Query 016191
Match_columns 393
No_of_seqs 313 out of 1631
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 04:37:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016191.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016191hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1312 DHHC-type Zn-finger pr 100.0 3.9E-61 8.6E-66 442.6 15.3 287 1-304 1-289 (341)
2 KOG1315 Predicted DHHC-type Zn 100.0 3.3E-40 7.2E-45 316.0 12.2 210 78-310 13-237 (307)
3 KOG1311 DHHC-type Zn-finger pr 100.0 3.3E-39 7.1E-44 314.0 15.8 170 117-304 60-240 (299)
4 PF01529 zf-DHHC: DHHC palmito 100.0 8.4E-39 1.8E-43 286.9 10.6 161 125-306 2-174 (174)
5 KOG1314 DHHC-type Zn-finger pr 100.0 4.8E-38 1E-42 297.0 12.1 182 101-303 38-224 (414)
6 COG5273 Uncharacterized protei 100.0 2.9E-34 6.4E-39 278.4 12.8 171 114-308 60-235 (309)
7 KOG1313 DHHC-type Zn-finger pr 100.0 1.7E-32 3.8E-37 252.1 13.6 141 159-304 102-244 (309)
8 KOG0509 Ankyrin repeat and DHH 99.9 2.8E-28 6.2E-33 247.2 8.7 107 118-224 376-485 (600)
9 KOG0509 Ankyrin repeat and DHH 90.2 0.36 7.7E-06 50.8 4.5 87 125-213 292-379 (600)
10 KOG1311 DHHC-type Zn-finger pr 84.9 4.5 9.7E-05 39.3 8.4 31 173-203 113-143 (299)
11 COG5273 Uncharacterized protei 83.9 12 0.00025 36.9 10.8 169 110-304 59-243 (309)
12 PRK04136 rpl40e 50S ribosomal 80.9 0.97 2.1E-05 31.5 1.4 24 158-181 13-36 (48)
13 PF01529 zf-DHHC: DHHC palmito 80.3 9.8 0.00021 33.4 8.2 29 160-188 63-91 (174)
14 PF13240 zinc_ribbon_2: zinc-r 76.6 1.6 3.4E-05 25.6 1.3 21 161-181 1-21 (23)
15 PF13248 zf-ribbon_3: zinc-rib 73.7 2.1 4.5E-05 25.8 1.3 23 159-181 2-24 (26)
16 PF10571 UPF0547: Uncharacteri 62.4 4.9 0.00011 24.3 1.3 22 160-181 1-22 (26)
17 COG1552 RPL40A Ribosomal prote 57.7 2.3 5E-05 29.7 -0.8 25 157-181 12-36 (50)
18 PTZ00303 phosphatidylinositol 54.0 7.1 0.00015 42.5 1.6 22 160-181 461-489 (1374)
19 PF06906 DUF1272: Protein of u 52.9 7.3 0.00016 28.1 1.0 37 160-199 6-50 (57)
20 KOG1312 DHHC-type Zn-finger pr 52.5 27 0.00059 33.8 5.1 31 173-203 148-178 (341)
21 KOG3183 Predicted Zn-finger pr 49.5 7.5 0.00016 36.4 0.9 13 182-194 37-49 (250)
22 PF00641 zf-RanBP: Zn-finger i 46.8 6.2 0.00014 24.4 -0.1 21 161-181 6-26 (30)
23 PF01020 Ribosomal_L40e: Ribos 46.1 9.5 0.00021 27.1 0.8 24 159-182 17-42 (52)
24 KOG1315 Predicted DHHC-type Zn 43.4 1.5E+02 0.0033 29.1 8.9 32 172-203 108-139 (307)
25 PF12773 DZR: Double zinc ribb 43.3 17 0.00038 25.0 1.8 33 159-191 12-47 (50)
26 PF12773 DZR: Double zinc ribb 39.9 21 0.00046 24.6 1.8 22 159-180 29-50 (50)
27 PF08600 Rsm1: Rsm1-like; Int 38.2 15 0.00032 29.3 0.8 11 188-198 56-66 (91)
28 COG3936 Protein involved in po 30.7 86 0.0019 30.4 4.7 38 2-39 148-195 (349)
29 smart00547 ZnF_RBZ Zinc finger 29.8 29 0.00063 20.4 1.0 21 161-181 4-24 (26)
30 COG2093 DNA-directed RNA polym 29.1 31 0.00068 25.5 1.2 23 159-181 4-26 (64)
31 PRK00944 hypothetical protein; 28.1 75 0.0016 28.7 3.6 31 4-34 15-45 (195)
32 KOG1710 MYND Zn-finger and ank 27.4 25 0.00055 34.1 0.6 21 159-181 319-339 (396)
33 cd01995 ExsB ExsB is a transcr 27.3 23 0.00049 31.0 0.3 23 161-186 142-164 (169)
34 smart00064 FYVE Protein presen 27.3 39 0.00083 24.8 1.5 24 160-183 11-36 (68)
35 KOG1842 FYVE finger-containing 26.9 18 0.00038 37.0 -0.6 25 159-183 180-206 (505)
36 PRK15103 paraquat-inducible me 26.7 7.1E+02 0.015 25.5 11.6 31 160-190 222-252 (419)
37 PRK04561 tatA twin arginine tr 25.8 56 0.0012 25.1 2.1 14 14-27 11-24 (75)
38 PF01363 FYVE: FYVE zinc finge 25.7 21 0.00045 26.4 -0.2 24 160-183 10-35 (69)
39 PRK03554 tatA twin arginine tr 25.7 52 0.0011 26.1 2.0 14 13-26 10-23 (89)
40 PRK04598 tatA twin arginine tr 25.1 55 0.0012 25.6 2.0 13 14-26 11-23 (81)
41 PRK02958 tatA twin arginine tr 25.0 57 0.0012 25.0 2.0 14 14-27 11-24 (73)
42 PRK01833 tatA twin arginine tr 24.2 60 0.0013 24.9 2.0 13 14-26 11-23 (74)
43 PF07649 C1_3: C1-like domain; 24.1 29 0.00062 21.4 0.2 21 161-181 2-23 (30)
44 PRK00720 tatA twin arginine tr 23.8 61 0.0013 25.1 2.0 13 13-25 10-22 (78)
45 PRK01614 tatE twin arginine tr 23.5 61 0.0013 25.4 2.0 13 14-26 11-23 (85)
46 PF10112 Halogen_Hydrol: 5-bro 23.3 5.5E+02 0.012 23.1 10.8 24 305-328 67-90 (199)
47 KOG1313 DHHC-type Zn-finger pr 21.2 2E+02 0.0044 27.8 5.3 56 159-225 116-171 (309)
48 PRK03625 tatE twin arginine tr 20.9 75 0.0016 23.9 1.9 16 13-28 10-25 (67)
49 PF07423 DUF1510: Protein of u 20.9 87 0.0019 29.2 2.8 6 362-367 143-148 (217)
50 KOG1398 Uncharacterized conser 20.5 27 0.00058 35.2 -0.7 25 169-199 10-34 (460)
51 PF12273 RCR: Chitin synthesis 20.3 66 0.0014 27.1 1.8 10 5-14 2-11 (130)
No 1
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=3.9e-61 Score=442.56 Aligned_cols=287 Identities=40% Similarity=0.625 Sum_probs=231.9
Q ss_pred CchhHHHHHHHHHHHHHHHHHHhcCCCCccCChhhHHHHHHHhhhhhhHhhhhccccccchhhhhccccceeeccCCcch
Q 016191 1 MDVQWLLIIHGLLTLLVVVSFLCGQWPIFEGTPIQRIHYFLTFGAYDYFLRFVGSVFGEKAINAILSVEYFCCDRPNPVL 80 (393)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~lfG~~p~~r~t~i~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~p~~ 80 (393)
||++|++++|+..++++|+++|||+.|.|++||+ |.|+++..++|+++.+.|++.+ .+...++++.+||++
