Query 013443
Match_columns 443
No_of_seqs 334 out of 1711
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 03:54:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013443.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013443hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1311 DHHC-type Zn-finger pr 100.0 3.9E-51 8.5E-56 408.4 21.4 272 24-313 1-278 (299)
2 KOG1315 Predicted DHHC-type Zn 100.0 1.5E-42 3.4E-47 343.8 18.1 208 80-302 46-259 (307)
3 PF01529 zf-DHHC: DHHC palmito 100.0 7E-39 1.5E-43 294.5 10.7 172 95-277 2-173 (174)
4 KOG1314 DHHC-type Zn-finger pr 100.0 7.7E-37 1.7E-41 300.2 12.8 233 47-311 18-273 (414)
5 COG5273 Uncharacterized protei 100.0 4.4E-34 9.5E-39 286.2 14.3 164 92-277 68-232 (309)
6 KOG1313 DHHC-type Zn-finger pr 100.0 9.5E-34 2.1E-38 271.0 11.5 154 151-305 102-280 (309)
7 KOG1312 DHHC-type Zn-finger pr 100.0 5.5E-31 1.2E-35 253.2 10.0 169 89-278 107-291 (341)
8 KOG0509 Ankyrin repeat and DHH 99.9 1.3E-28 2.8E-33 258.5 4.5 146 152-299 421-583 (600)
9 KOG1311 DHHC-type Zn-finger pr 92.7 0.36 7.9E-06 48.4 7.5 41 165-205 113-164 (299)
10 PF01529 zf-DHHC: DHHC palmito 92.6 0.39 8.4E-06 43.8 7.0 58 148-216 59-116 (174)
11 COG5273 Uncharacterized protei 90.5 1.4 3.1E-05 44.8 9.1 117 150-277 122-244 (309)
12 KOG0509 Ankyrin repeat and DHH 90.4 0.24 5.2E-06 54.0 3.6 53 150-203 324-376 (600)
13 PRK04136 rpl40e 50S ribosomal 60.1 5.2 0.00011 29.5 1.3 24 150-173 13-36 (48)
14 PRK15103 paraquat-inducible me 59.8 1.1E+02 0.0024 32.5 11.7 33 150-182 220-252 (419)
15 TIGR00155 pqiA_fam integral me 54.7 1.5E+02 0.0032 31.4 11.6 31 151-181 215-246 (403)
16 PTZ00303 phosphatidylinositol 53.7 6.9 0.00015 44.2 1.5 25 17-41 261-286 (1374)
17 PF06906 DUF1272: Protein of u 52.6 6.6 0.00014 29.9 0.8 35 154-191 8-50 (57)
18 PF13240 zinc_ribbon_2: zinc-r 52.0 8 0.00017 24.0 1.0 21 153-173 1-21 (23)
19 PHA02680 ORF090 IMV phosphoryl 51.0 74 0.0016 26.5 6.7 24 253-276 59-82 (91)
20 TIGR00155 pqiA_fam integral me 50.7 1.5E+02 0.0033 31.3 10.9 32 151-182 13-50 (403)
21 KOG1398 Uncharacterized conser 43.5 45 0.00097 35.1 5.4 24 162-191 11-34 (460)
22 KOG1314 DHHC-type Zn-finger pr 43.4 4.1E+02 0.0089 27.8 12.5 43 150-203 104-146 (414)
23 KOG1313 DHHC-type Zn-finger pr 41.5 1.6E+02 0.0035 29.7 8.7 136 150-301 115-279 (309)
24 PF00641 zf-RanBP: Zn-finger i 38.2 14 0.00031 24.0 0.6 22 152-173 5-26 (30)
25 PF13248 zf-ribbon_3: zinc-rib 38.2 17 0.00036 23.0 0.9 22 152-173 3-24 (26)
26 PF07649 C1_3: C1-like domain; 36.0 13 0.00028 24.2 0.1 22 152-173 1-23 (30)
27 PF01020 Ribosomal_L40e: Ribos 34.3 26 0.00056 26.3 1.5 24 151-174 17-42 (52)
28 PF12773 DZR: Double zinc ribb 32.3 31 0.00068 24.8 1.7 34 151-184 12-48 (50)
29 KOG1315 Predicted DHHC-type Zn 32.1 3E+02 0.0066 28.1 9.3 50 164-213 108-168 (307)
30 PF11014 DUF2852: Protein of u 32.0 71 0.0015 27.9 4.1 21 237-257 8-28 (115)
31 PF10864 DUF2663: Protein of u 30.6 2.8E+02 0.006 24.8 7.6 17 196-212 23-39 (130)
32 COG1552 RPL40A Ribosomal prote 30.4 11 0.00023 28.0 -1.1 24 150-173 13-36 (50)
33 PF08600 Rsm1: Rsm1-like; Int 30.3 26 0.00056 29.1 1.1 13 178-190 54-66 (91)
34 KOG1842 FYVE finger-containing 29.1 16 0.00034 38.9 -0.5 27 150-176 179-207 (505)
35 KOG3183 Predicted Zn-finger pr 28.8 26 0.00057 34.3 1.0 12 175-186 38-49 (250)
36 TIGR02484 CitB CitB domain pro 28.3 1.5E+02 0.0033 31.1 6.5 16 165-184 47-62 (372)
37 PRK15103 paraquat-inducible me 28.2 3.7E+02 0.008 28.6 9.6 29 152-180 11-45 (419)
38 PF10571 UPF0547: Uncharacteri 27.2 35 0.00077 21.8 1.1 22 152-173 1-22 (26)
39 PF01363 FYVE: FYVE zinc finge 26.5 19 0.00042 27.7 -0.3 26 151-176 9-36 (69)
40 cd00546 QFR_TypeD_subunitC Qui 26.4 3.6E+02 0.0077 24.0 7.5 20 230-249 55-74 (124)
41 PHA02898 virion envelope prote 25.9 2.7E+02 0.0058 23.3 6.2 26 252-277 57-83 (92)
42 PF14127 DUF4294: Domain of un 25.6 51 0.0011 30.4 2.2 38 266-307 103-140 (157)
43 PRK13603 fumarate reductase su 25.5 3.8E+02 0.0083 23.8 7.5 20 230-249 55-74 (126)
44 PRK04987 fumarate reductase su 25.1 3.8E+02 0.0083 24.0 7.5 21 229-249 58-78 (130)
45 COG5249 RER1 Golgi protein inv 22.4 6.1E+02 0.013 23.3 10.0 10 282-291 166-175 (180)
No 1
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=3.9e-51 Score=408.37 Aligned_cols=272 Identities=37% Similarity=0.676 Sum_probs=216.2
Q ss_pred eeeeccCcEEEcCCeEEecCCcchhHHHHHHHHHhhheeeeeehhhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhhcC
Q 013443 24 YQTWKGSNIFFLQGRLIFGPDVRSLGLTIFLIVAPMSVFCVFVARKLMDDYPHHLGISIMVVAVTFTVYDLLLLLLTSGR 103 (443)
Q Consensus 24 yq~~~g~n~F~c~GR~i~Gpd~~~l~~t~~LI~~p~~lf~vfv~~~l~~~~~~~~~~~i~~i~~v~~il~l~~ll~ts~~ 103 (443)
++.+.|++.+-++|+.+.++.....+.+.++++++.. |+++....+... .....+.++..+|+++.++.++.++.+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~l~~~---~~~~~~~~~~~if~~~~~~~~~~~~~~ 76 (299)
T KOG1311|consen 1 FADFLGNRIPRRGGRILDPPVALPVLVTYVLLVGSET-FFVFLPPLLPRG---GVSPAVLVLGAIFFLLNILNLMLACFR 76 (299)
T ss_pred CCcCccccccCCCceeeccccchhHHHHHHHHhhheE-EEEEEeeecCCc---ccchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4678999999999999999999999988888887765 666666555441 123444555666777777777777666
Q ss_pred ---CCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceeEEEcCeeeceeeccccccccCCCCccCCcCCcccccCCc
Q 013443 104 ---DPGIIPRNAHPPEPEGFDGNADVGAGQTPQLRLPRIKEVEVNGITVKIKYCDTCMLYRPPRCSHCSICNNCVERFDH 180 (443)
Q Consensus 104 ---DPGiiPr~~~p~~~e~~~~~~~~~~~~~~~~~~p~~k~v~vng~~v~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDH 180 (443)
|||++|++..+ ..+. . .+.++.+++.++|..++.+||.+|+.+||||||||++||+||+||||
T Consensus 77 ~~sdpg~~p~~~~~----~~~~--------~--~~~~~~~~~~~~~~~~~~~~C~~C~~~rPpRs~HCsvC~~CV~rfDH 142 (299)
T KOG1311|consen 77 MLSDPGIVPRADDE----QIED--------P--ERAPLYKNVDVNGIQVEWKYCDTCQLYRPPRSSHCSVCNNCVLRFDH 142 (299)
