---|.|||+.||+
T Consensus 165 ~~~C~rCr~~F~~~~rkHHCr~CG~ 189 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTNRKHHCRNCGQ 189 (634)
T ss_pred ccccceeeeeeeeccccccccccch
Confidence 4679999741 2349999999998
Done!