T Consensus 1 Mdf~wllLf~lai~l~vVlilLcgq~p~lKgt~~-w~~~ff~~~ip~~llr~v~~y~--------~sl~~~~l~~tni~L 71 (341)
T KOG1312|consen 1 MDFLWLLLFYLAIVLGVVLILLCGQTPSLKGTAR-WGAQFFSCIIPECLLRAVHGYL--------RSLLFHTLNHTNIVL 71 (341)
T ss_pred CchhHHHHHHHHHHHHHhhhhhcCCCcccccccc-cceeeEEECccHHHHHHHHHHH--------HHheeeeccCCChhH
Confidence 9999999999999999999999999999999999 9999999999999999987554 356788999999999
Q ss_pred hhhhhhhhhhhhhhhhhhhccccccchhhhHHHHHHHHHHHHHHHHHHHHhccCCCcccCCCcccccccCCCCcccccc-
Q 016191 81 QIIYLAIIGITYYFIAKSSFSYIPGYYLSGFHRYTSLLGVGIGVFFFLLTSFADPGTVKAENVSQYQSAYPYDNIIYTE- 159 (393)
Q Consensus 81 ~i~~l~l~~~~~~~f~~~~~~~~p~~~~~~~~~~~~~~~~~l~~~~~~~~~~~DPG~i~~~~~~~~~~~~p~d~~~~~~- 159 (393)
+++|..++.- ......+-+.|++++|..+++....+++++++++.+++.+|||.++++|..++.+.||||.+++.+
T Consensus 72 ~lvy~a~m~~---~~~~esfiy~~~l~lsl~~~il~~l~vivp~i~f~ltc~snpg~i~k~n~s~~~~~ypYDy~if~k~ 148 (341)
T KOG1312|consen 72 HLVYQAMMYT---EYTWESFIYCQELELSLHYLILPYLLVIVPLIFFTLTCGSNPGIITKANESLFLHVYPYDYVIFPKN 148 (341)
T ss_pred HHHHHHHHhh---hhhheeeEeccchhhhHHHHHHHHHHHHHHHHHHhhhhcCCCCccchhhhccceeccCccceeecCC
Confidence 9999998863 233455667788889999999999999999999999999999999999999999999999999988
Q ss_pred ccccccCCCCCCCCccccccCccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHH-HHHHhhhhheee
Q 016191 160 KECSTCKIPKPARSKHCSICNRCVARFDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFV-LAGRLKELRVVY 238 (393)
Q Consensus 160 ~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~-l~~~~~~~~~~~ 238 (393)
+.|+||++.||+||||||+|||||.||||||.|+|||||++|+|||++||+++..++.|+.+..+.+ +....+..+...
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 9999999999999999999999999999999999999999999999999999999999998888776 555555555555
Q ss_pred eeeeeecccccccccchhHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccc
Q 016191 239 ILTVYYGIENSFRKLAPHVVQWLLGSYNTQILLMVFLAVVSLLLASFFGYHANLCRTNTTTNETVK 304 (393)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~f~~~h~~li~~n~TT~E~~k 304 (393)
.++.+.+...+...+. +.++......++..-+..+.+. +++...+-.|+-++|+||+|...
T Consensus 229 ilt~~~g~~ks~~~L~----~yl~la~~~~v~~l~~~~~~~~-~~~Y~~f~~y~~~t~~~~~~W~~ 289 (341)
T KOG1312|consen 229 ILTLGHGHVKSTVFLI----QYLFLAFPRIVFMLGFVVVLSF-LGGYLLFVLYLAATNQTTNEWYR 289 (341)
T ss_pred eeeeeecchhhHHHHH----HHHHHHhccceeeeehhhhhhH-hHHHHHHHHHHHhccCCchhhhc
Confidence 5555555433332222 2222111111111111222222 45556666777777777777544
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=3.3e-40 Score=315.97 Aligned_cols=210 Identities=28% Similarity=0.426 Sum_probs=146.0
Q ss_pred cchhhhhhhhhhhhhhhhhhhhc-cccccchhhhHHHHHHHHHHHHHHHHHHHHhccCCCcccCCCcccc-----cccCC
Q 016191 78 PVLQIIYLAIIGITYYFIAKSSF-SYIPGYYLSGFHRYTSLLGVGIGVFFFLLTSFADPGTVKAENVSQY-----QSAYP 151 (393)
Q Consensus 78 p~~~i~~l~l~~~~~~~f~~~~~-~~~p~~~~~~~~~~~~~~~~~l~~~~~~~~~~~DPG~i~~~~~~~~-----~~~~p 151 (393)
++++++.+.+++++|++++...- ..+-....+.+..+....+.++...+|+.++++|||.+|.+...+. .+...
T Consensus 13 ~~~~~~i~~~~~~~yy~~v~~~c~~~i~~~~~~~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~~~~~~~~~ 92 (307)
T KOG1315|consen 13 WIPVLIILLVIGWTYYVYVAVLCILSISLTIPSVLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVEDEDSLENGS 92 (307)
T ss_pred chhheeeeeeEEEEEEEeehhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCccccccccC
Confidence 66677777888888888765431 1111111233444555566677788999999999999996532211 11111
Q ss_pred C---C------ccccccccccccCCCCCCCCccccccCccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHH
Q 016191 152 Y---D------NIIYTEKECSTCKIPKPARSKHCSICNRCVARFDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVA 222 (393)
Q Consensus 152 ~---d------~~~~~~~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~ 222 (393)
. + ......|+|.+|+.+||+||||||+|+|||+||||||||+|||||.+|||+|++||+|+.+.++|.++.
T Consensus 93 ~~~~~~~~~~~~~~g~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~ 172 (307)
T KOG1315|consen 93 DNERDLPGYTRTSDGAVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVT 172 (307)
T ss_pred cccccceeeEecCCCCceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHH
Confidence 1 1 111245899999999999999999999999999999999999999999999999999999999888776
Q ss_pred HHHHHHHHhhhhheeeeeeeeecccccccccchhHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccc
Q 016191 223 LGFVLAGRLKELRVVYILTVYYGIENSFRKLAPHVVQWLLGSYNTQILLMVFLAVVSLLLASFFGYHANLCRTNTTTNET 302 (393)
Q Consensus 223 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~f~~~h~~li~~n~TT~E~ 302 (393)
....+....+.. .. +.. .+ .....+++++...+++.+.+|+++|++||++|+||.|.
T Consensus 173 ~~~~~~~~~~~~-~~-----------------~~~-~~----~~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~ 229 (307)
T KOG1315|consen 173 TLIGFTKYFQGG-AG-----------------PSS-LL----LFFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEA 229 (307)
T ss_pred HHHHHHHHHhcc-cc-----------------Cch-hH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhh
Confidence 655443322110 00 000 00 01123334445567778888999999999999999999
Q ss_pred ccchhhhH
Q 016191 303 VKWQDHMN 310 (393)
Q Consensus 303 ~k~~~~~~ 310 (393)
+++..+..