T ss_pred ccCCCceecCcccC----CCCC--------c--cccccCCCcccCCcccceEEcCcCcccCCCCcccchhhcccccccCC
Confidence 99999997511 1110 0 14566778889999999999999999999999999999999999999
Q ss_pred cCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccchhhHH--HHhhhcchhHHHHHHHHHHHHHHHHHH
Q 013443 181 HCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRIMDAEYTTIW--KAMIKTPASIVLIIYTFIAMWFVGGLT 258 (443)
Q Consensus 181 HCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~--~~~~~~~~~i~l~i~~~l~~~~v~~L~ 258 (443)
||||+|||||+||||||++|++++++++++.++++++.+...........+ .........+++.++++++.++++.|+
T Consensus 143 HC~WvnnCVG~rNyr~F~~f~~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~ 222 (299)
T KOG1311|consen 143 HCPWLNNCIGERNYRYFVLFLFYLALGVLLALAFLFYELLQRADNLKVNLTPVLIPAGTFLSALLGLLSALFLAFTSALL 222 (299)
T ss_pred CCCCccceECCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999988887665443333332 222334445666778888999999999
Q ss_pred HHHHHHHHhCccchhhhhc-ccCCCCCCCChhHHHHHHHhcCCCCCCCcccccccC
Q 013443 259 AFHLYLISTNQTTYENFRY-RYDRRANPYNKGVVDNFKEIFCSSIPPSKNNFRAMV 313 (443)
Q Consensus 259 ~~hlylI~~N~TT~E~~r~-~~~~~~npy~~G~~~N~~evfg~~~~ps~~~fr~~~ 313 (443)
.+|+++|.+|+||+|.++. +++.+.++|++|.++|++++||.+.+++....+...
T Consensus 223 ~fh~~li~~~~Tt~e~~~~~~~~~~~~~~~~g~~~n~~~~~~~~~~~~~~~p~~~~ 278 (299)
T KOG1311|consen 223 CFHIYLIKSGSTTYESIKSLDFVSRSNPYDLGLLKNLQEVFGGPLPLSWLSPFARS 278 (299)
T ss_pred HhheeeEecCcchhhhhhccccccccCCCchhHHHHHHHHhCCCCCcccccccccC
Confidence 9999999999999999884 444446999999999999999999999887776543
No 2
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=1.5e-42 Score=343.80 Aligned_cols=208 Identities=30% Similarity=0.584 Sum_probs=147.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceeEEEcCeeeceeecccccc
Q 013443 80 ISIMVVAVTFTVYDLLLLLLTSGRDPGIIPRNAHPPEPEGFDGNADVGAGQTPQLRLPRIKEVEVNGITVKIKYCDTCML 159 (443)
Q Consensus 80 ~~i~~i~~v~~il~l~~ll~ts~~DPGiiPr~~~p~~~e~~~~~~~~~~~~~~~~~~p~~k~v~vng~~v~~kyC~tC~i 159 (443)
+..+++...+.++.+.+++.+.++|||.+|..+.+..++ .+.... + ...++.+.....+...+.|||++|+.
T Consensus 46 ~~~ll~~~~ll~m~~~sy~~~vf~~pg~vp~~~~~~~~~-~~~~~~---~----~~~~~~~~~~~~~~~g~~R~C~kC~~ 117 (307)
T KOG1315|consen 46 VLLLLLFHLLLIMFLWSYFRTVFTDPGRVPDSYRPSVED-EDSLEN---G----SDNERDLPGYTRTSDGAVRYCDKCKC 117 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHheeEecCCCCccccCCCcCc-cccccc---c----CcccccceeeEecCCCCceeeccccc
Confidence 334444555566677889999999999999988764322 111000 0 01112233334455568999999999
Q ss_pred ccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccch--hhHHHHhhhc
Q 013443 160 YRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRIMDAEY--TTIWKAMIKT 237 (443)
Q Consensus 160 ~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~ 237 (443)
+||||||||++|++||+||||||||+|||||.+|||||++||+|+++++++.++.....+........ ...+ .
T Consensus 118 iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~~lv~~~~~~~~~~~~~~~~~~~~-----~ 192 (307)
T KOG1315|consen 118 IKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIYVLVTTLIGFTKYFQGGAGPSSLL-----L 192 (307)
T ss_pred ccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCchhH-----H
Confidence 99999999999999999999999999999999999999999999999999988776655544431100 0001 1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHhCccchhhhhcc----cCCCCCCCChhHHHHHHHhcCCCC
Q 013443 238 PASIVLIIYTFIAMWFVGGLTAFHLYLISTNQTTYENFRYR----YDRRANPYNKGVVDNFKEIFCSSI 302 (443)
Q Consensus 238 ~~~i~l~i~~~l~~~~v~~L~~~hlylI~~N~TT~E~~r~~----~~~~~npy~~G~~~N~~evfg~~~ 302 (443)
...+++++..+.+.+.+.+|+++|+|||++|+||+|.++.. .....|.|+. ..|+.++||++.
T Consensus 193 ~~~~~~~~~~~~f~i~l~~~l~~h~~Li~~N~TTiE~~~~~~~~~~~~~~~~~~~--~~n~~~vfg~~~ 259 (307)
T KOG1315|consen 193 FFIVFLFLVAIAFSISLSGLLCFHTYLILKNKTTIEAYKSPVFRSGLHNKNGFNL--YVNFREVFGSNL 259 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhhccccccccccccCCcce--eecHHHHhCCCc
Confidence 11223333344445556679999999999999999998753 2234566666 789999999764
No 3
>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=7e-39 Score=294.51 Aligned_cols=172 Identities=36% Similarity=0.727 Sum_probs=123.0
Q ss_pred HHHHHhhcCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceeEEEcCeeeceeeccccccccCCCCccCCcCCcc
Q 013443 95 LLLLLTSGRDPGIIPRNAHPPEPEGFDGNADVGAGQTPQLRLPRIKEVEVNGITVKIKYCDTCMLYRPPRCSHCSICNNC 174 (443)
Q Consensus 95 ~~ll~ts~~DPGiiPr~~~p~~~e~~~~~~~~~~~~~~~~~~p~~k~v~vng~~v~~kyC~tC~i~RPpRs~HCs~C~~C 174 (443)
++++++.++|||++|+.....+....+. +. ......+....+...+.+||.+|+++||+|||||+.||+|
T Consensus 2 ~~~~~~~~~dPG~~~~~~~~~~~~~~~~--~~--------~~~~~~~~~~~~~~~~~~~C~~C~~~kp~Rs~HC~~C~~C 71 (174)
T PF01529_consen 2 WSYFLTIFIDPGYVPRSNPDEDQRQEEK--EE--------EQNQSIDSPEDDENGELKYCSTCKIIKPPRSHHCRVCNRC 71 (174)
T ss_pred EEehhhheECCcccCCcccccccccccc--cc--------ccchhhhhhccccCCCCEECcccCCcCCCcceeccccccc
Confidence 3567888999999999721111110000 00 0011112223344567899999999999999999999999
Q ss_pred cccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccchhhHHHHhhhcchhHHHHHHHHHHHHHH
Q 013443 175 VERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRIMDAEYTTIWKAMIKTPASIVLIIYTFIAMWFV 254 (443)
Q Consensus 175 V~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~i~l~i~~~l~~~~v 254 (443)
|+||||||||+|||||++|||+|++|+++.++++++.++.++..+...........+... .....+++++++++.++++
T Consensus 72 V~~~DHHC~w~~~cIG~~N~~~F~~fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 150 (174)
T PF01529_consen 72 VLRFDHHCPWLGNCIGRRNHRYFLLFLLYLCLYCLYFFILSLYYLVRYIPSISFSSFWIF-SNFSSIFLLIISIFFFIFV 150 (174)
T ss_pred cccccccchhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccc-hhhhHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999888776665543322211111100 1111255666677777888
Q ss_pred HHHHHHHHHHHHhCccchhhhhc
Q 013443 255 GGLTAFHLYLISTNQTTYENFRY 277 (443)
Q Consensus 255 ~~L~~~hlylI~~N~TT~E~~r~ 277 (443)
+.|+++|+++|++|+||+|.+|.
T Consensus 151 ~~l~~~~~~~i~~n~Tt~E~~~~ 173 (174)
T PF01529_consen 151 GFLLIFQLYLILRNITTYERIKR 173 (174)
T ss_pred HHHHHHHHHHHHcCCcHHHHHHc
Confidence 99999999999999999999874
No 4
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=7.7e-37 Score=300.24 Aligned_cols=233 Identities=23% Similarity=0.448 Sum_probs=148.9
Q ss_pred hhHHHHHHHHHhhheeeeeehhhhcccCCCchhHHHHHHHHHHHHHHHHHHHHhhcCCCCccCCCCCCCCCCCCCCCCCC
Q 013443 47 SLGLTIFLIVAPMSVFCVFVARKLMDDYPHHLGISIMVVAVTFTVYDLLLLLLTSGRDPGIIPRNAHPPEPEGFDGNADV 126 (443)
Q Consensus 47 ~l~~t~~LI~~p~~lf~vfv~~~l~~~~~~~~~~~i~~i~~v~~il~l~~ll~ts~~DPGiiPr~~~p~~~e~~~~~~~~ 126 (443)
.+.++++.++...+++.--...+ ..+...+..-.+.+.+.+.+.+..|+.++++.||++|++|+|..+.+
T Consensus 18 i~alsiit~i~~~~~~~n~lww~---p~ss~~g~~n~i~f~~~~~m~~~ny~~A~~~gPG~vp~~wkPe~~~D------- 87 (414)
T KOG1314|consen 18 ITALSIITIITSTTGYMNSLWWF---PLSSFLGVPNQITFLLWTSMILYNYFNAIFTGPGFVPLGWKPENPKD------- 87 (414)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhc---cccchhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCChh-------
Confidence 45566666666555543111111 11222333333344455566778899999999999999999844322
Q ss_pred CCCCCCCCCCCcceeEEEcCeeeceeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHH
Q 013443 127 GAGQTPQLRLPRIKEVEVNGITVKIKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTL 206 (443)
Q Consensus 127 ~~~~~~~~~~p~~k~v~vng~~v~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l 206 (443)
....+||..|+-||+||||||+.|||||.+|||||||+|||||..||-||+.||++..+
T Consensus 88 ---------------------~~~lqfCk~CqgYKapRSHHCrkCnrCvmkMDHHCPWinnCVG~aNh~~F~~FLlf~iv 146 (414)
T KOG1314|consen 88 ---------------------EMFLQFCKKCQGYKAPRSHHCRKCNRCVMKMDHHCPWINNCVGWANHAYFLRFLLFSIV 146 (414)
T ss_pred ---------------------HHHHHHHhhccCcCCCccccchHHHHHHHhhccCCcchhhcccccccHHHHHHHHHHHH
Confidence 12568999999999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHHH--HHH--hhhhhh--ccchhhHHHHhhhcchhHHHHHHH----HHHHHHHHHHHHHHHHHHHhCccchhhhh
Q 013443 207 LCIYVFAF--CWV--YIRRIM--DAEYTTIWKAMIKTPASIVLIIYT----FIAMWFVGGLTAFHLYLISTNQTTYENFR 276 (443)
Q Consensus 207 ~~~~~~~~--~~~--~i~~~~--~~~~~~~~~~~~~~~~~i~l~i~~----~l~~~~v~~L~~~hlylI~~N~TT~E~~r 276 (443)
.|+..... |.. .|.... ......+ ....-++.+++..+++ +..++.++.|++.|+..|.+|+|.+|.+-
T Consensus 147 G~ih~tiI~~~~~~~~Iy~~W~~~~g~~hl-p~v~ft~~~li~~vfslgla~gv~la~t~Lf~~qlk~Il~nrt~IE~wi 225 (414)
T KOG1314|consen 147 GCIHGTIILVCAQYRGIYFRWYIKYGLRHL-PIVFFTLSSLIALVFSLGLAIGVVLALTMLFFIQLKQILNNRTGIESWI 225 (414)
T ss_pred hcccceeeehhHHHHHHHHHHHhhcccccC-ceeeccHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHH
Confidence 77653211 111 111111 0000000 0001112222222222 22334566788899999999999999873
Q ss_pred -----cc---c-C----CCCCCCChhHHHHHHHhcCCCCCCCcccccc
Q 013443 277 -----YR---Y-D----RRANPYNKGVVDNFKEIFCSSIPPSKNNFRA 311 (443)
Q Consensus 277 -----~~---~-~----~~~npy~~G~~~N~~evfg~~~~ps~~~fr~ 311 (443)
+| + . .-.-|||.|+..|+++||...-.+--+...|
T Consensus 226 ~~Ka~~rr~~~~~d~~~~f~ypydlgWr~n~r~vf~~~~~~~gdg~~w 273 (414)
T KOG1314|consen 226 VEKAMDRREYYFNDDEGEFTYPYDLGWRINLREVFFQNKKEEGDGIEW 273 (414)
T ss_pred HHHHHHHHHhhccCCCCceeeeccccccccHHHHhhhccccCCCCccc
Confidence 11 1 1 1246999998889999998764333333333
No 5
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=100.00 E-value=4.4e-34 Score=286.20 Aligned_cols=164 Identities=33% Similarity=0.613 Sum_probs=118.5
Q ss_pred HHHHHHHHhhcCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceeEEEcCeeeceeeccccccccCCCCccCCcC
Q 013443 92 YDLLLLLLTSGRDPGIIPRNAHPPEPEGFDGNADVGAGQTPQLRLPRIKEVEVNGITVKIKYCDTCMLYRPPRCSHCSIC 171 (443)
Q Consensus 92 l~l~~ll~ts~~DPGiiPr~~~p~~~e~~~~~~~~~~~~~~~~~~p~~k~v~vng~~v~~kyC~tC~i~RPpRs~HCs~C 171 (443)
....+++.....|||+.+++.......+.. +.....+.....+||.+|+.+||+|||||+.|
T Consensus 68 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~C~~C~~~KP~RS~HC~~C 129 (309)
T COG5273 68 LASFSYLLLLVSDPGYLGENITLSGYRETI------------------SRLLDDGKFGTENFCSTCNIYKPPRSHHCSIC 129 (309)
T ss_pred hHHHhhHHHhhcCCCccCccccccchhhhh------------------hhhhhcCccccceeccccccccCCCCccchhh
Confidence 455677888899999998775432211100 11112234457799999999999999999999
Q ss_pred CcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccc-hhhHHHHhhhcchhHHHHHHHHHH
Q 013443 172 NNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRIMDAE-YTTIWKAMIKTPASIVLIIYTFIA 250 (443)
Q Consensus 172 ~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~~~~~-~~~~~~~~~~~~~~i~l~i~~~l~ 250 (443)
|+||+||||||||+|||||++|||+|++||+++....+++++.+++++....+.. ..+.+.... ......+..+.