T Consensus 230 ~~~~~~~~ 237 (307)
T KOG1315|consen 230 YKSPVFRS 237 (307)
T ss_pred hccccccc
Confidence 99886543
No 3
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=3.3e-39 Score=314.01 Aligned_cols=170 Identities=33% Similarity=0.607 Sum_probs=115.6
Q ss_pred HHHHHHHHHHHHHHhcc---CCCcccCCC--ccccccc------CCCCccccccccccccCCCCCCCCccccccCccccc
Q 016191 117 LLGVGIGVFFFLLTSFA---DPGTVKAEN--VSQYQSA------YPYDNIIYTEKECSTCKIPKPARSKHCSICNRCVAR 185 (393)
Q Consensus 117 ~~~~~l~~~~~~~~~~~---DPG~i~~~~--~~~~~~~------~p~d~~~~~~~~C~tC~~~kP~RSkHC~~C~rCV~r 185 (393)
.+...+.++.+..++++ |||++++.. ..+..+. .+.++...+.++|.+|+..||+|||||++||+||.|
T Consensus 60 ~if~~~~~~~~~~~~~~~~sdpg~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~r 139 (299)
T KOG1311|consen 60 AIFFLLNILNLMLACFRMLSDPGIVPRADDEQIEDPERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLR 139 (299)
T ss_pred HHHHHHHHHHHHHHHhcccCCCceecCcccCCCCCccccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccc
Confidence 33344444555555555 999999842 1111101 112334456799999999999999999999999999
Q ss_pred cccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeeeeeeeecccccccccchhHHHHHhhcc
Q 016191 186 FDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFVLAGRLKELRVVYILTVYYGIENSFRKLAPHVVQWLLGSY 265 (393)
Q Consensus 186 ~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 265 (393)
|||||||+|||||++|||||+.|+++..++++|.+......+.......... +..... . ...
T Consensus 140 fDHHC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~------------~~~~~~--~----~~~ 201 (299)
T KOG1311|consen 140 FDHHCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVN------------LTPVLI--P----AGT 201 (299)
T ss_pred cCCCCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccc------------cccccc--c----hhH
Confidence 9999999999999999999999999999999988877666544322211110 000000 0 000
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccc
Q 016191 266 NTQILLMVFLAVVSLLLASFFGYHANLCRTNTTTNETVK 304 (393)
Q Consensus 266 ~~~~~~~v~~~~~~~~~~~f~~~h~~li~~n~TT~E~~k 304 (393)
...+++.++.+++...+++++.+|++++.+|+||+|.++
T Consensus 202 ~~~~~l~~~~~~~~~~~~~l~~fh~~li~~~~Tt~e~~~ 240 (299)
T KOG1311|consen 202 FLSALLGLLSALFLAFTSALLCFHIYLIKSGSTTYESIK 240 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhheeeEecCcchhhhhh
Confidence 112233344556666777899999999999999999654
No 4
>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=8.4e-39 Score=286.87 Aligned_cols=161 Identities=38% Similarity=0.685 Sum_probs=119.3
Q ss_pred HHHHHHhccCCCcccCCCccc------------ccccCCCCccccccccccccCCCCCCCCccccccCcccccccccccc
Q 016191 125 FFFLLTSFADPGTVKAENVSQ------------YQSAYPYDNIIYTEKECSTCKIPKPARSKHCSICNRCVARFDHHCGW 192 (393)
Q Consensus 125 ~~~~~~~~~DPG~i~~~~~~~------------~~~~~p~d~~~~~~~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~W 192 (393)
++|++++++|||++|..+.++ .....+.++.....++|.+|+..||+|||||+.||+||.||||||+|
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 357889999999999871100 01112223344567999999999999999999999999999999999
Q ss_pred ccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeeeeeeeecccccccccchhHHHHHhhccchhHHHH
Q 016191 193 MNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFVLAGRLKELRVVYILTVYYGIENSFRKLAPHVVQWLLGSYNTQILLM 272 (393)
Q Consensus 193 innCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 272 (393)
+|||||++|||+|++|+++..+.+++.++.....+........... +. .......++++
T Consensus 82 ~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~----------~~~~~~~~~~~ 140 (174)
T PF01529_consen 82 LGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSS-----------FW----------IFSNFSSIFLL 140 (174)
T ss_pred hccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc-----------cc----------cchhhhHHHHH
Confidence 9999999999999999999999999988876666554433211100 00 00000013444
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCccccccccch
Q 016191 273 VFLAVVSLLLASFFGYHANLCRTNTTTNETVKWQ 306 (393)
Q Consensus 273 v~~~~~~~~~~~f~~~h~~li~~n~TT~E~~k~~ 306 (393)
++.++++++++.++++|++++++|+||+|.+||+
T Consensus 141 ~~~~~~~~~~~~l~~~~~~~i~~n~Tt~E~~~~~ 174 (174)
T PF01529_consen 141 IISIFFFIFVGFLLIFQLYLILRNITTYERIKRK 174 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHcC
Confidence 5556677788889999999999999999998874
No 5
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=4.8e-38 Score=297.00 Aligned_cols=182 Identities=30% Similarity=0.519 Sum_probs=132.6
Q ss_pred ccccc-chhhhHHHHHHHHHHHHHHHHHHHHhccCCCcccCCCcccccccCCCCccccccccccccCCCCCCCCcccccc
Q 016191 101 SYIPG-YYLSGFHRYTSLLGVGIGVFFFLLTSFADPGTVKAENVSQYQSAYPYDNIIYTEKECSTCKIPKPARSKHCSIC 179 (393)
Q Consensus 101 ~~~p~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~DPG~i~~~~~~~~~~~~p~d~~~~~~~~C~tC~~~kP~RSkHC~~C 179 (393)
.+.|. .+.+..+.++..+...+.++.|+.|++++||++|....++ .|.|.+ -.++|..|+.+||||||||+.|
T Consensus 38 ww~p~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe----~~~D~~--~lqfCk~CqgYKapRSHHCrkC 111 (414)
T KOG1314|consen 38 WWFPLSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPE----NPKDEM--FLQFCKKCQGYKAPRSHHCRKC 111 (414)
T ss_pred hhccccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCC----CChhHH--HHHHHhhccCcCCCccccchHH
Confidence 34453 3467778888888888889999999999999999876553 344432 2489999999999999999999
Q ss_pred CccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeeeeeeeecccccccccchhHHH
Q 016191 180 NRCVARFDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFVLAGRLKELRVVYILTVYYGIENSFRKLAPHVVQ 259 (393)
Q Consensus 180 ~rCV~r~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (393)
||||.+|||||||+|||||..||.||+.||++..+.|+-+.++....++..+...-... ++... .|.+.