T Consensus 130 n~CV~k~DHHC~Wi~nCVG~~N~r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~~~~~ 205 (309)
T COG5273 130 NRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLAICFL----IFGCSLLGVVF 205 (309)
T ss_pred cchhhccCccCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHHHHHH----HHhhhHHHHHH
Confidence 9999999999999999999999999999999999999888888877776654322 222221100 00011223334
Q ss_pred HHHHHHHHHHHHHHHHhCccchhhhhc
Q 013443 251 MWFVGGLTAFHLYLISTNQTTYENFRY 277 (443)
Q Consensus 251 ~~~v~~L~~~hlylI~~N~TT~E~~r~ 277 (443)
++++..++++|.+++..|+||+|.+..
T Consensus 206 f~~~~~~~~~~~~~~~~~~t~~e~~~~ 232 (309)
T COG5273 206 FIITTLLLLFLIYLILNNLTTIEFIQI 232 (309)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 556677889999999999999997753
No 6
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=100.00 E-value=9.5e-34 Score=271.01 Aligned_cols=154 Identities=32% Similarity=0.595 Sum_probs=117.4
Q ss_pred eeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccch-h-
Q 013443 151 IKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRIMDAEY-T- 228 (443)
Q Consensus 151 ~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~~~~~~-~- 228 (443)
.-+|.+|..+||||+|||++||+||++|||||||+|||||..||||||+|++|+++.+.|+.+.+.+.+........ .
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 36899999999999999999999999999999999999999999999999999999999988776544433221100 0
Q ss_pred -------hHH---------HHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhCccchhhhhccc-------CCCCCC
Q 013443 229 -------TIW---------KAMIKTPASIVLIIYTFIAMWFVGGLTAFHLYLISTNQTTYENFRYRY-------DRRANP 285 (443)
Q Consensus 229 -------~~~---------~~~~~~~~~i~l~i~~~l~~~~v~~L~~~hlylI~~N~TT~E~~r~~~-------~~~~np 285 (443)
..+ ..+..+ ....+.+.++..++.++.|+.+|.++|.++.|.+|...+.+ +.+.||
T Consensus 182 ay~~d~~h~~Pp~~i~r~~~~i~~t-~~~~~~fls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R~~~ 260 (309)
T KOG1313|consen 182 AYASDVAHVAPPPSILRVYKNITRT-SIANLWFLSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLRSNP 260 (309)
T ss_pred cccCcccccCCChhhhhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhccCCC
Confidence 000 111111 11123444555667788999999999999999999875332 345799
Q ss_pred CChhHHHHHHHhcCCCCCCC
Q 013443 286 YNKGVVDNFKEIFCSSIPPS 305 (443)
Q Consensus 286 y~~G~~~N~~evfg~~~~ps 305 (443)
++.|..+||+.++|-..-|+
T Consensus 261 ~n~g~k~nWr~fLg~~~~r~ 280 (309)
T KOG1313|consen 261 TNFGGKANWRNFLGLFRGRH 280 (309)
T ss_pred cccchHHHHHHhhccccCCc
Confidence 99999999999998776653
No 7
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=99.97 E-value=5.5e-31 Score=253.21 Aligned_cols=169 Identities=34% Similarity=0.658 Sum_probs=108.8
Q ss_pred HHHHHHHHHHHhhcCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcceeEEEcCeeeceeeccccccccCCCCccC
Q 013443 89 FTVYDLLLLLLTSGRDPGIIPRNAHPPEPEGFDGNADVGAGQTPQLRLPRIKEVEVNGITVKIKYCDTCMLYRPPRCSHC 168 (443)
Q Consensus 89 ~~il~l~~ll~ts~~DPGiiPr~~~p~~~e~~~~~~~~~~~~~~~~~~p~~k~v~vng~~v~~kyC~tC~i~RPpRs~HC 168 (443)
..++-.+++.+|+.+|||++.+.......+ +.|. ++++ ..+.+-|+||++.||.|++||
T Consensus 107 ~vivp~i~f~ltc~snpg~i~k~n~s~~~~----------------~ypY-Dy~i----f~k~~kCSTCki~KPARSKHC 165 (341)
T KOG1312|consen 107 LVIVPLIFFTLTCGSNPGIITKANESLFLH----------------VYPY-DYVI----FPKNVKCSTCKIRKPARSKHC 165 (341)
T ss_pred HHHHHHHHHhhhhcCCCCccchhhhcccee----------------ccCc-ccee----ecCCCccccccCCCccccccc
Confidence 334566788899999999996643111001 1111 1111 124578999999999999999
Q ss_pred CcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhccchh----hHHHHhhhcchhHH-
Q 013443 169 SICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVY-IRRIMDAEYT----TIWKAMIKTPASIV- 242 (443)
Q Consensus 169 s~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~-i~~~~~~~~~----~~~~~~~~~~~~i~- 242 (443)
|+||+||+||||||.|+|||||++|+|||++||++...++.|.++-.+.. +....+-.+. .+|-...+....++
T Consensus 166 siCNrCV~rfDHHCiWiNNCIG~~N~ryF~lFLL~~i~l~~yaivrlgfi~ln~~sdl~q~v~ilt~~~g~~ks~~~L~~ 245 (341)
T KOG1312|consen 166 SICNRCVHRFDHHCIWINNCIGAWNIRYFLLFLLTLISLATYAIVRLGFIVLNVMSDLYQEVYILTLGHGHVKSTVFLIQ 245 (341)
T ss_pred hHHHHHHHHhccceEeeecccccchHHHHHHHHHHHHHHHHHHHHHHHheehhhccccchheeeeeeeecchhhHHHHHH
Confidence 99999999999999999999999999999999999988888876544333 2111111000 01110001000000
Q ss_pred HH---------HHHHHH-HHHHHHHHHHHHHHHHhCccchhhhhcc
Q 013443 243 LI---------IYTFIA-MWFVGGLTAFHLYLISTNQTTYENFRYR 278 (443)
Q Consensus 243 l~---------i~~~l~-~~~v~~L~~~hlylI~~N~TT~E~~r~~ 278 (443)
.+ ..+++. ..++++-..+-+|+-++|+||.|+.+.+
T Consensus 246 yl~la~~~~v~~l~~~~~~~~~~~Y~~f~~y~~~t~~~~~~W~~~d 291 (341)
T KOG1312|consen 246 YLFLAFPRIVFMLGFVVVLSFLGGYLLFVLYLAATNQTTNEWYRGD 291 (341)
T ss_pred HHHHHhccceeeeehhhhhhHhHHHHHHHHHHHhccCCchhhhccc
Confidence 01 112221 2245667788899999999999988753
No 8
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=99.95 E-value=1.3e-28 Score=258.51 Aligned_cols=146 Identities=30% Similarity=0.735 Sum_probs=102.5
Q ss_pred eeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccchhhHH
Q 013443 152 KYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRIMDAEYTTIW 231 (443)
Q Consensus 152 kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~~~~~~~~~~ 231 (443)
+||.+|.+.||.|++||++|||||.||||||||++||||.+|||+|+.|+++....+.++++.+..++....... .+|
T Consensus 421 ~FC~~clirKp~rSkhc~vcnrcVarfDHhCPwi~ncVG~kNh~~F~~Fl~~l~~~~~~~l~~~~~y~~~~~~~~--~~~ 498 (600)
T KOG0509|consen 421 RFCLTCLIRKPLRSKHCSVCNRCVARFDHHCPWIGNCVGLKNHRLFVFFLLTLLTVIVFYLYLCLYYIMNLENAS--TIY 498 (600)
T ss_pred cceeeeeeecCCccchhhhhHHHHhccccCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhH--HHH
Confidence 699999999999999999999999999999999999999999999999999999999998888887775543321 122
Q ss_pred HHhh------hcchhHHHHHHHH---HHHHHHHHHHHHHHHHHHhCccchhhhhccc--------CCCCCCCChhHHHHH
Q 013443 232 KAMI------KTPASIVLIIYTF---IAMWFVGGLTAFHLYLISTNQTTYENFRYRY--------DRRANPYNKGVVDNF 294 (443)
Q Consensus 232 ~~~~------~~~~~i~l~i~~~---l~~~~v~~L~~~hlylI~~N~TT~E~~r~~~--------~~~~npy~~G~~~N~ 294 (443)
.... ..+-.+..-++.+ -..+-.+...+-|...++.+.||+|.++.+. ....+|++.|+.+|+
T Consensus 499 ~~~l~~~~~~~~~~~~~~~~~~n~~~~~t~~~~~~~~~~~~~~c~~~tt~e~~n~~r~~~~~~~~~~~~~~~s~g~~~Nl 578 (600)
T KOG0509|consen 499 VGFLIAVQAFRIPKPVTGNLLGNEDLNPTWGSTSTKCQHYNCACLHLTTNEQINVKRYEHLGIKRGPTRSPFSPGPIRNL 578 (600)
T ss_pred HHHHHHHHHHhCCccceeeeeeccccccccccccccccccceeeecccHHHHHHHHHhhccccccCcCCCCCCchhhhcc
Confidence 1110 0000000000000 0011112222334455889999999886321 224689999999999
Q ss_pred HHhcC
Q 013443 295 KEIFC 299 (443)
Q Consensus 295 ~evfg 299 (443)
.++|-
T Consensus 579 ~df~~ 583 (600)
T KOG0509|consen 579 VDFFL 583 (600)
T ss_pred hheee
Confidence 99884
No 9
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=92.68 E-value=0.36 Score=48.43 Aligned_cols=41 Identities=20% Similarity=0.337 Sum_probs=35.8
Q ss_pred CccCCcCCcccccCCccCccccceeeccch-----------HHHHHHHHHHH
Q 013443 165 CSHCSICNNCVERFDHHCPWVGQCIGLRNY-----------RFFFMFVFSTT 205 (443)
Q Consensus 165 s~HCs~C~~CV~rfDHHCpWv~nCIG~rNy-----------r~F~lFL~~~~ 205 (443)
.++|..|+..+-..-|||..-|+||-+.-| |-+-.|+.++.
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 799999999999999999999999988854 56778986555
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=92.58 E-value=0.39 Score=43.77 Aligned_cols=58 Identities=19% Similarity=0.419 Sum_probs=45.0
Q ss_pred eeceeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHH
Q 013443 148 TVKIKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCW 216 (443)
Q Consensus 148 ~v~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~ 216 (443)
+.+.++|..|+.-...+-|||..-|+||-+--| +-+=.|+++.....++.++.....+
T Consensus 59 p~Rs~HC~~C~~CV~~~DHHC~w~~~cIG~~N~-----------~~F~~fl~~~~~~~~~~~~~~~~~~ 116 (174)
T PF01529_consen 59 PPRSHHCRVCNRCVLRFDHHCPWLGNCIGRRNH-----------RYFLLFLLYLCLYCLYFFILSLYYL 116 (174)
T ss_pred CCcceeccccccccccccccchhhccccccccH-----------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346899999999999999999999999998765 5677888777666666555444333
No 11
>COG5273 Uncharacterized protein containing DHHC-type Zn finger [General function prediction only]
Probab=90.47 E-value=1.4 Score=44.75 Aligned_cols=117 Identities=21% Similarity=0.271 Sum_probs=67.9
Q ss_pred ceeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhh-hhhccc--
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIR-RIMDAE-- 226 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~-~~~~~~-- 226 (443)
+.+.|.+|+.=-...-|||.-=||||-+--| |=+=.|++++.+..++.++....-...+. ...+..
T Consensus 122 RS~HC~~Cn~CV~k~DHHC~Wi~nCVG~~N~-----------r~F~~Fl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (309)
T COG5273 122 RSHHCSICNRCVLKFDHHCPWINNCVGFRNY-----------RFFYQFLLYTILVALVVLLSTAYYIAGIFSIRHDTSLA 190 (309)
T ss_pred CCccchhhcchhhccCccCcccccccCcchH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCChHHH
Confidence 6789999999999999999999999998655 66788888886655544443322211111 101100
Q ss_pred -hhhHHH--HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhCccchhhhhc
Q 013443 227 -YTTIWK--AMIKTPASIVLIIYTFIAMWFVGGLTAFHLYLISTNQTTYENFRY 277 (443)
Q Consensus 227 -~~~~~~--~~~~~~~~i~l~i~~~l~~~~v~~L~~~hlylI~~N~TT~E~~r~ 277 (443)
..-++. .+......+.+.++.+.....+..++.+..+.+.++.++-|....
T Consensus 191 ~~~li~~~~~~~~~~f~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~ 244 (309)
T COG5273 191 ICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLTTIEFIQISRGGSTLEFFPL 244 (309)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccceecccccch
Confidence 001111 111111111222223333344456677788888899988886654
No 12
>KOG0509 consensus Ankyrin repeat and DHHC-type Zn-finger domain containing proteins [General function prediction only]
Probab=90.41 E-value=0.24 Score=53.96 Aligned_cols=53 Identities=11% Similarity=-0.125 Sum_probs=46.6
Q ss_pred ceeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHH
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFS 203 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~ 203 (443)
-..+|.+|.+..+-+..+|..|-.|+..|++||+|+. ||+.+|-..|.+..+.
T Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~fw~~~~w~~-~i~~~~~~~~~~~~i~ 376 (600)
T KOG0509|consen 324 LTCLCATRKIVGFLLRPPLLSGFFLSTLFWFYYFWFS-KITPYTLFDFHYCFII 376 (600)
T ss_pred hheeccchhhccccccchhHHHHHHHHHHHHHHhhhe-eccchhhhhhHHHHHH
Confidence 4578999999999999999999999999999999999 9999998865544433
No 13
>PRK04136 rpl40e 50S ribosomal protein L40e; Provisional
Probab=60.06 E-value=5.2 Score=29.46 Aligned_cols=24 Identities=29% Similarity=0.635 Sum_probs=21.7
Q ss_pred ceeeccccccccCCCCccCCcCCc
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNN 173 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~ 173 (443)
..+.|..|...-|+|+..|+.|+.
T Consensus 13 ~k~ICrkC~ARnp~~A~~CRKCg~ 36 (48)
T PRK04136 13 NKKICMRCNARNPWRATKCRKCGY 36 (48)
T ss_pred cccchhcccCCCCccccccccCCC
Confidence 357899999999999999999886
No 14
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=59.79 E-value=1.1e+02 Score=32.54 Aligned_cols=33 Identities=15% Similarity=0.352 Sum_probs=24.3
Q ss_pred ceeeccccccccCCCCccCCcCCcccccCCccC
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNNCVERFDHHC 182 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHC 182 (443)
...-|+.|...-|....||..|+.-..+..++.
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~~~~~~s 252 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGYVRRRNS 252 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCcCCCCCC
Confidence 356799999887777778888887776555543
No 15
>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=54.68 E-value=1.5e+02 Score=31.37 Aligned_cols=31 Identities=16% Similarity=0.449 Sum_probs=21.2
Q ss_pred eeecccccc-ccCCCCccCCcCCcccccCCcc
Q 013443 151 IKYCDTCML-YRPPRCSHCSICNNCVERFDHH 181 (443)
Q Consensus 151 ~kyC~tC~i-~RPpRs~HCs~C~~CV~rfDHH 181 (443)
..-|..|.. ..|....||..|+.-..+..++
T Consensus 215 ~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~~~ 246 (403)
T TIGR00155 215 LRSCSACHTTILPAQEPVCPRCSTPLYVRRRN 246 (403)
T ss_pred CCcCCCCCCccCCCCCcCCcCCCCcccCCCCC
Confidence 456999997 4555566788887776655544
No 16
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=53.65 E-value=6.9 Score=44.19 Aligned_cols=25 Identities=32% Similarity=0.412 Sum_probs=18.4
Q ss_pred CCCCccceeeeccC-cEEEcCCeEEe
Q 013443 17 RSGDLRVYQTWKGS-NIFFLQGRLIF 41 (443)
Q Consensus 17 ~~~~~r~yq~~~g~-n~F~c~GR~i~ 41 (443)
.-++.|+|.++.|. --|-++||++-
T Consensus 261 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 286 (1374)
T PTZ00303 261 GPPPRRNYSVHSGYSAAFHLCGRLFA 286 (1374)
T ss_pred CCCCCCCcccccchHHHHHHHHHHHH
Confidence 33667999999996 45668888653
No 17
>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=52.59 E-value=6.6 Score=29.88 Aligned_cols=35 Identities=34% Similarity=0.962 Sum_probs=26.2
Q ss_pred ccccccccCCCC-------ccCCcCCcccccC-CccCccccceeec
Q 013443 154 CDTCMLYRPPRC-------SHCSICNNCVERF-DHHCPWVGQCIGL 191 (443)
Q Consensus 154 C~tC~i~RPpRs-------~HCs~C~~CV~rf-DHHCpWv~nCIG~ 191 (443)
|..|..--|+-+ +-|..|..|++.+ +++|| ||=|.