T Consensus 112 nrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~ivG~ih~tiI~~~~~~~~Iy~~W~~~-----~g~~h-----lp~v~- 180 (414)
T KOG1314|consen 112 NRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIVGCIHGTIILVCAQYRGIYFRWYIK-----YGLRH-----LPIVF- 180 (414)
T ss_pred HHHHHhhccCCcchhhcccccccHHHHHHHHHHHHhcccceeeehhHHHHHHHHHHHhh-----ccccc-----Cceee-
Confidence 99999999999999999999999999999999999999888777766665554431100 11110 01100
Q ss_pred HHhhccchhHHHHHHH----HHHHHHHHHHHHHHHHHHhcCccccccc
Q 016191 260 WLLGSYNTQILLMVFL----AVVSLLLASFFGYHANLCRTNTTTNETV 303 (393)
Q Consensus 260 ~~~~~~~~~~~~~v~~----~~~~~~~~~f~~~h~~li~~n~TT~E~~ 303 (393)
+.. ..++..+|+ ..+.+.++.++..|+..|.+|+|.+|++
T Consensus 181 --ft~--~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~w 224 (414)
T KOG1314|consen 181 --FTL--SSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESW 224 (414)
T ss_pred --ccH--HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHH
Confidence 000 111222222 2244556678889999999999999964
No 6
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=2.9e-34 Score=278.41 Aligned_cols=171 Identities=32% Similarity=0.542 Sum_probs=119.6
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCcccCCCc----ccccccCCCCccccccccccccCCCCCCCCccccccCccccccccc
Q 016191 114 YTSLLGVGIGVFFFLLTSFADPGTVKAENV----SQYQSAYPYDNIIYTEKECSTCKIPKPARSKHCSICNRCVARFDHH 189 (393)
Q Consensus 114 ~~~~~~~~l~~~~~~~~~~~DPG~i~~~~~----~~~~~~~p~d~~~~~~~~C~tC~~~kP~RSkHC~~C~rCV~r~DHH 189 (393)
+...+...+...++++..++|||..+.++. ++..+....++....+++|.+|+.+||+|||||+.|||||+|||||
T Consensus 60 i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DHH 139 (309)
T COG5273 60 ILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHH 139 (309)
T ss_pred hhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccCCCCccchhhcchhhccCcc
Confidence 344445556678899999999999985432 1222222223444578999999999999999999999999999999
Q ss_pred cccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeeeeeeeecccccccccchhHHHHHhhccchhH
Q 016191 190 CGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFVLAGRLKELRVVYILTVYYGIENSFRKLAPHVVQWLLGSYNTQI 269 (393)
Q Consensus 190 C~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 269 (393)
|||+|||||.+|||+|++||+++....++.++.....+........ . +....+ ..+
T Consensus 140 C~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~----~~~~~~------~li 195 (309)
T COG5273 140 CPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRH--------------D----TSLAIC------FLI 195 (309)
T ss_pred CcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccC--------------C----hHHHHH------HHH
Confidence 9999999999999999999999987776666655544433221100 0 000000 001
Q ss_pred H-HHHHHHHHHHHHHHHHHHHHHHHhcCccccccccchhh
Q 016191 270 L-LMVFLAVVSLLLASFFGYHANLCRTNTTTNETVKWQDH 308 (393)
Q Consensus 270 ~-~~v~~~~~~~~~~~f~~~h~~li~~n~TT~E~~k~~~~ 308 (393)
. ...+..++.+.+..++.+|.+++..|+||.|..+-.+.
T Consensus 196 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~ 235 (309)
T COG5273 196 FGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRG 235 (309)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccc
Confidence 1 12223345666778899999999999999998766554
No 7
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.98 E-value=1.7e-32 Score=252.10 Aligned_cols=141 Identities=29% Similarity=0.604 Sum_probs=98.4
Q ss_pred cccccccCCCCCCCCccccccCccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheee
Q 016191 159 EKECSTCKIPKPARSKHCSICNRCVARFDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFVLAGRLKELRVVY 238 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~l~~~~~~~~~~~ 238 (393)
..+|.+|+.+||||+||||+||+||++|||||||+|||||.+|||||++|++++.+.+.|..+.........++......
T Consensus 102 ~SfC~KC~~pK~prTHHCsiC~kCVL~MDHHCPwinnCVG~~NHryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~t 181 (309)
T KOG1313|consen 102 DSFCNKCNYPKSPRTHHCSICNKCVLKMDHHCPWINNCVGAHNHRYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEIT 181 (309)
T ss_pred ccHHhhcCCCCCCCcchhhHHhhHhhccccCCchhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhcc
Confidence 46899999999999999999999999999999999999999999999999999999999988876655554443322211
Q ss_pred eeeeeecc-cccccccchhHHHHHhhccchhH-HHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccc
Q 016191 239 ILTVYYGI-ENSFRKLAPHVVQWLLGSYNTQI-LLMVFLAVVSLLLASFFGYHANLCRTNTTTNETVK 304 (393)
Q Consensus 239 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~~~~~~~~~~f~~~h~~li~~n~TT~E~~k 304 (393)
. |-+. ..-.. .|.+...--....+.+ .+.+.++.+.++++.+..+|.++|.+|.|.+|..+
T Consensus 182 a---y~~d~~h~~P--p~~i~r~~~~i~~t~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~ 244 (309)
T KOG1313|consen 182 A---YASDVAHVAP--PPSILRVYKNITRTSIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLI 244 (309)
T ss_pred c---ccCcccccCC--ChhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHH
Confidence 1 1110 00000 1111111001111122 23333445666788899999999999999999543
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.95 E-value=2.8e-28 Score=247.17 Aligned_cols=107 Identities=40% Similarity=0.647 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHHhccCCCcccCCCccc--ccccCCCCcccccc-ccccccCCCCCCCCccccccCcccccccccccccc
Q 016191 118 LGVGIGVFFFLLTSFADPGTVKAENVSQ--YQSAYPYDNIIYTE-KECSTCKIPKPARSKHCSICNRCVARFDHHCGWMN 194 (393)
Q Consensus 118 ~~~~l~~~~~~~~~~~DPG~i~~~~~~~--~~~~~p~d~~~~~~-~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~Win 194 (393)
+.++..++.+.+..-+|||+++...... ..+..+.-+....+ ++|.+|.+.||.|||||++|||||+||||||||++
T Consensus 376 ~~~l~~~~~f~~~~rsDPg~i~~~~~~~~~tIs~l~d~gkf~~en~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ 455 (600)
T KOG0509|consen 376 ISVLAYFITFGLFLRSDPGFIPTSTEVGRETISQLIDFGKFDLENRFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIG 455 (600)
T ss_pred HHHHHHHHHHHHHhccCCCCCCCchhhHHHHHHHhhccccccccccceeeeeeecCCccchhhhhHHHHhccccCCCccc
Confidence 3333444556666669999998753221 11112221222234 69999999999999999999999999999999999
Q ss_pred ccccccchhhHHHHHHHHHHHHHHHHHHHH
Q 016191 195 NCIGERNTRYFMAFLLWHLFLCLYGIVALG 224 (393)
Q Consensus 195 nCVG~~N~r~FllFL~~~~~~~~y~~~~~~ 224 (393)
||||.+|||+|+.|+++....+.+.++...
T Consensus 456 ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~ 485 (600)
T KOG0509|consen 456 NCVGLKNHRLFVFFLLTLLTVIVFYLYLCL 485 (600)
T ss_pred cccCccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999998777666555443
No 9
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=90.24 E-value=0.36 Score=50.78 Aligned_cols=87 Identities=17% Similarity=-0.017 Sum_probs=62.9
Q ss_pred HHHHHHhccCCCcccCCCcccccccCCCCccccccccccccCCCCCCCCccccccCccccccccccccccccccccchhh
Q 016191 125 FFFLLTSFADPGTVKAENVSQYQSAYPYDNIIYTEKECSTCKIPKPARSKHCSICNRCVARFDHHCGWMNNCIGERNTRY 204 (393)
Q Consensus 125 ~~~~~~~~~DPG~i~~~~~~~~~~~~p~d~~~~~~~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~WinnCVG~~N~r~ 204 (393)
..++..+.-+||++-.-+....+.. +--+...-...|.+|....+.+-.+|..|-.++..+++||+|+. ||+.+|-..
T Consensus 292 ~~~~~~~~~~~g~i~~~~~~w~i~~-~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~ 369 (600)
T KOG0509|consen 292 GLFYFISSWLPGVIFLINSLWLIKG-LALGKLVLTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFD 369 (600)
T ss_pred HHHHHHHhhccchhhhhhhHHHHhh-hhhhhhhhheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhh
Confidence 3455566789999976554211111 11122234679999999999999999999999999999999999 999999885
Q ss_pred HHH-HHHHHH
Q 016191 205 FMA-FLLWHL 213 (393)
Q Consensus 205 Fll-FL~~~~ 213 (393)
|-. |+++..
T Consensus 370 ~~~~~i~~~l 379 (600)
T KOG0509|consen 370 FHYCFIISVL 379 (600)
T ss_pred hHHHHHHHHH
Confidence 544 444443
No 10
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=84.87 E-value=4.5 Score=39.33 Aligned_cols=31 Identities=26% Similarity=0.485 Sum_probs=29.3
Q ss_pred CccccccCccccccccccccccccccccchh
Q 016191 173 SKHCSICNRCVARFDHHCGWMNNCIGERNTR 203 (393)
Q Consensus 173 SkHC~~C~rCV~r~DHHC~WinnCVG~~N~r 203 (393)
-|+|+.|+..+...-|||..=|+||-+.-|+
T Consensus 113 ~~~C~~C~~~rPpRs~HCsvC~~CV~rfDHH 143 (299)
T KOG1311|consen 113 WKYCDTCQLYRPPRSSHCSVCNNCVLRFDHH 143 (299)
T ss_pred eEEcCcCcccCCCCcccchhhcccccccCCC
Confidence 7999999999999999999999999988775
No 11
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=83.90 E-value=12 Score=36.88 Aligned_cols=169 Identities=16% Similarity=0.146 Sum_probs=88.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhccCCCcc----c-CCCcccccccCCCCccc-------c---ccccccccCCCCCCCCc
Q 016191 110 GFHRYTSLLGVGIGVFFFLLTSFADPGTV----K-AENVSQYQSAYPYDNII-------Y---TEKECSTCKIPKPARSK 174 (393)
Q Consensus 110 ~~~~~~~~~~~~l~~~~~~~~~~~DPG~i----~-~~~~~~~~~~~p~d~~~-------~---~~~~C~tC~~~kP~RSk 174 (393)
....+.........++..+.+.-.-||.- + ++..++..+..+++... + +.+.|++|+.=-.-.-|
T Consensus 59 ~i~~~~i~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~Cn~CV~k~DH 138 (309)
T COG5273 59 IILFIVILVLASFSYLLLLVSDPGYLGENITLSGYRETISRLLDDGKFGTENFCSTCNIYKPPRSHHCSICNRCVLKFDH 138 (309)
T ss_pred hhhhhhhhhhHHHhhHHHhhcCCCccCccccccchhhhhhhhhhcCccccceeccccccccCCCCccchhhcchhhccCc
Confidence 33344444455555555666666666522 1 12223333333332221 1 34799999999999999
Q ss_pred cccccCccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhee-eeeeeeeccccccccc
Q 016191 175 HCSICNRCVARFDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGFVLAGRLKELRVV-YILTVYYGIENSFRKL 253 (393)
Q Consensus 175 HC~~C~rCV~r~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~ 253 (393)
||..=|+||.+-.| +=.-.|++++....+..++............-...... ..+.
T Consensus 139 HC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li------------ 195 (309)
T COG5273 139 HCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFLI------------ 195 (309)
T ss_pred cCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHHHHH------------
Confidence 99999999998665 56778888875554444433333222222111111111 0000
Q ss_pred chhHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccc
Q 016191 254 APHVVQWLLGSYNTQILLMVFLAVVSLLLASFFGYHANLCRTNTTTNETVK 304 (393)
Q Consensus 254 ~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~f~~~h~~li~~n~TT~E~~k 304 (393)
...+..+........+.+......++.....++.+.+.++.++-|...
T Consensus 196 ---~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~ 243 (309)
T COG5273 196 ---FGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFP 243 (309)
T ss_pred ---HhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccc
Confidence 000011111111122222233445556677888899999999988654
No 12
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=80.90 E-value=0.97 Score=31.47 Aligned_cols=24 Identities=29% Similarity=0.740 Sum_probs=22.0
Q ss_pred ccccccccCCCCCCCCccccccCc
Q 016191 158 TEKECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 158 ~~~~C~tC~~~kP~RSkHC~~C~r 181 (393)
..+.|..|...-|+|+..|+.||.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 568999999999999999998886
No 13
>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=80.26 E-value=9.8 Score=33.39 Aligned_cols=29 Identities=24% Similarity=0.604 Sum_probs=18.0
Q ss_pred ccccccCCCCCCCCccccccCcccccccc
Q 016191 160 KECSTCKIPKPARSKHCSICNRCVARFDH 188 (393)
Q Consensus 160 ~~C~tC~~~kP~RSkHC~~C~rCV~r~DH 188 (393)
+.|+.|+.-...+-|||..-|.||.+.-|
T Consensus 63 ~HC~~C~~CV~~~DHHC~w~~~cIG~~N~ 91 (174)
T PF01529_consen 63 HHCRVCNRCVLRFDHHCPWLGNCIGRRNH 91 (174)
T ss_pred eeccccccccccccccchhhccccccccH
Confidence 56666666666666666666666665544
No 14
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=76.58 E-value=1.6 Score=25.64 Aligned_cols=21 Identities=24% Similarity=0.645 Sum_probs=18.7
Q ss_pred cccccCCCCCCCCccccccCc
Q 016191 161 ECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 161 ~C~tC~~~kP~RSkHC~~C~r 181 (393)
+|+.|...-++.++.|+.||.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 589999999999999999985
No 15
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=73.66 E-value=2.1 Score=25.82 Aligned_cols=23 Identities=26% Similarity=0.603 Sum_probs=19.7
Q ss_pred cccccccCCCCCCCCccccccCc
Q 016191 159 EKECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~C~r 181 (393)
++.|+.|...-++-++.|+.||.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred cCCCcccCCcCCcccccChhhCC
Confidence 46899999988999999999885
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=62.37 E-value=4.9 Score=24.35 Aligned_cols=22 Identities=32% Similarity=0.813 Sum_probs=19.1
Q ss_pred ccccccCCCCCCCCccccccCc
Q 016191 160 KECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 160 ~~C~tC~~~kP~RSkHC~~C~r 181 (393)
|.|+.|...-|.-++-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 5799999999999999998874
No 17
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=57.68 E-value=2.3 Score=29.70 Aligned_cols=25 Identities=28% Similarity=0.808 Sum_probs=21.9
Q ss_pred cccccccccCCCCCCCCccccccCc
Q 016191 157 YTEKECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 157 ~~~~~C~tC~~~kP~RSkHC~~C~r 181 (393)
+..+.|..|...-|+|+.-|+.|+.