T Consensus 8 CE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CP---NCgGe 50 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCP---NCGGE 50 (57)
T ss_pred ccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCc---CCCCc
Confidence 666666555544 6788999999987 99999 66654
No 18
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=52.03 E-value=8 Score=23.98 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=17.1
Q ss_pred eccccccccCCCCccCCcCCc
Q 013443 153 YCDTCMLYRPPRCSHCSICNN 173 (443)
Q Consensus 153 yC~tC~i~RPpRs~HCs~C~~ 173 (443)
||..|...-++.+..|..|+.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 688888888888888888874
No 19
>PHA02680 ORF090 IMV phosphorylated membrane protein; Provisional
Probab=50.99 E-value=74 Score=26.45 Aligned_cols=24 Identities=25% Similarity=0.510 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHhCccchhhhh
Q 013443 253 FVGGLTAFHLYLISTNQTTYENFR 276 (443)
Q Consensus 253 ~v~~L~~~hlylI~~N~TT~E~~r 276 (443)
.+.++++|..|-=|+..++.|.++
T Consensus 59 l~lGilifs~y~~C~~~~~~~r~n 82 (91)
T PHA02680 59 LLLGLFVFSMYRKCSGSMPYERLN 82 (91)
T ss_pred HHHHHHHHHHhcccCCCceeeccc
Confidence 344677888887777777776553
No 20
>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=50.71 E-value=1.5e+02 Score=31.34 Aligned_cols=32 Identities=16% Similarity=0.346 Sum_probs=19.6
Q ss_pred eeecccccccc--CC----CCccCCcCCcccccCCccC
Q 013443 151 IKYCDTCMLYR--PP----RCSHCSICNNCVERFDHHC 182 (443)
Q Consensus 151 ~kyC~tC~i~R--Pp----Rs~HCs~C~~CV~rfDHHC 182 (443)
..-|..|...- |+ ..-||..|+.-..+.+++.
T Consensus 13 ~~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~~~ 50 (403)
T TIGR00155 13 HILCSQCDMLVALPRIESGQKAACPRCGTTLTVGWDWS 50 (403)
T ss_pred eeeCCCCCCcccccCCCCCCeeECCCCCCCCcCCCCCC
Confidence 34599997322 22 3346888887776665543
No 21
>KOG1398 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.47 E-value=45 Score=35.07 Aligned_cols=24 Identities=42% Similarity=0.869 Sum_probs=18.1
Q ss_pred CCCCccCCcCCcccccCCccCccccceeec
Q 013443 162 PPRCSHCSICNNCVERFDHHCPWVGQCIGL 191 (443)
Q Consensus 162 PpRs~HCs~C~~CV~rfDHHCpWv~nCIG~ 191 (443)
-.|.+||-.|+ .+|| +|+.||||.
T Consensus 11 l~~p~l~~tC~----e~~h--~w~~~c~ga 34 (460)
T KOG1398|consen 11 LARPSLAETCD----EADH--SWVANCIGA 34 (460)
T ss_pred hcCchHhhhhh----hccC--CcccchhHH
Confidence 34567777776 4777 699999996
No 22
>KOG1314 consensus DHHC-type Zn-finger protein [General function prediction only]
Probab=43.41 E-value=4.1e+02 Score=27.84 Aligned_cols=43 Identities=26% Similarity=0.494 Sum_probs=33.2
Q ss_pred ceeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHH
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFS 203 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~ 203 (443)
+...|++|+.---.=-|||.--|+||--..| --+-+|++|.+.
T Consensus 104 RSHHCrkCnrCvmkMDHHCPWinnCVG~aNh-----------~~F~~FLlf~iv 146 (414)
T KOG1314|consen 104 RSHHCRKCNRCVMKMDHHCPWINNCVGWANH-----------AYFLRFLLFSIV 146 (414)
T ss_pred ccccchHHHHHHHhhccCCcchhhccccccc-----------HHHHHHHHHHHH
Confidence 3467888886666667999999999976555 346788888877
No 23
>KOG1313 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=41.50 E-value=1.6e+02 Score=29.68 Aligned_cols=136 Identities=20% Similarity=0.322 Sum_probs=77.2
Q ss_pred ceeeccccccccCCCCccCCcCCcccccCCccCccccceeeccchHHHHHHHHHHHHHHHHHHHHHHHhhhhh-------
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNNCVERFDHHCPWVGQCIGLRNYRFFFMFVFSTTLLCIYVFAFCWVYIRRI------- 222 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~CV~rfDHHCpWv~nCIG~rNyr~F~lFL~~~~l~~~~~~~~~~~~i~~~------- 222 (443)
+...|++|+.---.=-|||.-=|+||--..| |=+-.|+.++..++.++.+.....|..+...
T Consensus 115 rTHHCsiC~kCVL~MDHHCPwinnCVG~~NH-----------ryFFlFl~~ltlat~~~~i~~~~~w~~~le~~~~~tay 183 (309)
T KOG1313|consen 115 RTHHCSICNKCVLKMDHHCPWINNCVGAHNH-----------RYFFLFLFYLTLATSYAAIMCVYTWIDHLEPIEEITAY 183 (309)
T ss_pred CcchhhHHhhHhhccccCCchhhcccccccc-----------hhHHHHHHHHHHHHHHHHHHHHHHHHHhcchHhhcccc
Confidence 3456888876555567999999999998776 6678899999888777776655444332210
Q ss_pred -------------h-ccch---hhHHHHhhhcchhHHHHHHHHHHHH-----HHHHHHHHHHHHHHhCccchhhhhcccC
Q 013443 223 -------------M-DAEY---TTIWKAMIKTPASIVLIIYTFIAMW-----FVGGLTAFHLYLISTNQTTYENFRYRYD 280 (443)
Q Consensus 223 -------------~-~~~~---~~~~~~~~~~~~~i~l~i~~~l~~~-----~v~~L~~~hlylI~~N~TT~E~~r~~~~ 280 (443)
. ..+. .+....+. ....++++.+.+.+| .++...+-++.++...+++.-..| .
T Consensus 184 ~~d~~h~~Pp~~i~r~~~~i~~t~~~~~~f--ls~~~lv~vg~l~~W~~vlI~~G~tsi~~~~~~~e~k~~~a~~R---~ 258 (309)
T KOG1313|consen 184 ASDVAHVAPPPSILRVYKNITRTSIANLWF--LSVRVLVAVGLLTAWHAVLISRGETSIEQLINIKERKRYLAHLR---S 258 (309)
T ss_pred cCcccccCCChhhhhhhhhhhHHHHHHHHH--HHHHHHHHHHHHHHHhheeeehhhhhHHHHHHHHHhHhHHHhcc---C
Confidence 0 0011 11111111 112223332333333 233444445555666666554444 2
Q ss_pred CCCCCCChhHHHHHHHhcCCC
Q 013443 281 RRANPYNKGVVDNFKEIFCSS 301 (443)
Q Consensus 281 ~~~npy~~G~~~N~~evfg~~ 301 (443)
...|-=-+--|+|+..++..+
T Consensus 259 ~~~n~g~k~nWr~fLg~~~~r 279 (309)
T KOG1313|consen 259 NPTNFGGKANWRNFLGLFRGR 279 (309)
T ss_pred CCcccchHHHHHHhhccccCC
Confidence 344444555688999999888
No 24
>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=38.22 E-value=14 Score=23.96 Aligned_cols=22 Identities=27% Similarity=0.747 Sum_probs=16.2
Q ss_pred eeccccccccCCCCccCCcCCc
Q 013443 152 KYCDTCMLYRPPRCSHCSICNN 173 (443)
Q Consensus 152 kyC~tC~i~RPpRs~HCs~C~~ 173 (443)
-.|.+|...-+++..+|..|+.