T Consensus 12 ~~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 12 FNKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hhHHHHHHhcCCCCcchhHHhhccC
Confidence 4568999999999999999998864
No 18
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=53.97 E-value=7.1 Score=42.48 Aligned_cols=22 Identities=27% Similarity=0.735 Sum_probs=18.3
Q ss_pred ccccccCCCCC-------CCCccccccCc
Q 016191 160 KECSTCKIPKP-------ARSKHCSICNR 181 (393)
Q Consensus 160 ~~C~tC~~~kP-------~RSkHC~~C~r 181 (393)
+.|..|+..-. -|-|||+.||+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGr 489 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGI 489 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCcc
Confidence 46999998775 39999999987
No 19
>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=52.86 E-value=7.3 Score=28.11 Aligned_cols=37 Identities=32% Similarity=0.838 Sum_probs=29.6
Q ss_pred ccccccCCCCCCCC-------ccccccCcccccc-ccccccccccccc
Q 016191 160 KECSTCKIPKPARS-------KHCSICNRCVARF-DHHCGWMNNCIGE 199 (393)
Q Consensus 160 ~~C~tC~~~kP~RS-------kHC~~C~rCV~r~-DHHC~WinnCVG~ 199 (393)
..|..|+..-|+-| .-|..|..|+... +++|| ||=|.
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 46888888777765 5588999999988 99998 77775
No 20
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=52.52 E-value=27 Score=33.79 Aligned_cols=31 Identities=23% Similarity=0.524 Sum_probs=26.4
Q ss_pred CccccccCccccccccccccccccccccchh
Q 016191 173 SKHCSICNRCVARFDHHCGWMNNCIGERNTR 203 (393)
Q Consensus 173 SkHC~~C~rCV~r~DHHC~WinnCVG~~N~r 203 (393)
.+-||.|+---.-...||.--|-||-+-.|+
T Consensus 148 ~~kCSTCki~KPARSKHCsiCNrCV~rfDHH 178 (341)
T KOG1312|consen 148 NVKCSTCKIRKPARSKHCSICNRCVHRFDHH 178 (341)
T ss_pred CCccccccCCCccccccchHHHHHHHHhccc
Confidence 4679999988888899999999999877665
No 21
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=49.55 E-value=7.5 Score=36.42 Aligned_cols=13 Identities=23% Similarity=0.118 Sum_probs=10.5
Q ss_pred ccccccccccccc
Q 016191 182 CVARFDHHCGWMN 194 (393)
Q Consensus 182 CV~r~DHHC~Win 194 (393)
=..+.+|||||..
T Consensus 37 Hrsye~H~Cp~~~ 49 (250)
T KOG3183|consen 37 HRSYESHHCPKGL 49 (250)
T ss_pred cchHhhcCCCccc
Confidence 4578899999974
No 22
>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=46.81 E-value=6.2 Score=24.40 Aligned_cols=21 Identities=29% Similarity=0.903 Sum_probs=15.4
Q ss_pred cccccCCCCCCCCccccccCc
Q 016191 161 ECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 161 ~C~tC~~~kP~RSkHC~~C~r 181 (393)
.|.+|...-++++.+|..|+.
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 588888888888888888863
No 23
>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=46.11 E-value=9.5 Score=27.07 Aligned_cols=24 Identities=25% Similarity=0.707 Sum_probs=16.6
Q ss_pred cccccccCCCCCCCCccccc--cCcc
Q 016191 159 EKECSTCKIPKPARSKHCSI--CNRC 182 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~--C~rC 182 (393)
...|..|...-|+|+..|+. ||++
T Consensus 17 k~ICrkCyarl~~~A~nCRKkkCGhs 42 (52)
T PF01020_consen 17 KMICRKCYARLPPRATNCRKKKCGHS 42 (52)
T ss_dssp -EEETTT--EE-TTSSS-TSSSCTS-
T ss_pred ceecccccCcCCCCccceecccCCCC
Confidence 57899999999999999998 8765
No 24
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=43.38 E-value=1.5e+02 Score=29.11 Aligned_cols=32 Identities=22% Similarity=0.514 Sum_probs=29.2
Q ss_pred CCccccccCccccccccccccccccccccchh
Q 016191 172 RSKHCSICNRCVARFDHHCGWMNNCIGERNTR 203 (393)
Q Consensus 172 RSkHC~~C~rCV~r~DHHC~WinnCVG~~N~r 203 (393)
+.+.|..|+.-....-|||.--+.||.+.-|+
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHH 139 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHH 139 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhccccC
Confidence 78899999999999999999999999998776
No 25
>PF12773 DZR: Double zinc ribbon
Probab=43.29 E-value=17 Score=25.02 Aligned_cols=33 Identities=27% Similarity=0.567 Sum_probs=20.0
Q ss_pred cccccccCCCCC---CCCccccccCccccccccccc
Q 016191 159 EKECSTCKIPKP---ARSKHCSICNRCVARFDHHCG 191 (393)
Q Consensus 159 ~~~C~tC~~~kP---~RSkHC~~C~rCV~r~DHHC~ 191 (393)
.++|..|...-+ ...+.|..|+.=+...+.+|+
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~ 47 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCP 47 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccC
Confidence 356666666555 234567777666666666665
No 26
>PF12773 DZR: Double zinc ribbon
Probab=39.94 E-value=21 Score=24.59 Aligned_cols=22 Identities=32% Similarity=0.869 Sum_probs=20.1
Q ss_pred cccccccCCCCCCCCccccccC
Q 016191 159 EKECSTCKIPKPARSKHCSICN 180 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~C~ 180 (393)
..+|..|....++.++.|..|+
T Consensus 29 ~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 29 KKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCcCCcCCCcCCcCccCccc
Confidence 4789999999999999999986
No 27
>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=38.21 E-value=15 Score=29.32 Aligned_cols=11 Identities=27% Similarity=0.767 Sum_probs=8.6
Q ss_pred ccccccccccc
Q 016191 188 HHCGWMNNCIG 198 (393)
Q Consensus 188 HHC~WinnCVG 198 (393)
.||||+|.-..
T Consensus 56 ~~CPwv~~~~q 66 (91)
T PF08600_consen 56 EYCPWVNPSTQ 66 (91)
T ss_pred ccCCccCCccc
Confidence 68999987653
No 28
>COG3936 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]
Probab=30.71 E-value=86 Score=30.41 Aligned_cols=38 Identities=26% Similarity=0.432 Sum_probs=18.7
Q ss_pred chhHHHHHHHHHHHHHHH---------HHHhcCCCCccCChh-hHHHH
Q 016191 2 DVQWLLIIHGLLTLLVVV---------SFLCGQWPIFEGTPI-QRIHY 39 (393)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~---------~~lfG~~p~~r~t~i-~~~~~ 39 (393)
|..|+++.-.++.+...+ ..++|--|.|.++|+ ||+..
T Consensus 148 ~~kw~l~~sfV~~~~fl~yfs~n~a~h~~~~~~fp~f~~~if~GW~fy 195 (349)
T COG3936 148 DTKWFLIASFVFYLCFLVYFSTNLAQHILLFLTFPYFFAMIFMGWYFY 195 (349)
T ss_pred CchHHHHHHHHHHHHHHHHHhcCCcchhHHHhhhHHHHHHHHHHHHHH
Confidence 345665554444443333 234555566666654 44444
No 29
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=29.75 E-value=29 Score=20.39 Aligned_cols=21 Identities=29% Similarity=0.719 Sum_probs=17.7
Q ss_pred cccccCCCCCCCCccccccCc
Q 016191 161 ECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 161 ~C~tC~~~kP~RSkHC~~C~r 181 (393)
.|..|.....+++..|..|+.
T Consensus 4 ~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 4 ECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cCCCCCCcChhhhccccccCC
Confidence 588898888888889988874
No 30
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=29.08 E-value=31 Score=25.51 Aligned_cols=23 Identities=35% Similarity=0.920 Sum_probs=20.7
Q ss_pred cccccccCCCCCCCCccccccCc
Q 016191 159 EKECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~C~r 181 (393)
.+-|..|+...|.-++-|.+|+.
T Consensus 4 ~kAC~~Ck~l~~~d~e~CP~Cgs 26 (64)
T COG2093 4 EKACKNCKRLTPEDTEICPVCGS 26 (64)
T ss_pred hHHHhhccccCCCCCccCCCCCC
Confidence 46799999999999999999986
No 31
>PRK00944 hypothetical protein; Provisional
Probab=28.10 E-value=75 Score=28.73 Aligned_cols=31 Identities=29% Similarity=0.518 Sum_probs=28.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCccCChh
Q 016191 4 QWLLIIHGLLTLLVVVSFLCGQWPIFEGTPI 34 (393)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~lfG~~p~~r~t~i 34 (393)
.|++++.+++++.++.++.+||.|...=+.|
T Consensus 15 ~w~~~~~~~~~~~a~~L~~mGR~pIC~CG~v 45 (195)
T PRK00944 15 FWLLAALAVLALQALILYAMGRVPICECGYV 45 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCccccCcce
Confidence 6899999999999999999999998877776
No 32
>KOG1710 consensus MYND Zn-finger and ankyrin repeat protein [General function prediction only]
Probab=27.37 E-value=25 Score=34.12 Aligned_cols=21 Identities=43% Similarity=0.844 Sum_probs=16.4
Q ss_pred cccccccCCCCCCCCccccccCc
Q 016191 159 EKECSTCKIPKPARSKHCSICNR 181 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~C~r 181 (393)
-++|+||...+| +|.|+.|+-
T Consensus 319 ~~fCstCG~~ga--~KrCs~CKa 339 (396)
T KOG1710|consen 319 CQFCSTCGHPGA--KKRCSQCKA 339 (396)
T ss_pred cccccccCCCCc--cchhhhhHH
Confidence 379999998776 577888873
No 33
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=27.33 E-value=23 Score=31.01 Aligned_cols=23 Identities=30% Similarity=0.645 Sum_probs=16.9
Q ss_pred cccccCCCCCCCCccccccCcccccc
Q 016191 161 ECSTCKIPKPARSKHCSICNRCVARF 186 (393)
Q Consensus 161 ~C~tC~~~kP~RSkHC~~C~rCV~r~ 186 (393)
...+|+.. ..+||-.|..|+.|.
T Consensus 142 ~s~sC~~~---~~~~CG~C~~C~~r~ 164 (169)
T cd01995 142 LTWSCYNG---GEKHCGECDSCLLRK 164 (169)
T ss_pred heeeccCC---CCCCCCCCHHHHHHH
Confidence 45666644 338999999999874
No 34
>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 KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=26.90 E-value=18 Score=37.05 Aligned_cols=25 Identities=28% Similarity=0.744 Sum_probs=19.3
Q ss_pred cccccccCCCC--CCCCccccccCccc
Q 016191 159 EKECSTCKIPK--PARSKHCSICNRCV 183 (393)
Q Consensus 159 ~~~C~tC~~~k--P~RSkHC~~C~rCV 183 (393)
.++|+.|...= --|-|||+.||+-+
T Consensus 180 V~~CP~Ca~~F~l~rRrHHCRLCG~Vm 206 (505)
T KOG1842|consen 180 VQFCPECANSFGLTRRRHHCRLCGRVM 206 (505)
T ss_pred ccccccccchhhhHHHhhhhhhcchHH
Confidence 47999997543 34889999999854
No 36
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=26.65 E-value=7.1e+02 Score=25.54 Aligned_cols=31 Identities=23% Similarity=0.427 Sum_probs=24.2
Q ss_pred ccccccCCCCCCCCccccccCcccccccccc
Q 016191 160 KECSTCKIPKPARSKHCSICNRCVARFDHHC 190 (393)
Q Consensus 160 ~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC 190 (393)
..|+.|+..-|....||..|+.-..+..++.
T Consensus 222 ~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 222 RSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 4699999998887778888888776655544
No 37
>PRK04561 tatA twin arginine translocase protein A; Provisional
Probab=25.81 E-value=56 Score=25.14 Aligned_cols=14 Identities=29% Similarity=0.449 Sum_probs=8.9
Q ss_pred HHHHHHHHHhcCCC
Q 016191 14 TLLVVVSFLCGQWP 27 (393)
Q Consensus 14 ~~~~~~~~lfG~~p 27 (393)
+.++|++++||...
T Consensus 11 IIlvIvlLlFG~~K 24 (75)
T PRK04561 11 VVLVIVLLVFGTKR 24 (75)
T ss_pred HHHHHHHHHhCCcc
Confidence 33456678899653
No 38
>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=25.69 E-value=21 Score=26.39 Aligned_cols=24 Identities=33% Similarity=0.696 Sum_probs=11.5
Q ss_pred ccccccCCCC--CCCCccccccCccc
Q 016191 160 KECSTCKIPK--PARSKHCSICNRCV 183 (393)
Q Consensus 160 ~~C~tC~~~k--P~RSkHC~~C~rCV 183 (393)
..|..|+..= -.|-|||+.||+.|
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVV 35 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EE
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEE
Confidence 5677776432 35889999999865
No 39
>PRK03554 tatA twin arginine translocase protein A; Provisional
Probab=25.67 E-value=52 Score=26.12 Aligned_cols=14 Identities=36% Similarity=0.529 Sum_probs=8.3
Q ss_pred HHHHHHHHHHhcCC
Q 016191 13 LTLLVVVSFLCGQW 26 (393)
Q Consensus 13 ~~~~~~~~~lfG~~ 26 (393)
++.++|+++|||..
T Consensus 10 lIIlvIvLLlFG~k 23 (89)
T PRK03554 10 LIIAVIVVLLFGTK 23 (89)
T ss_pred HHHHHHHHHHhCcc
Confidence 34455566778754
No 40
>PRK04598 tatA twin arginine translocase protein A; Provisional
Probab=25.10 E-value=55 Score=25.61 Aligned_cols=13 Identities=31% Similarity=0.468 Sum_probs=7.5
Q ss_pred HHHHHHHHHhcCC
Q 016191 14 TLLVVVSFLCGQW 26 (393)
Q Consensus 14 ~~~~~~~~lfG~~ 26 (393)
+.++|+++|||..