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 3588999999999999988873
No 25
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=38.21 E-value=17 Score=23.05 Aligned_cols=22 Identities=23% Similarity=0.674 Sum_probs=17.3
Q ss_pred eeccccccccCCCCccCCcCCc
Q 013443 152 KYCDTCMLYRPPRCSHCSICNN 173 (443)
Q Consensus 152 kyC~tC~i~RPpRs~HCs~C~~ 173 (443)
++|..|...-++-+..|..|+.
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 5788888877888888888763
No 26
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=35.98 E-value=13 Score=24.20 Aligned_cols=22 Identities=27% Similarity=0.421 Sum_probs=9.3
Q ss_pred eeccccccccCC-CCccCCcCCc
Q 013443 152 KYCDTCMLYRPP-RCSHCSICNN 173 (443)
Q Consensus 152 kyC~tC~i~RPp-Rs~HCs~C~~ 173 (443)
+.|..|+..... ..++|..||-
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~Cdf 23 (30)
T PF07649_consen 1 FRCDACGKPIDGGWFYRCSECDF 23 (30)
T ss_dssp ---TTTS----S--EEE-TTT--
T ss_pred CcCCcCCCcCCCCceEECccCCC
Confidence 358888877776 7889988874
No 27
>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=34.31 E-value=26 Score=26.30 Aligned_cols=24 Identities=29% Similarity=0.815 Sum_probs=16.5
Q ss_pred eeeccccccccCCCCccCCc--CCcc
Q 013443 151 IKYCDTCMLYRPPRCSHCSI--CNNC 174 (443)
Q Consensus 151 ~kyC~tC~i~RPpRs~HCs~--C~~C 174 (443)
.+.|..|...-|||+..|+. ||.+
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 47899999999999999998 8765
No 28
>PF12773 DZR: Double zinc ribbon
Probab=32.27 E-value=31 Score=24.78 Aligned_cols=34 Identities=24% Similarity=0.475 Sum_probs=22.1
Q ss_pred eeeccccccccC---CCCccCCcCCcccccCCccCcc
Q 013443 151 IKYCDTCMLYRP---PRCSHCSICNNCVERFDHHCPW 184 (443)
Q Consensus 151 ~kyC~tC~i~RP---pRs~HCs~C~~CV~rfDHHCpW 184 (443)
.+||..|...-+ .....|..|+.=+...+.+|+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~~~fC~~ 48 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENPPNAKFCPN 48 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCcCCcCccCc
Confidence 467777766655 2356677777766666666654
No 29
>KOG1315 consensus Predicted DHHC-type Zn-finger protein [General function prediction only]
Probab=32.08 E-value=3e+02 Score=28.12 Aligned_cols=50 Identities=18% Similarity=0.366 Sum_probs=37.5
Q ss_pred CCccCCcCCcccccCCccCccccceeeccch-----------HHHHHHHHHHHHHHHHHHH
Q 013443 164 RCSHCSICNNCVERFDHHCPWVGQCIGLRNY-----------RFFFMFVFSTTLLCIYVFA 213 (443)
Q Consensus 164 Rs~HCs~C~~CV~rfDHHCpWv~nCIG~rNy-----------r~F~lFL~~~~l~~~~~~~ 213 (443)
+..-|..|+.-.-..-|||.--+.||.+.-| +-+=.|+++.....++.+.
T Consensus 108 ~~R~C~kC~~iKPdRaHHCsvC~rCvLKmDHHCpWi~nCVgf~NyKfF~lfl~y~~l~~~~ 168 (307)
T KOG1315|consen 108 AVRYCDKCKCIKPDRAHHCSVCNRCVLKMDHHCPWINNCVGFRNYKFFLLFLFYTNLYSIY 168 (307)
T ss_pred CceeecccccccCCccccchhhhhhhhccccCCcceeceecccchHHHHHHHHHHHHHHHH
Confidence 5668999998888999999999999998744 4555677666555554443
No 30
>PF11014 DUF2852: Protein of unknown function (DUF2852); InterPro: IPR021273 This bacterial family of proteins has no known function.
Probab=31.99 E-value=71 Score=27.93 Aligned_cols=21 Identities=33% Similarity=0.637 Sum_probs=17.1
Q ss_pred cchhHHHHHHHHHHHHHHHHH
Q 013443 237 TPASIVLIIYTFIAMWFVGGL 257 (443)
Q Consensus 237 ~~~~i~l~i~~~l~~~~v~~L 257 (443)
.|+.|+++|++|+.+|.+|..
T Consensus 8 ~~a~Ia~mVlGFi~fWPlGla 28 (115)
T PF11014_consen 8 KPAWIAAMVLGFIVFWPLGLA 28 (115)
T ss_pred chHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999988743
No 31
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=30.62 E-value=2.8e+02 Score=24.83 Aligned_cols=17 Identities=35% Similarity=0.864 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 013443 196 FFFMFVFSTTLLCIYVF 212 (443)
Q Consensus 196 ~F~lFL~~~~l~~~~~~ 212 (443)
+.+++|++++++++|+.
T Consensus 23 ~~~~~l~~~~~~~~y~~ 39 (130)
T PF10864_consen 23 WQWLFLFSLFLFFIYFY 39 (130)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45556666655555543
No 32
>COG1552 RPL40A Ribosomal protein L40E [Translation, ribosomal structure and biogenesis]
Probab=30.43 E-value=11 Score=27.98 Aligned_cols=24 Identities=33% Similarity=0.874 Sum_probs=21.1
Q ss_pred ceeeccccccccCCCCccCCcCCc
Q 013443 150 KIKYCDTCMLYRPPRCSHCSICNN 173 (443)
Q Consensus 150 ~~kyC~tC~i~RPpRs~HCs~C~~ 173 (443)
..+.|..|...-|+|+-.|+.|+.
T Consensus 13 ~kkIC~rC~Arnp~~A~kCRkC~~ 36 (50)
T COG1552 13 NKKICRRCYARNPPRATKCRKCGY 36 (50)
T ss_pred hHHHHHHhcCCCCcchhHHhhccC
Confidence 347899999999999999998864
No 33
>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=30.33 E-value=26 Score=29.09 Aligned_cols=13 Identities=31% Similarity=0.851 Sum_probs=9.2
Q ss_pred CCccCccccceee
Q 013443 178 FDHHCPWVGQCIG 190 (443)
Q Consensus 178 fDHHCpWv~nCIG 190 (443)
+-.||||++.-..
T Consensus 54 Hr~~CPwv~~~~q 66 (91)
T PF08600_consen 54 HREYCPWVNPSTQ 66 (91)
T ss_pred ccccCCccCCccc
Confidence 3358999997553
No 34
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=29.10 E-value=16 Score=38.91 Aligned_cols=27 Identities=22% Similarity=0.686 Sum_probs=20.2
Q ss_pred ceeecccccccc--CCCCccCCcCCcccc
Q 013443 150 KIKYCDTCMLYR--PPRCSHCSICNNCVE 176 (443)
Q Consensus 150 ~~kyC~tC~i~R--PpRs~HCs~C~~CV~ 176 (443)
.+++|..|...= --|-|||+.||+-+-
T Consensus 179 ~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC 207 (505)
T KOG1842|consen 179 SVQFCPECANSFGLTRRRHHCRLCGRVMC 207 (505)
T ss_pred cccccccccchhhhHHHhhhhhhcchHHH
Confidence 358999997432 448999999998543
No 35
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=28.78 E-value=26 Score=34.32 Aligned_cols=12 Identities=33% Similarity=0.360 Sum_probs=9.7
Q ss_pred cccCCccCcccc
Q 013443 175 VERFDHHCPWVG 186 (443)
Q Consensus 175 V~rfDHHCpWv~ 186 (443)
..+.+|||||..
T Consensus 38 rsye~H~Cp~~~ 49 (250)
T KOG3183|consen 38 RSYESHHCPKGL 49 (250)
T ss_pred chHhhcCCCccc
Confidence 457899999975
No 36
>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=28.32 E-value=1.5e+02 Score=31.06 Aligned_cols=16 Identities=31% Similarity=0.981 Sum_probs=12.8
Q ss_pred CccCCcCCcccccCCccCcc
Q 013443 165 CSHCSICNNCVERFDHHCPW 184 (443)
Q Consensus 165 s~HCs~C~~CV~rfDHHCpW 184 (443)
+..|..|++| +|+||.
T Consensus 47 a~lChnC~~C----~~~CPy 62 (372)
T TIGR02484 47 AHLCHDCQSC----WHDCQY 62 (372)
T ss_pred HHHCcCcccc----cccCcC
Confidence 3678888888 579998
No 37
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=28.24 E-value=3.7e+02 Score=28.61 Aligned_cols=29 Identities=17% Similarity=0.416 Sum_probs=18.0
Q ss_pred eecccccccc--C----CCCccCCcCCcccccCCc
Q 013443 152 KYCDTCMLYR--P----PRCSHCSICNNCVERFDH 180 (443)
Q Consensus 152 kyC~tC~i~R--P----pRs~HCs~C~~CV~rfDH 180 (443)
.-|..|...- | ...-||..|+.-..+.++
T Consensus 11 ~~C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~~~ 45 (419)
T PRK15103 11 ILCPQCDMLVALPRLEHGQKAACPRCGTTLTVRWD 45 (419)
T ss_pred ccCCCCCceeecCCCCCCCeeECCCCCCCCcCCCC
Confidence 3499998532 2 234568888777665544
No 38
>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=27.24 E-value=35 Score=21.80 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=17.0
Q ss_pred eeccccccccCCCCccCCcCCc
Q 013443 152 KYCDTCMLYRPPRCSHCSICNN 173 (443)
Q Consensus 152 kyC~tC~i~RPpRs~HCs~C~~ 173 (443)
|.|..|...-|.-+.-|..||.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~ 22 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGY 22 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCC
Confidence 4688888888888888877763
No 39
>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=26.54 E-value=19 Score=27.70 Aligned_cols=26 Identities=27% Similarity=0.413 Sum_probs=12.6
Q ss_pred eeeccccccc--cCCCCccCCcCCcccc
Q 013443 151 IKYCDTCMLY--RPPRCSHCSICNNCVE 176 (443)
Q Consensus 151 ~kyC~tC~i~--RPpRs~HCs~C~~CV~ 176 (443)
.+.|..|... ---|-|||+.||..|=
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVC 36 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEEC
Confidence 4678777632 2368999999998654
No 40
>cd00546 QFR_TypeD_subunitC Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine oxidoreductase (SQR). QFRs oxidize low potential quinols such as menaquinol and are involved in anaerobic respiration with fumarate as the terminal electron acceptor. SQR and QFR share a common subunit arrangement, composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type D as they contain two transmembrane subunits (C and D) and no heme groups. The structural arrangement allows efficient electron transfer between the catalytic subunit, through iron-sulfur centers, and the transmembrane subunit containing the electron donor (quinol). The quinone binding site resides in the transmembrane subunits.
Probab=26.45 E-value=3.6e+02 Score=23.96 Aligned_cols=20 Identities=15% Similarity=0.366 Sum_probs=11.7
Q ss_pred HHHHhhhcchhHHHHHHHHH
Q 013443 230 IWKAMIKTPASIVLIIYTFI 249 (443)
Q Consensus 230 ~~~~~~~~~~~i~l~i~~~l 249 (443)
-|..++++|..+++=+.+++
T Consensus 55 ~f~~flqnPiv~~lniiaL~ 74 (124)
T cd00546 55 GFVSFLQNPIVVLLNIIALA 74 (124)
T ss_pred HHHHHHhCcHHHHHHHHHHH
Confidence 45566778866655544443
No 41
>PHA02898 virion envelope protein; Provisional
Probab=25.85 E-value=2.7e+02 Score=23.30 Aligned_cols=26 Identities=31% Similarity=0.358 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHH-HHhCccchhhhhc
Q 013443 252 WFVGGLTAFHLYL-ISTNQTTYENFRY 277 (443)
Q Consensus 252 ~~v~~L~~~hlyl-I~~N~TT~E~~r~ 277 (443)
+.+.++++|..|- -|+..++.|.-|+
T Consensus 57 vl~lG~~ifs~y~r~C~~~~~~e~~ry 83 (92)
T PHA02898 57 ILILGIIFFKGYNMFCGGNTTDEVSRY 83 (92)
T ss_pred HHHHHHHHHHHHhhhcCCCccccccee
Confidence 3455777888887 5677777775443
No 42
>PF14127 DUF4294: Domain of unknown function (DUF4294)
Probab=25.58 E-value=51 Score=30.39 Aligned_cols=38 Identities=18% Similarity=0.219 Sum_probs=31.4
Q ss_pred HhCccchhhhhcccCCCCCCCChhHHHHHHHhcCCCCCCCcc
Q 013443 266 STNQTTYENFRYRYDRRANPYNKGVVDNFKEIFCSSIPPSKN 307 (443)
Q Consensus 266 ~~N~TT~E~~r~~~~~~~npy~~G~~~N~~evfg~~~~ps~~ 307 (443)
-+|+|++|-+| .-.++|.-|+++.+..+||.+...-+.
T Consensus 103 etg~TsyelIK----~~rgg~~A~~~q~~A~~Fg~sLK~~Yd 140 (157)
T PF14127_consen 103 ETGSTSYELIK----ELRGGWRAFWYQTFAWLFGISLKKEYD 140 (157)
T ss_pred hcCCcHHHHHH----HhhCChhHHHHHHHHHHhCcccccCCC
Confidence 47999999987 356899999999999999987655443
No 43
>PRK13603 fumarate reductase subunit C; Provisional
Probab=25.45 E-value=3.8e+02 Score=23.82 Aligned_cols=20 Identities=15% Similarity=0.267 Sum_probs=11.5
Q ss_pred HHHHhhhcchhHHHHHHHHH
Q 013443 230 IWKAMIKTPASIVLIIYTFI 249 (443)
Q Consensus 230 ~~~~~~~~~~~i~l~i~~~l 249 (443)
-|..++++|..+++=+.+++
T Consensus 55 ~f~~flqnPivv~lniiaL~ 74 (126)
T PRK13603 55 RFLDFSANPVVVVLNVVALS 74 (126)
T ss_pred HHHHHHhCcHHHHHHHHHHH
Confidence 34566778866655444443
No 44
>PRK04987 fumarate reductase subunit C; Provisional
Probab=25.08 E-value=3.8e+02 Score=23.98 Aligned_cols=21 Identities=19% Similarity=0.409 Sum_probs=11.9
Q ss_pred hHHHHhhhcchhHHHHHHHHH
Q 013443 229 TIWKAMIKTPASIVLIIYTFI 249 (443)
Q Consensus 229 ~~~~~~~~~~~~i~l~i~~~l 249 (443)
+-|..++++|..+++=+.+++
T Consensus 58 ~~f~~flqnPiv~~lniiaL~ 78 (130)
T PRK04987 58 AGFVSFLQNPIVVILNIITLA 78 (130)
T ss_pred HHHHHHHhCcHHHHHHHHHHH
Confidence 345566778866655444433
No 45
>COG5249 RER1 Golgi protein involved in Golgi-to-ER retrieval [Intracellular trafficking and secretion]
Probab=22.39 E-value=6.1e+02 Score=23.25 Aligned_cols=10 Identities=40% Similarity=0.743 Sum_probs=7.3
Q ss_pred CCCCCChhHH
Q 013443 282 RANPYNKGVV 291 (443)
Q Consensus 282 ~~npy~~G~~ 291 (443)
+.|||+.|..
T Consensus 166 rY~PfdigKk 175 (180)
T COG5249 166 RYNPFDIGKK 175 (180)
T ss_pred cCCchhhhhh
Confidence 3589998853
Done!