T Consensus 11 iIlvivlllFG~k 23 (81)
T PRK04598 11 IIAVIVVLLFGTK 23 (81)
T ss_pred HHHHHHHHHhCcc
Confidence 3445566677754
No 41
>PRK02958 tatA twin arginine translocase protein A; Provisional
Probab=25.02 E-value=57 Score=24.99 Aligned_cols=14 Identities=29% Similarity=0.468 Sum_probs=8.8
Q ss_pred HHHHHHHHHhcCCC
Q 016191 14 TLLVVVSFLCGQWP 27 (393)
Q Consensus 14 ~~~~~~~~lfG~~p 27 (393)
+.++|++++||...
T Consensus 11 iIl~IvlllFG~kK 24 (73)
T PRK02958 11 IVLVIVVLVFGTKK 24 (73)
T ss_pred HHHHHHHHHhCcch
Confidence 34456777788653
No 42
>PRK01833 tatA twin arginine translocase protein A; Provisional
Probab=24.20 E-value=60 Score=24.92 Aligned_cols=13 Identities=15% Similarity=0.452 Sum_probs=8.2
Q ss_pred HHHHHHHHHhcCC
Q 016191 14 TLLVVVSFLCGQW 26 (393)
Q Consensus 14 ~~~~~~~~lfG~~ 26 (393)
+.++|++++||..
T Consensus 11 iIl~i~lllFG~k 23 (74)
T PRK01833 11 IIVAIIVLLFGTK 23 (74)
T ss_pred HHHHHHHHHhCcc
Confidence 3445667788864
No 43
>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=24.12 E-value=29 Score=21.38 Aligned_cols=21 Identities=29% Similarity=0.670 Sum_probs=8.5
Q ss_pred cccccCCCCCC-CCccccccCc
Q 016191 161 ECSTCKIPKPA-RSKHCSICNR 181 (393)
Q Consensus 161 ~C~tC~~~kP~-RSkHC~~C~r 181 (393)
.|..|+..... ...+|+.|+-
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 57777776666 6778888864
No 44
>PRK00720 tatA twin arginine translocase protein A; Provisional
Probab=23.85 E-value=61 Score=25.15 Aligned_cols=13 Identities=46% Similarity=0.700 Sum_probs=8.0
Q ss_pred HHHHHHHHHHhcC
Q 016191 13 LTLLVVVSFLCGQ 25 (393)
Q Consensus 13 ~~~~~~~~~lfG~ 25 (393)
++.++|+++|||.
T Consensus 10 lIIlvIvlllFG~ 22 (78)
T PRK00720 10 LIVLAVVLLLFGR 22 (78)
T ss_pred HHHHHHHHHHhCc
Confidence 3445566777884
No 45
>PRK01614 tatE twin arginine translocase protein A; Validated
Probab=23.54 E-value=61 Score=25.44 Aligned_cols=13 Identities=15% Similarity=0.332 Sum_probs=8.5
Q ss_pred HHHHHHHHHhcCC
Q 016191 14 TLLVVVSFLCGQW 26 (393)
Q Consensus 14 ~~~~~~~~lfG~~ 26 (393)
+.++|+++|||..
T Consensus 11 IIlvIvLLLFG~k 23 (85)
T PRK01614 11 VVGILIVLLFGTS 23 (85)
T ss_pred HHHHHHHHHhCcc
Confidence 3445667889965
No 46
>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=23.26 E-value=5.5e+02 Score=23.06 Aligned_cols=24 Identities=8% Similarity=0.029 Sum_probs=13.1
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhh
Q 016191 305 WQDHMNWLRKVNEARASAAALKAS 328 (393)
Q Consensus 305 ~~~~~~~~~~~~~~~~~~~~~~~~ 328 (393)
.+|+.+.++.+++++...+.+++.
T Consensus 67 ~~e~~~~~~~l~ea~~~i~~i~~~ 90 (199)
T PF10112_consen 67 DREYEYIREILEEAKEKIRRIEKA 90 (199)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555556666666555555443
No 47
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=21.18 E-value=2e+02 Score=27.78 Aligned_cols=56 Identities=23% Similarity=0.338 Sum_probs=42.6
Q ss_pred cccccccCCCCCCCCccccccCccccccccccccccccccccchhhHHHHHHHHHHHHHHHHHHHHH
Q 016191 159 EKECSTCKIPKPARSKHCSICNRCVARFDHHCGWMNNCIGERNTRYFMAFLLWHLFLCLYGIVALGF 225 (393)
Q Consensus 159 ~~~C~tC~~~kP~RSkHC~~C~rCV~r~DHHC~WinnCVG~~N~r~FllFL~~~~~~~~y~~~~~~~ 225 (393)
...|++|+.=--.=-|||.-=|+||.-..| +=.-.|+.++.-....+.++......
T Consensus 116 THHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ryFFlFl~~ltlat~~~~i~~~~~w~ 171 (309)
T KOG1313|consen 116 THHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RYFFLFLFYLTLATSYAAIMCVYTWI 171 (309)
T ss_pred cchhhHHhhHhhccccCCchhhcccccccc-----------hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357888876666667999999999998887 55678999987777777777554443
No 48
>PRK03625 tatE twin arginine translocase protein E; Validated
Probab=20.89 E-value=75 Score=23.92 Aligned_cols=16 Identities=25% Similarity=0.405 Sum_probs=10.5
Q ss_pred HHHHHHHHHHhcCCCC
Q 016191 13 LTLLVVVSFLCGQWPI 28 (393)
Q Consensus 13 ~~~~~~~~~lfG~~p~ 28 (393)
++.++|++++||+...
T Consensus 10 liIlvI~lllFGpkKL 25 (67)
T PRK03625 10 LVVAALVVLLFGTKKL 25 (67)
T ss_pred HHHHHHHHHHcCccHH
Confidence 4445666788997653
No 49
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=20.86 E-value=87 Score=29.20 Aligned_cols=6 Identities=50% Similarity=0.911 Sum_probs=3.0
Q ss_pred CCCCHh
Q 016191 362 NIYDKG 367 (393)
Q Consensus 362 N~YD~G 367 (393)
+-||.|
T Consensus 143 ~~y~~~ 148 (217)
T PF07423_consen 143 MTYDSG 148 (217)
T ss_pred ccccCC
Confidence 335555
No 50
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.48 E-value=27 Score=35.24 Aligned_cols=25 Identities=40% Similarity=0.905 Sum_probs=18.7
Q ss_pred CCCCCccccccCccccccccccccccccccc
Q 016191 169 KPARSKHCSICNRCVARFDHHCGWMNNCIGE 199 (393)
Q Consensus 169 kP~RSkHC~~C~rCV~r~DHHC~WinnCVG~ 199 (393)
+-.|-.||..|+. +|| +|+.||||.
T Consensus 10 sl~~p~l~~tC~e----~~h--~w~~~c~ga 34 (460)
T KOG1398|consen 10 SLARPSLAETCDE----ADH--SWVANCIGA 34 (460)
T ss_pred hhcCchHhhhhhh----ccC--CcccchhHH
Confidence 3455667777765 677 789999996
No 51
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=20.33 E-value=66 Score=27.14 Aligned_cols=10 Identities=20% Similarity=0.624 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 016191 5 WLLIIHGLLT 14 (393)
Q Consensus 5 ~~~~~~~~~~ 14 (393)
|++++.++++
T Consensus 2 W~l~~iii~~ 11 (130)
T PF12273_consen 2 WVLFAIIIVA 11 (130)
T ss_pred eeeHHHHHHH
Confidence 4444333333
Done!